-- dump date 20140619_091738 -- class Genbank::misc_feature -- table misc_feature_note -- id note 515620000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 515620000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 515620000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620000004 Walker A motif; other site 515620000005 ATP binding site [chemical binding]; other site 515620000006 Walker B motif; other site 515620000007 arginine finger; other site 515620000008 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 515620000009 DnaA box-binding interface [nucleotide binding]; other site 515620000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 515620000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 515620000012 putative DNA binding surface [nucleotide binding]; other site 515620000013 dimer interface [polypeptide binding]; other site 515620000014 beta-clamp/clamp loader binding surface; other site 515620000015 beta-clamp/translesion DNA polymerase binding surface; other site 515620000016 S4 domain; Region: S4_2; pfam13275 515620000017 recombination protein F; Reviewed; Region: recF; PRK00064 515620000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 515620000019 Walker A/P-loop; other site 515620000020 ATP binding site [chemical binding]; other site 515620000021 Q-loop/lid; other site 515620000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620000023 ABC transporter signature motif; other site 515620000024 Walker B; other site 515620000025 D-loop; other site 515620000026 H-loop/switch region; other site 515620000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 515620000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620000029 Mg2+ binding site [ion binding]; other site 515620000030 G-X-G motif; other site 515620000031 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 515620000032 anchoring element; other site 515620000033 dimer interface [polypeptide binding]; other site 515620000034 ATP binding site [chemical binding]; other site 515620000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 515620000036 active site 515620000037 putative metal-binding site [ion binding]; other site 515620000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 515620000039 DNA gyrase subunit A; Validated; Region: PRK05560 515620000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 515620000041 CAP-like domain; other site 515620000042 active site 515620000043 primary dimer interface [polypeptide binding]; other site 515620000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620000050 Putative esterase; Region: Esterase; pfam00756 515620000051 Putative esterase; Region: Esterase; pfam00756 515620000052 S-formylglutathione hydrolase; Region: PLN02442 515620000053 fumarate hydratase; Provisional; Region: PRK06246 515620000054 Fumarase C-terminus; Region: Fumerase_C; cl00795 515620000055 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 515620000056 metal ion-dependent adhesion site (MIDAS); other site 515620000057 major cell surface glycoprotein; Region: halo_surf_glyco; TIGR04216 515620000058 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 515620000059 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 515620000060 active site 515620000061 substrate binding site [chemical binding]; other site 515620000062 trimer interface [polypeptide binding]; other site 515620000063 CoA binding site [chemical binding]; other site 515620000064 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 515620000065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 515620000066 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 515620000067 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 515620000068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620000069 catalytic residue [active] 515620000070 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 515620000071 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 515620000072 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 515620000073 active site 515620000074 Protein of unknown function (DUF327); Region: DUF327; pfam03885 515620000075 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 515620000076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620000077 Walker A motif; other site 515620000078 ATP binding site [chemical binding]; other site 515620000079 Walker B motif; other site 515620000080 arginine finger; other site 515620000081 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 515620000082 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 515620000083 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 515620000084 S-adenosylmethionine binding site [chemical binding]; other site 515620000085 Predicted methyltransferases [General function prediction only]; Region: COG0313 515620000086 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 515620000087 putative SAM binding site [chemical binding]; other site 515620000088 putative homodimer interface [polypeptide binding]; other site 515620000089 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620000090 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 515620000091 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 515620000092 Predicted membrane protein [Function unknown]; Region: COG1511 515620000093 AAA domain; Region: AAA_22; pfam13401 515620000094 AAA domain; Region: AAA_14; pfam13173 515620000095 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 515620000096 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620000097 MarR family; Region: MarR_2; pfam12802 515620000098 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 515620000099 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 515620000100 substrate binding site [chemical binding]; other site 515620000101 ATP binding site [chemical binding]; other site 515620000102 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 515620000103 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 515620000104 transmembrane helices; other site 515620000105 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 515620000106 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 515620000107 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 515620000108 HIGH motif; other site 515620000109 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 515620000110 active site 515620000111 KMSKS motif; other site 515620000112 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 515620000113 tRNA binding surface [nucleotide binding]; other site 515620000114 anticodon binding site; other site 515620000115 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 515620000116 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 515620000117 homodimer interface [polypeptide binding]; other site 515620000118 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 515620000119 active site pocket [active] 515620000120 Peptidase family M23; Region: Peptidase_M23; pfam01551 515620000121 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 515620000122 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 515620000123 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 515620000124 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 515620000125 putative ATP binding site [chemical binding]; other site 515620000126 putative substrate interface [chemical binding]; other site 515620000127 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 515620000128 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 515620000129 dimer interface [polypeptide binding]; other site 515620000130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620000131 catalytic residue [active] 515620000132 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 515620000133 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 515620000134 active site 515620000135 dimer interface [polypeptide binding]; other site 515620000136 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 515620000137 dimer interface [polypeptide binding]; other site 515620000138 active site 515620000139 Rubredoxin; Region: Rubredoxin; pfam00301 515620000140 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 515620000141 iron binding site [ion binding]; other site 515620000142 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 515620000143 Rubrerythrin [Energy production and conversion]; Region: COG1592 515620000144 diiron binding motif [ion binding]; other site 515620000145 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 515620000146 metal binding site 2 [ion binding]; metal-binding site 515620000147 putative DNA binding helix; other site 515620000148 metal binding site 1 [ion binding]; metal-binding site 515620000149 dimer interface [polypeptide binding]; other site 515620000150 structural Zn2+ binding site [ion binding]; other site 515620000151 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 515620000152 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 515620000153 active site 515620000154 homodimer interface [polypeptide binding]; other site 515620000155 Radical SAM superfamily; Region: Radical_SAM; pfam04055 515620000156 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 515620000157 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 515620000158 TSCPD domain; Region: TSCPD; cl14834 515620000159 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 515620000160 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 515620000161 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 515620000162 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 515620000163 putative ligand binding site [chemical binding]; other site 515620000164 putative NAD binding site [chemical binding]; other site 515620000165 catalytic site [active] 515620000166 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 515620000167 putative active site [active] 515620000168 dimerization interface [polypeptide binding]; other site 515620000169 putative tRNAtyr binding site [nucleotide binding]; other site 515620000170 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 515620000171 active site 515620000172 ADP/pyrophosphate binding site [chemical binding]; other site 515620000173 allosteric effector site; other site 515620000174 dimerization interface [polypeptide binding]; other site 515620000175 fructose-1,6-bisphosphate binding site; other site 515620000176 MarR family; Region: MarR_2; cl17246 515620000177 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620000178 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620000179 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620000180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620000181 Walker A/P-loop; other site 515620000182 ATP binding site [chemical binding]; other site 515620000183 Q-loop/lid; other site 515620000184 ABC transporter signature motif; other site 515620000185 Walker B; other site 515620000186 D-loop; other site 515620000187 H-loop/switch region; other site 515620000188 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620000189 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620000190 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 515620000191 Walker A/P-loop; other site 515620000192 ATP binding site [chemical binding]; other site 515620000193 Q-loop/lid; other site 515620000194 ABC transporter signature motif; other site 515620000195 Walker B; other site 515620000196 D-loop; other site 515620000197 H-loop/switch region; other site 515620000198 6-phosphofructokinase; Provisional; Region: PRK14072 515620000199 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 515620000200 active site 515620000201 ADP/pyrophosphate binding site [chemical binding]; other site 515620000202 dimerization interface [polypeptide binding]; other site 515620000203 allosteric effector site; other site 515620000204 fructose-1,6-bisphosphate binding site; other site 515620000205 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 515620000206 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 515620000207 nudix motif; other site 515620000208 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 515620000209 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 515620000210 G5 domain; Region: G5; pfam07501 515620000211 Peptidase family M23; Region: Peptidase_M23; pfam01551 515620000212 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 515620000213 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 515620000214 hinge; other site 515620000215 active site 515620000216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620000217 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620000218 dimerization interface [polypeptide binding]; other site 515620000219 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620000220 dimer interface [polypeptide binding]; other site 515620000221 phosphorylation site [posttranslational modification] 515620000222 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620000223 ATP binding site [chemical binding]; other site 515620000224 Mg2+ binding site [ion binding]; other site 515620000225 G-X-G motif; other site 515620000226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620000227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620000228 active site 515620000229 phosphorylation site [posttranslational modification] 515620000230 intermolecular recognition site; other site 515620000231 dimerization interface [polypeptide binding]; other site 515620000232 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620000233 DNA binding site [nucleotide binding] 515620000234 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 515620000235 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 515620000236 active site 515620000237 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 515620000238 prolyl-tRNA synthetase; Provisional; Region: PRK08661 515620000239 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 515620000240 dimer interface [polypeptide binding]; other site 515620000241 motif 1; other site 515620000242 active site 515620000243 motif 2; other site 515620000244 motif 3; other site 515620000245 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 515620000246 anticodon binding site; other site 515620000247 zinc-binding site [ion binding]; other site 515620000248 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 515620000249 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 515620000250 active site 515620000251 NTP binding site [chemical binding]; other site 515620000252 metal binding triad [ion binding]; metal-binding site 515620000253 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 515620000254 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 515620000255 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 515620000256 PEGA domain; Region: PEGA; pfam08308 515620000257 PEGA domain; Region: PEGA; pfam08308 515620000258 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 515620000259 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 515620000260 inhibitor-cofactor binding pocket; inhibition site 515620000261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620000262 catalytic residue [active] 515620000263 Bacterial sugar transferase; Region: Bac_transf; pfam02397 515620000264 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 515620000265 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 515620000266 Ligand binding site; other site 515620000267 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 515620000268 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 515620000269 NAD(P) binding site [chemical binding]; other site 515620000270 homodimer interface [polypeptide binding]; other site 515620000271 substrate binding site [chemical binding]; other site 515620000272 active site 515620000273 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 515620000274 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 515620000275 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 515620000276 NADP binding site [chemical binding]; other site 515620000277 active site 515620000278 putative substrate binding site [chemical binding]; other site 515620000279 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 515620000280 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 515620000281 NAD binding site [chemical binding]; other site 515620000282 substrate binding site [chemical binding]; other site 515620000283 homodimer interface [polypeptide binding]; other site 515620000284 active site 515620000285 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 515620000286 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 515620000287 substrate binding site; other site 515620000288 tetramer interface; other site 515620000289 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 515620000290 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 515620000291 DNA binding residues [nucleotide binding] 515620000292 dimer interface [polypeptide binding]; other site 515620000293 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 515620000294 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 515620000295 S-adenosylmethionine binding site [chemical binding]; other site 515620000296 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 515620000297 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 515620000298 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 515620000299 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 515620000300 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 515620000301 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 515620000302 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 515620000303 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 515620000304 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 515620000305 Walker A/P-loop; other site 515620000306 ATP binding site [chemical binding]; other site 515620000307 Q-loop/lid; other site 515620000308 ABC transporter signature motif; other site 515620000309 Walker B; other site 515620000310 D-loop; other site 515620000311 H-loop/switch region; other site 515620000312 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 515620000313 putative carbohydrate binding site [chemical binding]; other site 515620000314 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 515620000315 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 515620000316 Probable Catalytic site; other site 515620000317 metal-binding site 515620000318 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 515620000319 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 515620000320 Probable Catalytic site; other site 515620000321 metal-binding site 515620000322 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 515620000323 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 515620000324 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 515620000325 Probable Catalytic site; other site 515620000326 metal-binding site 515620000327 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 515620000328 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 515620000329 Substrate binding site; other site 515620000330 Cupin domain; Region: Cupin_2; cl17218 515620000331 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 515620000332 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 515620000333 active site 515620000334 LicD family; Region: LicD; pfam04991 515620000335 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 515620000336 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 515620000337 LicD family; Region: LicD; cl01378 515620000338 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 515620000339 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 515620000340 Ligand binding site; other site 515620000341 Putative Catalytic site; other site 515620000342 DXD motif; other site 515620000343 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 515620000344 Sulfatase; Region: Sulfatase; cl17466 515620000345 amino acid transporter; Region: 2A0306; TIGR00909 515620000346 MarR family; Region: MarR_2; pfam12802 515620000347 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 515620000348 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 515620000349 active site 515620000350 metal-binding site 515620000351 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 515620000352 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 515620000353 active site 515620000354 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 515620000355 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 515620000356 active site 515620000357 metal-binding site 515620000358 Phosphotransferase enzyme family; Region: APH; pfam01636 515620000359 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 515620000360 active site 515620000361 substrate binding site [chemical binding]; other site 515620000362 ATP binding site [chemical binding]; other site 515620000363 dimer interface [polypeptide binding]; other site 515620000364 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 515620000365 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 515620000366 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 515620000367 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 515620000368 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 515620000369 active site 515620000370 metal-binding site 515620000371 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 515620000372 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 515620000373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620000374 homodimer interface [polypeptide binding]; other site 515620000375 catalytic residue [active] 515620000376 GtrA-like protein; Region: GtrA; pfam04138 515620000377 Predicted membrane protein [Function unknown]; Region: COG2246 515620000378 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 515620000379 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 515620000380 acyl-activating enzyme (AAE) consensus motif; other site 515620000381 AMP binding site [chemical binding]; other site 515620000382 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 515620000383 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 515620000384 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 515620000385 catalytic residue [active] 515620000386 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 515620000387 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 515620000388 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 515620000389 Interdomain contacts; other site 515620000390 Cytokine receptor motif; other site 515620000391 Right handed beta helix region; Region: Beta_helix; pfam13229 515620000392 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 515620000393 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 515620000394 active site 515620000395 Pectate lyase; Region: Pec_lyase_C; cl01593 515620000396 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 515620000397 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 515620000398 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 515620000399 putative ADP-binding pocket [chemical binding]; other site 515620000400 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 515620000401 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 515620000402 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 515620000403 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 515620000404 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 515620000405 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 515620000406 UDP-galactopyranose mutase; Region: GLF; pfam03275 515620000407 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 515620000408 active site 515620000409 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 515620000410 Acyltransferase family; Region: Acyl_transf_3; pfam01757 515620000411 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 515620000412 Bacterial sugar transferase; Region: Bac_transf; pfam02397 515620000413 Transcriptional regulator [Transcription]; Region: LytR; COG1316 515620000414 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 515620000415 Predicted transcriptional regulators [Transcription]; Region: COG1725 515620000416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620000417 DNA-binding site [nucleotide binding]; DNA binding site 515620000418 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620000419 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620000420 Walker A/P-loop; other site 515620000421 ATP binding site [chemical binding]; other site 515620000422 Q-loop/lid; other site 515620000423 ABC transporter signature motif; other site 515620000424 Walker B; other site 515620000425 D-loop; other site 515620000426 H-loop/switch region; other site 515620000427 SecA DEAD-like domain; Region: SecA_DEAD; smart00957 515620000428 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 515620000429 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 515620000430 Ligand binding site; other site 515620000431 Putative Catalytic site; other site 515620000432 DXD motif; other site 515620000433 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 515620000434 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 515620000435 active site 515620000436 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 515620000437 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 515620000438 active site 515620000439 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 515620000440 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 515620000441 active site 515620000442 Cupin domain; Region: Cupin_2; cl17218 515620000443 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 515620000444 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 515620000445 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 515620000446 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 515620000447 Ligand binding site; other site 515620000448 Putative Catalytic site; other site 515620000449 DXD motif; other site 515620000450 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 515620000451 UDP-glucose 4-epimerase; Region: PLN02240 515620000452 NAD binding site [chemical binding]; other site 515620000453 homodimer interface [polypeptide binding]; other site 515620000454 active site 515620000455 substrate binding site [chemical binding]; other site 515620000456 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 515620000457 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 515620000458 active site 515620000459 substrate binding site [chemical binding]; other site 515620000460 metal binding site [ion binding]; metal-binding site 515620000461 PrcB C-terminal; Region: PrcB_C; pfam14343 515620000462 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 515620000463 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 515620000464 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 515620000465 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620000466 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620000467 Cupin domain; Region: Cupin_2; pfam07883 515620000468 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620000469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620000470 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 515620000471 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 515620000472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620000473 DNA-binding site [nucleotide binding]; DNA binding site 515620000474 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 515620000475 FCD domain; Region: FCD; pfam07729 515620000476 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 515620000477 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 515620000478 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 515620000479 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 515620000480 active site 515620000481 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 515620000482 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 515620000483 putative acyl-acceptor binding pocket; other site 515620000484 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 515620000485 ApbE family; Region: ApbE; pfam02424 515620000486 trigger factor; Region: tig; TIGR00115 515620000487 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 515620000488 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 515620000489 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 515620000490 putative transporter; Provisional; Region: PRK11660 515620000491 Sulfate transporter family; Region: Sulfate_transp; pfam00916 515620000492 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 515620000493 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620000494 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 515620000495 S-adenosylmethionine synthetase; Validated; Region: PRK05250 515620000496 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 515620000497 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 515620000498 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 515620000499 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 515620000500 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620000501 Zn2+ binding site [ion binding]; other site 515620000502 Mg2+ binding site [ion binding]; other site 515620000503 Stage III sporulation protein D; Region: SpoIIID; pfam12116 515620000504 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 515620000505 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 515620000506 Na binding site [ion binding]; other site 515620000507 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 515620000508 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 515620000509 Uncharacterized conserved protein [Function unknown]; Region: COG1284 515620000510 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 515620000511 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 515620000512 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 515620000513 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 515620000514 DNA binding residues [nucleotide binding] 515620000515 putative dimer interface [polypeptide binding]; other site 515620000516 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 515620000517 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 515620000518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620000519 homodimer interface [polypeptide binding]; other site 515620000520 catalytic residue [active] 515620000521 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 515620000522 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 515620000523 putative ligand binding site [chemical binding]; other site 515620000524 putative NAD binding site [chemical binding]; other site 515620000525 catalytic site [active] 515620000526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620000527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620000528 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 515620000529 dimerization interface [polypeptide binding]; other site 515620000530 Membrane transport protein; Region: Mem_trans; cl09117 515620000531 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 515620000532 Na2 binding site [ion binding]; other site 515620000533 putative substrate binding site 1 [chemical binding]; other site 515620000534 Na binding site 1 [ion binding]; other site 515620000535 putative substrate binding site 2 [chemical binding]; other site 515620000536 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 515620000537 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 515620000538 catalytic tetrad [active] 515620000539 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620000540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620000541 active site 515620000542 phosphorylation site [posttranslational modification] 515620000543 intermolecular recognition site; other site 515620000544 dimerization interface [polypeptide binding]; other site 515620000545 LytTr DNA-binding domain; Region: LytTR; smart00850 515620000546 Histidine kinase-like ATPases; This family includes several ATP-binding 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 515620000547 ATP binding site [chemical binding]; other site 515620000548 Mg2+ binding site [ion binding]; other site 515620000549 G-X-G motif; other site 515620000550 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 515620000551 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 515620000552 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 515620000553 Predicted transcriptional regulators [Transcription]; Region: COG1733 515620000554 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 515620000555 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 515620000556 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 515620000557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 515620000558 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620000559 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 515620000560 catalytic loop [active] 515620000561 iron binding site [ion binding]; other site 515620000562 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 515620000563 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 515620000564 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 515620000565 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 515620000566 Transposase, Mutator family; Region: Transposase_mut; pfam00872 515620000567 MULE transposase domain; Region: MULE; pfam10551 515620000568 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 515620000569 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 515620000570 metal binding site [ion binding]; metal-binding site 515620000571 dimer interface [polypeptide binding]; other site 515620000572 Protein of unknown function (DUF819); Region: DUF819; cl02317 515620000573 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 515620000574 FRG domain; Region: FRG; cl07460 515620000575 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 515620000576 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 515620000577 non-specific DNA binding site [nucleotide binding]; other site 515620000578 salt bridge; other site 515620000579 sequence-specific DNA binding site [nucleotide binding]; other site 515620000580 Domain of unknown function (DUF955); Region: DUF955; cl01076 515620000581 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620000582 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620000583 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 515620000584 non-specific DNA binding site [nucleotide binding]; other site 515620000585 salt bridge; other site 515620000586 sequence-specific DNA binding site [nucleotide binding]; other site 515620000587 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620000588 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 515620000589 non-specific DNA binding site [nucleotide binding]; other site 515620000590 salt bridge; other site 515620000591 sequence-specific DNA binding site [nucleotide binding]; other site 515620000592 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 515620000593 active site 515620000594 DNA binding site [nucleotide binding] 515620000595 Int/Topo IB signature motif; other site 515620000596 Low molecular weight phosphatase family; Region: LMWPc; cl00105 515620000597 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 515620000598 rod shape-determining protein Mbl; Provisional; Region: PRK13928 515620000599 MreB and similar proteins; Region: MreB_like; cd10225 515620000600 nucleotide binding site [chemical binding]; other site 515620000601 Mg binding site [ion binding]; other site 515620000602 putative protofilament interaction site [polypeptide binding]; other site 515620000603 RodZ interaction site [polypeptide binding]; other site 515620000604 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 515620000605 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 515620000606 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 515620000607 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 515620000608 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 515620000609 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 515620000610 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 515620000611 AAA domain; Region: AAA_30; pfam13604 515620000612 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 515620000613 Family description; Region: UvrD_C_2; pfam13538 515620000614 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 515620000615 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620000616 active site 515620000617 flagellar operon protein TIGR03826; Region: YvyF 515620000618 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 515620000619 FlgN protein; Region: FlgN; pfam05130 515620000620 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 515620000621 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 515620000622 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 515620000623 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 515620000624 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 515620000625 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 515620000626 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 515620000627 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 515620000628 FliW protein; Region: FliW; cl00740 515620000629 Global regulator protein family; Region: CsrA; pfam02599 515620000630 FlaG protein; Region: FlaG; pfam03646 515620000631 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 515620000632 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 515620000633 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 515620000634 Flagellar protein FliS; Region: FliS; cl00654 515620000635 flagellin; Provisional; Region: PRK12804 515620000636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 515620000637 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 515620000638 LicD family; Region: LicD; pfam04991 515620000639 LicD family; Region: LicD; pfam04991 515620000640 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 515620000641 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 515620000642 FeS/SAM binding site; other site 515620000643 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 515620000644 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 515620000645 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 515620000646 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 515620000647 S-adenosylmethionine binding site [chemical binding]; other site 515620000648 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 515620000649 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 515620000650 active site 515620000651 homodimer interface [polypeptide binding]; other site 515620000652 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 515620000653 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 515620000654 active site 515620000655 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 515620000656 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 515620000657 Methyltransferase domain; Region: Methyltransf_23; pfam13489 515620000658 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 515620000659 S-adenosylmethionine binding site [chemical binding]; other site 515620000660 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 515620000661 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 515620000662 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 515620000663 LicD family; Region: LicD; pfam04991 515620000664 LicD family; Region: LicD; pfam04991 515620000665 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 515620000666 AAA ATPase domain; Region: AAA_16; pfam13191 515620000667 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 515620000668 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 515620000669 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 515620000670 substrate binding site [chemical binding]; other site 515620000671 hexamer interface [polypeptide binding]; other site 515620000672 metal binding site [ion binding]; metal-binding site 515620000673 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 515620000674 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 515620000675 substrate binding site; other site 515620000676 dimer interface; other site 515620000677 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 515620000678 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 515620000679 putative NAD(P) binding site [chemical binding]; other site 515620000680 catalytic Zn binding site [ion binding]; other site 515620000681 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 515620000682 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 515620000683 flagellin; Provisional; Region: PRK12804 515620000684 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 515620000685 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 515620000686 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 515620000687 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 515620000688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 515620000689 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620000690 Methyltransferase domain; Region: Methyltransf_23; pfam13489 515620000691 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 515620000692 S-adenosylmethionine binding site [chemical binding]; other site 515620000693 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 515620000694 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 515620000695 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620000696 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 515620000697 AMP-binding enzyme; Region: AMP-binding; pfam00501 515620000698 acyl-activating enzyme (AAE) consensus motif; other site 515620000699 active site 515620000700 AMP binding site [chemical binding]; other site 515620000701 CoA binding site [chemical binding]; other site 515620000702 LicD family; Region: LicD; pfam04991 515620000703 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 515620000704 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 515620000705 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 515620000706 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 515620000707 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 515620000708 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 515620000709 putative homodimer interface [polypeptide binding]; other site 515620000710 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 515620000711 heterodimer interface [polypeptide binding]; other site 515620000712 homodimer interface [polypeptide binding]; other site 515620000713 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 515620000714 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 515620000715 23S rRNA interface [nucleotide binding]; other site 515620000716 L7/L12 interface [polypeptide binding]; other site 515620000717 putative thiostrepton binding site; other site 515620000718 L25 interface [polypeptide binding]; other site 515620000719 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 515620000720 mRNA/rRNA interface [nucleotide binding]; other site 515620000721 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 515620000722 23S rRNA interface [nucleotide binding]; other site 515620000723 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 515620000724 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 515620000725 core dimer interface [polypeptide binding]; other site 515620000726 peripheral dimer interface [polypeptide binding]; other site 515620000727 L10 interface [polypeptide binding]; other site 515620000728 L11 interface [polypeptide binding]; other site 515620000729 putative EF-Tu interaction site [polypeptide binding]; other site 515620000730 putative EF-G interaction site [polypeptide binding]; other site 515620000731 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 515620000732 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 515620000733 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 515620000734 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 515620000735 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 515620000736 RPB1 interaction site [polypeptide binding]; other site 515620000737 RPB12 interaction site [polypeptide binding]; other site 515620000738 RPB10 interaction site [polypeptide binding]; other site 515620000739 RPB11 interaction site [polypeptide binding]; other site 515620000740 RPB3 interaction site [polypeptide binding]; other site 515620000741 RPB12 interaction site [polypeptide binding]; other site 515620000742 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 515620000743 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 515620000744 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 515620000745 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 515620000746 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 515620000747 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 515620000748 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 515620000749 G-loop; other site 515620000750 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 515620000751 DNA binding site [nucleotide binding] 515620000752 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 515620000753 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 515620000754 S17 interaction site [polypeptide binding]; other site 515620000755 S8 interaction site; other site 515620000756 16S rRNA interaction site [nucleotide binding]; other site 515620000757 streptomycin interaction site [chemical binding]; other site 515620000758 23S rRNA interaction site [nucleotide binding]; other site 515620000759 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 515620000760 30S ribosomal protein S7; Validated; Region: PRK05302 515620000761 elongation factor G; Reviewed; Region: PRK00007 515620000762 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 515620000763 G1 box; other site 515620000764 putative GEF interaction site [polypeptide binding]; other site 515620000765 GTP/Mg2+ binding site [chemical binding]; other site 515620000766 Switch I region; other site 515620000767 G2 box; other site 515620000768 G3 box; other site 515620000769 Switch II region; other site 515620000770 G4 box; other site 515620000771 G5 box; other site 515620000772 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 515620000773 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 515620000774 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 515620000775 elongation factor Tu; Reviewed; Region: PRK00049 515620000776 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 515620000777 G1 box; other site 515620000778 GEF interaction site [polypeptide binding]; other site 515620000779 GTP/Mg2+ binding site [chemical binding]; other site 515620000780 Switch I region; other site 515620000781 G2 box; other site 515620000782 G3 box; other site 515620000783 Switch II region; other site 515620000784 G4 box; other site 515620000785 G5 box; other site 515620000786 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 515620000787 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 515620000788 Antibiotic Binding Site [chemical binding]; other site 515620000789 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 515620000790 catalytic core [active] 515620000791 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 515620000792 putative active site [active] 515620000793 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620000794 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620000795 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 515620000796 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 515620000797 trimer interface [polypeptide binding]; other site 515620000798 Methyltransferase domain; Region: Methyltransf_26; pfam13659 515620000799 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 515620000800 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 515620000801 Sulfate transporter family; Region: Sulfate_transp; pfam00916 515620000802 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 515620000803 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 515620000804 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620000805 ABC transporter; Region: ABC_tran_2; pfam12848 515620000806 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620000807 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 515620000808 Double zinc ribbon; Region: DZR; pfam12773 515620000809 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 515620000810 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 515620000811 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 515620000812 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 515620000813 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 515620000814 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 515620000815 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 515620000816 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 515620000817 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 515620000818 protein-rRNA interface [nucleotide binding]; other site 515620000819 putative translocon binding site; other site 515620000820 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 515620000821 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 515620000822 G-X-X-G motif; other site 515620000823 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 515620000824 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 515620000825 23S rRNA interface [nucleotide binding]; other site 515620000826 5S rRNA interface [nucleotide binding]; other site 515620000827 putative antibiotic binding site [chemical binding]; other site 515620000828 L25 interface [polypeptide binding]; other site 515620000829 L27 interface [polypeptide binding]; other site 515620000830 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 515620000831 putative translocon interaction site; other site 515620000832 23S rRNA interface [nucleotide binding]; other site 515620000833 signal recognition particle (SRP54) interaction site; other site 515620000834 L23 interface [polypeptide binding]; other site 515620000835 trigger factor interaction site; other site 515620000836 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 515620000837 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 515620000838 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 515620000839 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 515620000840 RNA binding site [nucleotide binding]; other site 515620000841 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 515620000842 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 515620000843 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 515620000844 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 515620000845 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 515620000846 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 515620000847 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 515620000848 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 515620000849 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 515620000850 5S rRNA interface [nucleotide binding]; other site 515620000851 L27 interface [polypeptide binding]; other site 515620000852 23S rRNA interface [nucleotide binding]; other site 515620000853 L5 interface [polypeptide binding]; other site 515620000854 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 515620000855 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 515620000856 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 515620000857 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 515620000858 23S rRNA binding site [nucleotide binding]; other site 515620000859 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 515620000860 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 515620000861 SecY translocase; Region: SecY; pfam00344 515620000862 adenylate kinase; Reviewed; Region: adk; PRK00279 515620000863 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 515620000864 AMP-binding site [chemical binding]; other site 515620000865 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 515620000866 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 515620000867 RNA binding site [nucleotide binding]; other site 515620000868 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 515620000869 rRNA binding site [nucleotide binding]; other site 515620000870 predicted 30S ribosome binding site; other site 515620000871 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 515620000872 30S ribosomal protein S13; Region: bact_S13; TIGR03631 515620000873 30S ribosomal protein S11; Validated; Region: PRK05309 515620000874 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 515620000875 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 515620000876 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 515620000877 RNA binding surface [nucleotide binding]; other site 515620000878 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 515620000879 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 515620000880 alphaNTD - beta interaction site [polypeptide binding]; other site 515620000881 alphaNTD homodimer interface [polypeptide binding]; other site 515620000882 alphaNTD - beta' interaction site [polypeptide binding]; other site 515620000883 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 515620000884 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 515620000885 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 515620000886 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 515620000887 Walker A/P-loop; other site 515620000888 ATP binding site [chemical binding]; other site 515620000889 Q-loop/lid; other site 515620000890 ABC transporter signature motif; other site 515620000891 Walker B; other site 515620000892 D-loop; other site 515620000893 H-loop/switch region; other site 515620000894 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 515620000895 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 515620000896 Walker A/P-loop; other site 515620000897 ATP binding site [chemical binding]; other site 515620000898 Q-loop/lid; other site 515620000899 ABC transporter signature motif; other site 515620000900 Walker B; other site 515620000901 D-loop; other site 515620000902 H-loop/switch region; other site 515620000903 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 515620000904 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 515620000905 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 515620000906 dimerization interface 3.5A [polypeptide binding]; other site 515620000907 active site 515620000908 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 515620000909 23S rRNA interface [nucleotide binding]; other site 515620000910 L3 interface [polypeptide binding]; other site 515620000911 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 515620000912 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 515620000913 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 515620000914 active site 515620000915 motif I; other site 515620000916 motif II; other site 515620000917 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 515620000918 motif II; other site 515620000919 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 515620000920 metal binding site [ion binding]; metal-binding site 515620000921 active site 515620000922 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 515620000923 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620000924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620000925 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 515620000926 ApbE family; Region: ApbE; pfam02424 515620000927 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 515620000928 FMN-binding domain; Region: FMN_bind; cl01081 515620000929 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 515620000930 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 515620000931 Predicted transcriptional regulators [Transcription]; Region: COG1695 515620000932 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 515620000933 Amidohydrolase; Region: Amidohydro_2; pfam04909 515620000934 serine/threonine transporter SstT; Provisional; Region: PRK13628 515620000935 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 515620000936 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 515620000937 transmembrane helices; other site 515620000938 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK03824 515620000939 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 515620000940 stage V sporulation protein K; Region: spore_V_K; TIGR02881 515620000941 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620000942 Walker A motif; other site 515620000943 ATP binding site [chemical binding]; other site 515620000944 Walker B motif; other site 515620000945 arginine finger; other site 515620000946 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 515620000947 catalytic core [active] 515620000948 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 515620000949 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 515620000950 active site 515620000951 metal binding site [ion binding]; metal-binding site 515620000952 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 515620000953 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 515620000954 FMN binding site [chemical binding]; other site 515620000955 active site 515620000956 catalytic residues [active] 515620000957 substrate binding site [chemical binding]; other site 515620000958 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 515620000959 classical (c) SDRs; Region: SDR_c; cd05233 515620000960 NAD(P) binding site [chemical binding]; other site 515620000961 active site 515620000962 YcxB-like protein; Region: YcxB; pfam14317 515620000963 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 515620000964 dimer interface [polypeptide binding]; other site 515620000965 Citrate synthase; Region: Citrate_synt; pfam00285 515620000966 active site 515620000967 citrylCoA binding site [chemical binding]; other site 515620000968 oxalacetate/citrate binding site [chemical binding]; other site 515620000969 coenzyme A binding site [chemical binding]; other site 515620000970 catalytic triad [active] 515620000971 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 515620000972 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 515620000973 hinge; other site 515620000974 active site 515620000975 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 515620000976 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620000977 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 515620000978 Beta-lactamase; Region: Beta-lactamase; pfam00144 515620000979 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 515620000980 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 515620000981 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 515620000982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620000983 NAD(P) binding site [chemical binding]; other site 515620000984 active site 515620000985 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 515620000986 30S subunit binding site; other site 515620000987 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 515620000988 DEAD/DEAH box helicase; Region: DEAD; pfam00270 515620000989 ATP binding site [chemical binding]; other site 515620000990 putative Mg++ binding site [ion binding]; other site 515620000991 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 515620000992 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 515620000993 nucleotide binding region [chemical binding]; other site 515620000994 ATP-binding site [chemical binding]; other site 515620000995 SEC-C motif; Region: SEC-C; pfam02810 515620000996 peptide chain release factor 2; Validated; Region: prfB; PRK00578 515620000997 PCRF domain; Region: PCRF; pfam03462 515620000998 RF-1 domain; Region: RF-1; pfam00472 515620000999 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 515620001000 4-alpha-glucanotransferase; Provisional; Region: PRK14508 515620001001 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 515620001002 hypothetical protein; Provisional; Region: PRK04435 515620001003 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 515620001004 homoserine dehydrogenase; Provisional; Region: PRK06349 515620001005 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 515620001006 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 515620001007 aspartate kinase; Reviewed; Region: PRK09034 515620001008 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 515620001009 nucleotide binding site [chemical binding]; other site 515620001010 substrate binding site [chemical binding]; other site 515620001011 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 515620001012 allosteric regulatory residue; other site 515620001013 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 515620001014 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 515620001015 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 515620001016 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 515620001017 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 515620001018 RNA binding site [nucleotide binding]; other site 515620001019 YcxB-like protein; Region: YcxB; pfam14317 515620001020 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 515620001021 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 515620001022 Glycoprotease family; Region: Peptidase_M22; pfam00814 515620001023 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 515620001024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620001025 Coenzyme A binding pocket [chemical binding]; other site 515620001026 ribonuclease Z; Reviewed; Region: PRK00055 515620001027 UGMP family protein; Validated; Region: PRK09604 515620001028 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 515620001029 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 515620001030 substrate binding site; other site 515620001031 dimer interface; other site 515620001032 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 515620001033 active site residue [active] 515620001034 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 515620001035 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 515620001036 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 515620001037 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 515620001038 active site 515620001039 dimerization interface [polypeptide binding]; other site 515620001040 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 515620001041 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620001042 active site 515620001043 metal binding site [ion binding]; metal-binding site 515620001044 homotetramer interface [polypeptide binding]; other site 515620001045 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620001046 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 515620001047 non-specific DNA binding site [nucleotide binding]; other site 515620001048 salt bridge; other site 515620001049 sequence-specific DNA binding site [nucleotide binding]; other site 515620001050 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 515620001051 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 515620001052 conserved cys residue [active] 515620001053 Transposase IS200 like; Region: Y1_Tnp; cl00848 515620001054 Methyltransferase domain; Region: Methyltransf_31; pfam13847 515620001055 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 515620001056 S-adenosylmethionine binding site [chemical binding]; other site 515620001057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620001058 metal binding site [ion binding]; metal-binding site 515620001059 active site 515620001060 I-site; other site 515620001061 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 515620001062 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 515620001063 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 515620001064 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620001065 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620001066 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620001067 flagellin; Provisional; Region: PRK12806 515620001068 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 515620001069 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 515620001070 Global regulator protein family; Region: CsrA; pfam02599 515620001071 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 515620001072 active site 515620001073 DNA binding site [nucleotide binding] 515620001074 Int/Topo IB signature motif; other site 515620001075 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 515620001076 active site 515620001077 catalytic residues [active] 515620001078 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 515620001079 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 515620001080 NAD(P) binding site [chemical binding]; other site 515620001081 catalytic residues [active] 515620001082 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 515620001083 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 515620001084 putative active site [active] 515620001085 metal binding site [ion binding]; metal-binding site 515620001086 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 515620001087 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 515620001088 NodB motif; other site 515620001089 active site 515620001090 catalytic site [active] 515620001091 metal binding site [ion binding]; metal-binding site 515620001092 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 515620001093 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 515620001094 putative active site [active] 515620001095 putative metal binding site [ion binding]; other site 515620001096 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 515620001097 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 515620001098 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 515620001099 ANTAR domain; Region: ANTAR; pfam03861 515620001100 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 515620001101 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 515620001102 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 515620001103 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 515620001104 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 515620001105 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 515620001106 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 515620001107 homodimer interface [polypeptide binding]; other site 515620001108 NADP binding site [chemical binding]; other site 515620001109 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 515620001110 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 515620001111 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 515620001112 Transcriptional regulators [Transcription]; Region: FadR; COG2186 515620001113 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620001114 DNA-binding site [nucleotide binding]; DNA binding site 515620001115 FCD domain; Region: FCD; pfam07729 515620001116 phosphoglycolate phosphatase; Provisional; Region: PRK13222 515620001117 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 515620001118 motif II; other site 515620001119 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 515620001120 active site 515620001121 catalytic triad [active] 515620001122 oxyanion hole [active] 515620001123 Hemerythrin; Region: Hemerythrin; cd12107 515620001124 Fe binding site [ion binding]; other site 515620001125 Hemerythrin; Region: Hemerythrin; cd12107 515620001126 Fe binding site [ion binding]; other site 515620001127 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 515620001128 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 515620001129 dimer interface [polypeptide binding]; other site 515620001130 anticodon binding site; other site 515620001131 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 515620001132 homodimer interface [polypeptide binding]; other site 515620001133 motif 1; other site 515620001134 active site 515620001135 motif 2; other site 515620001136 GAD domain; Region: GAD; pfam02938 515620001137 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 515620001138 active site 515620001139 motif 3; other site 515620001140 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 515620001141 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 515620001142 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 515620001143 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 515620001144 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 515620001145 GatB domain; Region: GatB_Yqey; smart00845 515620001146 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 515620001147 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 515620001148 PilZ domain; Region: PilZ; pfam07238 515620001149 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 515620001150 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 515620001151 ATP binding site [chemical binding]; other site 515620001152 active site 515620001153 substrate binding site [chemical binding]; other site 515620001154 amidophosphoribosyltransferase; Provisional; Region: PRK05793 515620001155 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 515620001156 active site 515620001157 tetramer interface [polypeptide binding]; other site 515620001158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620001159 active site 515620001160 siroheme synthase; Provisional; Region: cysG; PRK10637 515620001161 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 515620001162 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 515620001163 active site 515620001164 SAM binding site [chemical binding]; other site 515620001165 homodimer interface [polypeptide binding]; other site 515620001166 HD domain; Region: HD_3; pfam13023 515620001167 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 515620001168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620001169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620001170 ATP binding site [chemical binding]; other site 515620001171 Mg2+ binding site [ion binding]; other site 515620001172 G-X-G motif; other site 515620001173 Response regulator receiver domain; Region: Response_reg; pfam00072 515620001174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620001175 active site 515620001176 phosphorylation site [posttranslational modification] 515620001177 intermolecular recognition site; other site 515620001178 dimerization interface [polypeptide binding]; other site 515620001179 LytTr DNA-binding domain; Region: LytTR; pfam04397 515620001180 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 515620001181 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 515620001182 tetramer interface [polypeptide binding]; other site 515620001183 active site 515620001184 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620001185 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620001186 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 515620001187 PLD-like domain; Region: PLDc_2; pfam13091 515620001188 putative active site [active] 515620001189 catalytic site [active] 515620001190 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 515620001191 PLD-like domain; Region: PLDc_2; pfam13091 515620001192 putative active site [active] 515620001193 catalytic site [active] 515620001194 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 515620001195 A new structural DNA glycosylase; Region: AlkD_like; cd06561 515620001196 active site 515620001197 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620001198 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620001199 PBP superfamily domain; Region: PBP_like_2; cl17296 515620001200 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 515620001201 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 515620001202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620001203 dimer interface [polypeptide binding]; other site 515620001204 conserved gate region; other site 515620001205 putative PBP binding loops; other site 515620001206 ABC-ATPase subunit interface; other site 515620001207 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 515620001208 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620001209 ABC-ATPase subunit interface; other site 515620001210 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 515620001211 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 515620001212 Walker A/P-loop; other site 515620001213 ATP binding site [chemical binding]; other site 515620001214 Q-loop/lid; other site 515620001215 ABC transporter signature motif; other site 515620001216 Walker B; other site 515620001217 D-loop; other site 515620001218 H-loop/switch region; other site 515620001219 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 515620001220 PhoU domain; Region: PhoU; pfam01895 515620001221 PhoU domain; Region: PhoU; pfam01895 515620001222 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 515620001223 thiS-thiF/thiG interaction site; other site 515620001224 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 515620001225 ThiS interaction site; other site 515620001226 putative active site [active] 515620001227 tetramer interface [polypeptide binding]; other site 515620001228 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 515620001229 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 515620001230 FeS/SAM binding site; other site 515620001231 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 515620001232 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 515620001233 active site 515620001234 thiamine phosphate binding site [chemical binding]; other site 515620001235 pyrophosphate binding site [ion binding]; other site 515620001236 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 515620001237 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 515620001238 regulatory protein interface [polypeptide binding]; other site 515620001239 regulatory phosphorylation site [posttranslational modification]; other site 515620001240 polyphosphate kinase; Provisional; Region: PRK05443 515620001241 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 515620001242 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 515620001243 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 515620001244 putative active site [active] 515620001245 catalytic site [active] 515620001246 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 515620001247 putative domain interface [polypeptide binding]; other site 515620001248 putative active site [active] 515620001249 catalytic site [active] 515620001250 6-phosphofructokinase; Provisional; Region: PRK03202 515620001251 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 515620001252 active site 515620001253 ADP/pyrophosphate binding site [chemical binding]; other site 515620001254 dimerization interface [polypeptide binding]; other site 515620001255 allosteric effector site; other site 515620001256 fructose-1,6-bisphosphate binding site; other site 515620001257 SlyX; Region: SlyX; cl01090 515620001258 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 515620001259 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 515620001260 homodimer interaction site [polypeptide binding]; other site 515620001261 cofactor binding site; other site 515620001262 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 515620001263 homotrimer interaction site [polypeptide binding]; other site 515620001264 zinc binding site [ion binding]; other site 515620001265 CDP-binding sites; other site 515620001266 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 515620001267 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 515620001268 trimer interface [polypeptide binding]; other site 515620001269 active site 515620001270 substrate binding site [chemical binding]; other site 515620001271 CoA binding site [chemical binding]; other site 515620001272 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 515620001273 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 515620001274 active site 515620001275 HIGH motif; other site 515620001276 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 515620001277 KMSKS motif; other site 515620001278 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 515620001279 tRNA binding surface [nucleotide binding]; other site 515620001280 anticodon binding site; other site 515620001281 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 515620001282 active site 515620001283 metal binding site [ion binding]; metal-binding site 515620001284 dimerization interface [polypeptide binding]; other site 515620001285 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 515620001286 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 515620001287 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 515620001288 RNA polymerase factor sigma-70; Validated; Region: PRK08295 515620001289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620001290 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 515620001291 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 515620001292 GDP-binding site [chemical binding]; other site 515620001293 ACT binding site; other site 515620001294 IMP binding site; other site 515620001295 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 515620001296 intersubunit interface [polypeptide binding]; other site 515620001297 active site 515620001298 catalytic residue [active] 515620001299 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 515620001300 hypothetical protein; Provisional; Region: PRK05590 515620001301 SEC-C motif; Region: SEC-C; pfam02810 515620001302 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 515620001303 S-adenosylmethionine binding site [chemical binding]; other site 515620001304 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 515620001305 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 515620001306 dimerization interface [polypeptide binding]; other site 515620001307 domain crossover interface; other site 515620001308 redox-dependent activation switch; other site 515620001309 shikimate kinase; Reviewed; Region: aroK; PRK00131 515620001310 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 515620001311 ADP binding site [chemical binding]; other site 515620001312 magnesium binding site [ion binding]; other site 515620001313 putative shikimate binding site; other site 515620001314 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 515620001315 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620001316 active site 515620001317 HIGH motif; other site 515620001318 nucleotide binding site [chemical binding]; other site 515620001319 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620001320 active site 515620001321 KMSKS motif; other site 515620001322 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 515620001323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 515620001324 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 515620001325 Sulfatase; Region: Sulfatase; cl17466 515620001326 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 515620001327 DNA-binding site [nucleotide binding]; DNA binding site 515620001328 RNA-binding motif; other site 515620001329 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 515620001330 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 515620001331 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 515620001332 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 515620001333 motif II; other site 515620001334 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 515620001335 NMT1-like family; Region: NMT1_2; pfam13379 515620001336 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620001337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620001338 dimer interface [polypeptide binding]; other site 515620001339 putative CheW interface [polypeptide binding]; other site 515620001340 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 515620001341 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 515620001342 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 515620001343 DRTGG domain; Region: DRTGG; pfam07085 515620001344 Domain in cystathionine beta-synthase and other proteins; Region: CBS; smart00116 515620001345 DHHA2 domain; Region: DHHA2; pfam02833 515620001346 methionine aminopeptidase; Provisional; Region: PRK12318 515620001347 SEC-C motif; Region: SEC-C; pfam02810 515620001348 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 515620001349 active site 515620001350 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 515620001351 CotJB protein; Region: CotJB; pfam12652 515620001352 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 515620001353 dimanganese center [ion binding]; other site 515620001354 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 515620001355 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 515620001356 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 515620001357 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 515620001358 minor groove reading motif; other site 515620001359 helix-hairpin-helix signature motif; other site 515620001360 substrate binding pocket [chemical binding]; other site 515620001361 active site 515620001362 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 515620001363 oligomerisation interface [polypeptide binding]; other site 515620001364 mobile loop; other site 515620001365 roof hairpin; other site 515620001366 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 515620001367 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 515620001368 ring oligomerisation interface [polypeptide binding]; other site 515620001369 ATP/Mg binding site [chemical binding]; other site 515620001370 stacking interactions; other site 515620001371 hinge regions; other site 515620001372 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 515620001373 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 515620001374 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 515620001375 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 515620001376 active site 515620001377 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 515620001378 Response regulator receiver domain; Region: Response_reg; pfam00072 515620001379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620001380 active site 515620001381 phosphorylation site [posttranslational modification] 515620001382 intermolecular recognition site; other site 515620001383 dimerization interface [polypeptide binding]; other site 515620001384 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 515620001385 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 515620001386 active site 515620001387 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 515620001388 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 515620001389 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620001390 active site 515620001391 HIGH motif; other site 515620001392 nucleotide binding site [chemical binding]; other site 515620001393 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 515620001394 KMSK motif region; other site 515620001395 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 515620001396 tRNA binding surface [nucleotide binding]; other site 515620001397 anticodon binding site; other site 515620001398 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 515620001399 active site 515620001400 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 515620001401 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 515620001402 NADP binding site [chemical binding]; other site 515620001403 homodimer interface [polypeptide binding]; other site 515620001404 active site 515620001405 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620001406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620001407 metal binding site [ion binding]; metal-binding site 515620001408 active site 515620001409 I-site; other site 515620001410 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 515620001411 dihydroorotase; Validated; Region: pyrC; PRK09357 515620001412 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 515620001413 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 515620001414 active site 515620001415 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 515620001416 active site 515620001417 dimer interface [polypeptide binding]; other site 515620001418 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 515620001419 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 515620001420 FAD binding pocket [chemical binding]; other site 515620001421 FAD binding motif [chemical binding]; other site 515620001422 phosphate binding motif [ion binding]; other site 515620001423 beta-alpha-beta structure motif; other site 515620001424 NAD binding pocket [chemical binding]; other site 515620001425 Iron coordination center [ion binding]; other site 515620001426 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 515620001427 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 515620001428 heterodimer interface [polypeptide binding]; other site 515620001429 active site 515620001430 FMN binding site [chemical binding]; other site 515620001431 homodimer interface [polypeptide binding]; other site 515620001432 substrate binding site [chemical binding]; other site 515620001433 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620001434 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 515620001435 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 515620001436 TPP-binding site; other site 515620001437 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 515620001438 PYR/PP interface [polypeptide binding]; other site 515620001439 dimer interface [polypeptide binding]; other site 515620001440 TPP binding site [chemical binding]; other site 515620001441 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 515620001442 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 515620001443 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620001444 active site 515620001445 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 515620001446 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 515620001447 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 515620001448 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 515620001449 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 515620001450 dimerization interface [polypeptide binding]; other site 515620001451 putative ATP binding site [chemical binding]; other site 515620001452 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 515620001453 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 515620001454 active site 515620001455 substrate binding site [chemical binding]; other site 515620001456 cosubstrate binding site; other site 515620001457 catalytic site [active] 515620001458 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 515620001459 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 515620001460 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 515620001461 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 515620001462 histidyl-tRNA synthetase; Region: hisS; TIGR00442 515620001463 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 515620001464 dimer interface [polypeptide binding]; other site 515620001465 motif 1; other site 515620001466 active site 515620001467 motif 2; other site 515620001468 motif 3; other site 515620001469 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 515620001470 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 515620001471 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 515620001472 DEAD/DEAH box helicase; Region: DEAD; pfam00270 515620001473 Family description; Region: UvrD_C_2; pfam13538 515620001474 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 515620001475 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 515620001476 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 515620001477 G1 box; other site 515620001478 putative GEF interaction site [polypeptide binding]; other site 515620001479 GTP/Mg2+ binding site [chemical binding]; other site 515620001480 Switch I region; other site 515620001481 G2 box; other site 515620001482 G3 box; other site 515620001483 Switch II region; other site 515620001484 G4 box; other site 515620001485 G5 box; other site 515620001486 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 515620001487 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 515620001488 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 515620001489 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 515620001490 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 515620001491 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 515620001492 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 515620001493 putative metal binding site; other site 515620001494 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 515620001495 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 515620001496 ATP binding site [chemical binding]; other site 515620001497 DEAD_2; Region: DEAD_2; pfam06733 515620001498 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 515620001499 Protein of unknown function (DUF342); Region: DUF342; pfam03961 515620001500 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 515620001501 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 515620001502 active site 515620001503 Zn binding site [ion binding]; other site 515620001504 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 515620001505 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 515620001506 putative active site [active] 515620001507 Zn binding site [ion binding]; other site 515620001508 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 515620001509 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 515620001510 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 515620001511 dimerization interface [polypeptide binding]; other site 515620001512 ATP binding site [chemical binding]; other site 515620001513 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 515620001514 dimerization interface [polypeptide binding]; other site 515620001515 ATP binding site [chemical binding]; other site 515620001516 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 515620001517 putative active site [active] 515620001518 catalytic triad [active] 515620001519 Bacterial PH domain; Region: DUF304; pfam03703 515620001520 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 515620001521 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 515620001522 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 515620001523 FeoA domain; Region: FeoA; pfam04023 515620001524 FeoA domain; Region: FeoA; pfam04023 515620001525 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 515620001526 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 515620001527 G1 box; other site 515620001528 GTP/Mg2+ binding site [chemical binding]; other site 515620001529 Switch I region; other site 515620001530 G2 box; other site 515620001531 G3 box; other site 515620001532 Switch II region; other site 515620001533 G4 box; other site 515620001534 G5 box; other site 515620001535 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 515620001536 Nucleoside recognition; Region: Gate; pfam07670 515620001537 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 515620001538 Nucleoside recognition; Region: Gate; pfam07670 515620001539 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 515620001540 putative DNA binding helix; other site 515620001541 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 515620001542 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 515620001543 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 515620001544 motif II; other site 515620001545 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 515620001546 non-specific DNA binding site [nucleotide binding]; other site 515620001547 salt bridge; other site 515620001548 sequence-specific DNA binding site [nucleotide binding]; other site 515620001549 HipA N-terminal domain; Region: Couple_hipA; pfam13657 515620001550 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 515620001551 HipA-like N-terminal domain; Region: HipA_N; pfam07805 515620001552 HipA-like C-terminal domain; Region: HipA_C; pfam07804 515620001553 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 515620001554 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 515620001555 dimer interface [polypeptide binding]; other site 515620001556 active site 515620001557 glycine-pyridoxal phosphate binding site [chemical binding]; other site 515620001558 folate binding site [chemical binding]; other site 515620001559 short chain dehydrogenase; Provisional; Region: PRK08226 515620001560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620001561 NAD(P) binding site [chemical binding]; other site 515620001562 active site 515620001563 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 515620001564 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 515620001565 active site 515620001566 substrate binding site [chemical binding]; other site 515620001567 ATP binding site [chemical binding]; other site 515620001568 Amino acid permease; Region: AA_permease_2; pfam13520 515620001569 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 515620001570 Nitrogen regulatory protein P-II; Region: P-II; smart00938 515620001571 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 515620001572 Domain of unknown function DUF20; Region: UPF0118; pfam01594 515620001573 argininosuccinate synthase; Provisional; Region: PRK13820 515620001574 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 515620001575 ANP binding site [chemical binding]; other site 515620001576 Substrate Binding Site II [chemical binding]; other site 515620001577 Substrate Binding Site I [chemical binding]; other site 515620001578 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 515620001579 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 515620001580 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 515620001581 heterotetramer interface [polypeptide binding]; other site 515620001582 active site pocket [active] 515620001583 cleavage site 515620001584 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 515620001585 feedback inhibition sensing region; other site 515620001586 homohexameric interface [polypeptide binding]; other site 515620001587 nucleotide binding site [chemical binding]; other site 515620001588 N-acetyl-L-glutamate binding site [chemical binding]; other site 515620001589 acetylornithine aminotransferase; Provisional; Region: PRK02627 515620001590 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 515620001591 inhibitor-cofactor binding pocket; inhibition site 515620001592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620001593 catalytic residue [active] 515620001594 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 515620001595 Protein of unknown function, DUF606; Region: DUF606; pfam04657 515620001596 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 515620001597 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 515620001598 putative RNA binding site [nucleotide binding]; other site 515620001599 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 515620001600 S-adenosylmethionine binding site [chemical binding]; other site 515620001601 Chromate transporter; Region: Chromate_transp; pfam02417 515620001602 Chromate transporter; Region: Chromate_transp; pfam02417 515620001603 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 515620001604 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 515620001605 active site 515620001606 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 515620001607 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 515620001608 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 515620001609 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 515620001610 ATP-grasp domain; Region: ATP-grasp_4; cl17255 515620001611 Nitroreductase family; Region: Nitroreductase; pfam00881 515620001612 FMN binding site [chemical binding]; other site 515620001613 dimer interface [polypeptide binding]; other site 515620001614 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 515620001615 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 515620001616 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 515620001617 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 515620001618 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 515620001619 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620001620 Walker A motif; other site 515620001621 ATP binding site [chemical binding]; other site 515620001622 Walker B motif; other site 515620001623 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 515620001624 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 515620001625 active site 515620001626 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 515620001627 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 515620001628 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 515620001629 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 515620001630 hexamer (dimer of trimers) interface [polypeptide binding]; other site 515620001631 substrate binding site [chemical binding]; other site 515620001632 trimer interface [polypeptide binding]; other site 515620001633 Mn binding site [ion binding]; other site 515620001634 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 515620001635 N- and C-terminal domain interface [polypeptide binding]; other site 515620001636 D-xylulose kinase; Region: XylB; TIGR01312 515620001637 active site 515620001638 MgATP binding site [chemical binding]; other site 515620001639 catalytic site [active] 515620001640 metal binding site [ion binding]; metal-binding site 515620001641 xylulose binding site [chemical binding]; other site 515620001642 homodimer interface [polypeptide binding]; other site 515620001643 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 515620001644 active site 515620001645 intersubunit interactions; other site 515620001646 catalytic residue [active] 515620001647 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 515620001648 Transcriptional regulators [Transcription]; Region: MarR; COG1846 515620001649 non-specific DNA interactions [nucleotide binding]; other site 515620001650 DNA binding site [nucleotide binding] 515620001651 sequence specific DNA binding site [nucleotide binding]; other site 515620001652 putative cAMP binding site [chemical binding]; other site 515620001653 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 515620001654 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 515620001655 nucleotide binding site [chemical binding]; other site 515620001656 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620001657 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620001658 Walker A/P-loop; other site 515620001659 ATP binding site [chemical binding]; other site 515620001660 Q-loop/lid; other site 515620001661 ABC transporter signature motif; other site 515620001662 Walker B; other site 515620001663 D-loop; other site 515620001664 H-loop/switch region; other site 515620001665 Predicted transcriptional regulators [Transcription]; Region: COG1725 515620001666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620001667 DNA-binding site [nucleotide binding]; DNA binding site 515620001668 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 515620001669 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620001670 Walker A/P-loop; other site 515620001671 ATP binding site [chemical binding]; other site 515620001672 Q-loop/lid; other site 515620001673 ABC transporter signature motif; other site 515620001674 Walker B; other site 515620001675 D-loop; other site 515620001676 H-loop/switch region; other site 515620001677 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 515620001678 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 515620001679 Ligand binding site; other site 515620001680 Putative Catalytic site; other site 515620001681 DXD motif; other site 515620001682 conserved hypothetical integral membrane protein; Region: TIGR03766 515620001683 aspartate aminotransferase; Provisional; Region: PRK06836 515620001684 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 515620001685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620001686 homodimer interface [polypeptide binding]; other site 515620001687 catalytic residue [active] 515620001688 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 515620001689 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 515620001690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620001691 homodimer interface [polypeptide binding]; other site 515620001692 catalytic residue [active] 515620001693 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 515620001694 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 515620001695 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620001696 active site 515620001697 metal binding site [ion binding]; metal-binding site 515620001698 homotetramer interface [polypeptide binding]; other site 515620001699 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 515620001700 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 515620001701 active site 515620001702 catalytic triad [active] 515620001703 Predicted transcriptional regulator [Transcription]; Region: COG1959 515620001704 Transcriptional regulator; Region: Rrf2; cl17282 515620001705 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 515620001706 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 515620001707 homodimer interface [polypeptide binding]; other site 515620001708 substrate-cofactor binding pocket; other site 515620001709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620001710 catalytic residue [active] 515620001711 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 515620001712 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 515620001713 4Fe-4S binding domain; Region: Fer4; pfam00037 515620001714 4Fe-4S binding domain; Region: Fer4; pfam00037 515620001715 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 515620001716 CPxP motif; other site 515620001717 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 515620001718 catalytic residues [active] 515620001719 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 515620001720 thiS-thiF/thiG interaction site; other site 515620001721 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 515620001722 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 515620001723 ATP binding site [chemical binding]; other site 515620001724 substrate interface [chemical binding]; other site 515620001725 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 515620001726 MPN+ (JAMM) motif; other site 515620001727 Zinc-binding site [ion binding]; other site 515620001728 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620001729 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 515620001730 non-specific DNA binding site [nucleotide binding]; other site 515620001731 salt bridge; other site 515620001732 sequence-specific DNA binding site [nucleotide binding]; other site 515620001733 Staphylococcal AgrD protein; Region: AgrD; cl05477 515620001734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620001735 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 515620001736 Walker A/P-loop; other site 515620001737 ATP binding site [chemical binding]; other site 515620001738 Q-loop/lid; other site 515620001739 ABC transporter signature motif; other site 515620001740 Walker B; other site 515620001741 D-loop; other site 515620001742 H-loop/switch region; other site 515620001743 Accessory gene regulator B; Region: AgrB; pfam04647 515620001744 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620001745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620001746 active site 515620001747 phosphorylation site [posttranslational modification] 515620001748 intermolecular recognition site; other site 515620001749 dimerization interface [polypeptide binding]; other site 515620001750 LytTr DNA-binding domain; Region: LytTR; pfam04397 515620001751 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 515620001752 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 515620001753 ATP binding site [chemical binding]; other site 515620001754 Mg2+ binding site [ion binding]; other site 515620001755 G-X-G motif; other site 515620001756 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 515620001757 MgtE intracellular N domain; Region: MgtE_N; pfam03448 515620001758 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 515620001759 Divalent cation transporter; Region: MgtE; pfam01769 515620001760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620001761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620001762 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 515620001763 dimerization interface [polypeptide binding]; other site 515620001764 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 515620001765 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 515620001766 THF binding site; other site 515620001767 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 515620001768 substrate binding site [chemical binding]; other site 515620001769 THF binding site; other site 515620001770 zinc-binding site [ion binding]; other site 515620001771 D-mannonate oxidoreductase; Provisional; Region: PRK08277 515620001772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620001773 NAD(P) binding site [chemical binding]; other site 515620001774 active site 515620001775 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 515620001776 Uncharacterized conserved protein [Function unknown]; Region: COG1434 515620001777 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 515620001778 putative active site [active] 515620001779 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 515620001780 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 515620001781 active site 515620001782 nucleophile elbow; other site 515620001783 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 515620001784 Cupin domain; Region: Cupin_2; pfam07883 515620001785 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 515620001786 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 515620001787 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 515620001788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620001789 homodimer interface [polypeptide binding]; other site 515620001790 catalytic residue [active] 515620001791 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 515620001792 Domain of unknown function DUF21; Region: DUF21; pfam01595 515620001793 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 515620001794 Transporter associated domain; Region: CorC_HlyC; smart01091 515620001795 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 515620001796 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 515620001797 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620001798 Zn2+ binding site [ion binding]; other site 515620001799 Mg2+ binding site [ion binding]; other site 515620001800 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 515620001801 DNA primase; Validated; Region: dnaG; PRK05667 515620001802 CHC2 zinc finger; Region: zf-CHC2; pfam01807 515620001803 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 515620001804 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 515620001805 active site 515620001806 metal binding site [ion binding]; metal-binding site 515620001807 interdomain interaction site; other site 515620001808 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 515620001809 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 515620001810 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620001811 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 515620001812 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620001813 DNA binding residues [nucleotide binding] 515620001814 Family of unknown function (DUF633); Region: DUF633; pfam04816 515620001815 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 515620001816 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 515620001817 active site 515620001818 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 515620001819 prephenate dehydrogenase; Validated; Region: PRK08507 515620001820 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 515620001821 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 515620001822 HIGH motif; other site 515620001823 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 515620001824 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620001825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620001826 active site 515620001827 KMSKS motif; other site 515620001828 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 515620001829 tRNA binding surface [nucleotide binding]; other site 515620001830 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 515620001831 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 515620001832 Ligand binding site; other site 515620001833 Putative Catalytic site; other site 515620001834 DXD motif; other site 515620001835 GtrA-like protein; Region: GtrA; pfam04138 515620001836 Predicted membrane protein [Function unknown]; Region: COG2246 515620001837 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 515620001838 stage V sporulation protein B; Region: spore_V_B; TIGR02900 515620001839 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 515620001840 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 515620001841 UvrB/uvrC motif; Region: UVR; pfam02151 515620001842 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 515620001843 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 515620001844 ADP binding site [chemical binding]; other site 515620001845 phosphagen binding site; other site 515620001846 substrate specificity loop; other site 515620001847 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 515620001848 Clp amino terminal domain; Region: Clp_N; pfam02861 515620001849 Clp amino terminal domain; Region: Clp_N; pfam02861 515620001850 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620001851 Walker A motif; other site 515620001852 ATP binding site [chemical binding]; other site 515620001853 Walker B motif; other site 515620001854 arginine finger; other site 515620001855 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620001856 Walker A motif; other site 515620001857 ATP binding site [chemical binding]; other site 515620001858 Walker B motif; other site 515620001859 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 515620001860 DNA repair protein RadA; Provisional; Region: PRK11823 515620001861 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 515620001862 Walker A motif/ATP binding site; other site 515620001863 ATP binding site [chemical binding]; other site 515620001864 Walker B motif; other site 515620001865 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 515620001866 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620001867 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620001868 dimer interface [polypeptide binding]; other site 515620001869 putative CheW interface [polypeptide binding]; other site 515620001870 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 515620001871 putative active site [active] 515620001872 FCD domain; Region: FCD; cl11656 515620001873 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 515620001874 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620001875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 515620001876 Coenzyme A binding pocket [chemical binding]; other site 515620001877 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620001878 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620001879 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 515620001880 active site 515620001881 catalytic triad [active] 515620001882 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 515620001883 classical (c) SDRs; Region: SDR_c; cd05233 515620001884 NAD(P) binding site [chemical binding]; other site 515620001885 active site 515620001886 carbamate kinase; Reviewed; Region: PRK12686 515620001887 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 515620001888 putative substrate binding site [chemical binding]; other site 515620001889 nucleotide binding site [chemical binding]; other site 515620001890 nucleotide binding site [chemical binding]; other site 515620001891 homodimer interface [polypeptide binding]; other site 515620001892 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 515620001893 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620001894 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620001895 ABC transporter; Region: ABC_tran_2; pfam12848 515620001896 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620001897 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 515620001898 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 515620001899 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 515620001900 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 515620001901 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 515620001902 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 515620001903 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 515620001904 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 515620001905 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 515620001906 primosome assembly protein PriA; Validated; Region: PRK05580 515620001907 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 515620001908 ATP binding site [chemical binding]; other site 515620001909 putative Mg++ binding site [ion binding]; other site 515620001910 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 515620001911 ATP-binding site [chemical binding]; other site 515620001912 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 515620001913 active site 515620001914 catalytic residues [active] 515620001915 metal binding site [ion binding]; metal-binding site 515620001916 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 515620001917 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 515620001918 putative active site [active] 515620001919 substrate binding site [chemical binding]; other site 515620001920 putative cosubstrate binding site; other site 515620001921 catalytic site [active] 515620001922 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 515620001923 substrate binding site [chemical binding]; other site 515620001924 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 515620001925 16S rRNA methyltransferase B; Provisional; Region: PRK14902 515620001926 NusB family; Region: NusB; pfam01029 515620001927 putative RNA binding site [nucleotide binding]; other site 515620001928 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 515620001929 S-adenosylmethionine binding site [chemical binding]; other site 515620001930 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 515620001931 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 515620001932 FeS/SAM binding site; other site 515620001933 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 515620001934 active site 515620001935 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 515620001936 Catalytic domain of Protein Kinases; Region: PKc; cd00180 515620001937 active site 515620001938 ATP binding site [chemical binding]; other site 515620001939 substrate binding site [chemical binding]; other site 515620001940 activation loop (A-loop); other site 515620001941 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 515620001942 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 515620001943 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 515620001944 GTPase RsgA; Reviewed; Region: PRK00098 515620001945 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 515620001946 RNA binding site [nucleotide binding]; other site 515620001947 homodimer interface [polypeptide binding]; other site 515620001948 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 515620001949 GTPase/Zn-binding domain interface [polypeptide binding]; other site 515620001950 GTP/Mg2+ binding site [chemical binding]; other site 515620001951 G4 box; other site 515620001952 G5 box; other site 515620001953 G1 box; other site 515620001954 Switch I region; other site 515620001955 G2 box; other site 515620001956 G3 box; other site 515620001957 Switch II region; other site 515620001958 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 515620001959 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 515620001960 substrate binding site [chemical binding]; other site 515620001961 hexamer interface [polypeptide binding]; other site 515620001962 metal binding site [ion binding]; metal-binding site 515620001963 GTP-binding protein YchF; Reviewed; Region: PRK09601 515620001964 YchF GTPase; Region: YchF; cd01900 515620001965 G1 box; other site 515620001966 GTP/Mg2+ binding site [chemical binding]; other site 515620001967 Switch I region; other site 515620001968 G2 box; other site 515620001969 Switch II region; other site 515620001970 G3 box; other site 515620001971 G4 box; other site 515620001972 G5 box; other site 515620001973 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 515620001974 cell division protein MraZ; Reviewed; Region: PRK00326 515620001975 MraZ protein; Region: MraZ; pfam02381 515620001976 MraZ protein; Region: MraZ; pfam02381 515620001977 MraW methylase family; Region: Methyltransf_5; pfam01795 515620001978 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 515620001979 Septum formation initiator; Region: DivIC; cl17659 515620001980 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 515620001981 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 515620001982 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 515620001983 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 515620001984 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 515620001985 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 515620001986 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 515620001987 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 515620001988 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 515620001989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 515620001990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 515620001991 cell division protein FtsW; Region: ftsW; TIGR02614 515620001992 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 515620001993 Cell division protein FtsQ; Region: FtsQ; pfam03799 515620001994 cell division protein FtsZ; Validated; Region: PRK09330 515620001995 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 515620001996 nucleotide binding site [chemical binding]; other site 515620001997 SulA interaction site; other site 515620001998 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 515620001999 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 515620002000 sporulation sigma factor SigE; Reviewed; Region: PRK08301 515620002001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620002002 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620002003 DNA binding residues [nucleotide binding] 515620002004 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 515620002005 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 515620002006 active site 515620002007 metal binding site [ion binding]; metal-binding site 515620002008 GTP-binding protein LepA; Provisional; Region: PRK05433 515620002009 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 515620002010 G1 box; other site 515620002011 putative GEF interaction site [polypeptide binding]; other site 515620002012 GTP/Mg2+ binding site [chemical binding]; other site 515620002013 Switch I region; other site 515620002014 G2 box; other site 515620002015 G3 box; other site 515620002016 Switch II region; other site 515620002017 G4 box; other site 515620002018 G5 box; other site 515620002019 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 515620002020 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 515620002021 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 515620002022 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 515620002023 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 515620002024 FeS/SAM binding site; other site 515620002025 HemN C-terminal domain; Region: HemN_C; pfam06969 515620002026 Helix-turn-helix domain; Region: HTH_18; pfam12833 515620002027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620002028 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 515620002029 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 515620002030 Nitrogen regulatory protein P-II; Region: P-II; smart00938 515620002031 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 515620002032 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 515620002033 dimer interface [polypeptide binding]; other site 515620002034 PYR/PP interface [polypeptide binding]; other site 515620002035 TPP binding site [chemical binding]; other site 515620002036 substrate binding site [chemical binding]; other site 515620002037 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 515620002038 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 515620002039 Domain of unknown function; Region: EKR; pfam10371 515620002040 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 515620002041 TPP-binding site [chemical binding]; other site 515620002042 dimer interface [polypeptide binding]; other site 515620002043 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620002044 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620002045 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 515620002046 Walker A/P-loop; other site 515620002047 ATP binding site [chemical binding]; other site 515620002048 Q-loop/lid; other site 515620002049 ABC transporter signature motif; other site 515620002050 Walker B; other site 515620002051 D-loop; other site 515620002052 H-loop/switch region; other site 515620002053 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 515620002054 dimer interface [polypeptide binding]; other site 515620002055 active site 515620002056 Schiff base residues; other site 515620002057 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 515620002058 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 515620002059 inhibitor-cofactor binding pocket; inhibition site 515620002060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620002061 catalytic residue [active] 515620002062 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 515620002063 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 515620002064 tRNA; other site 515620002065 putative tRNA binding site [nucleotide binding]; other site 515620002066 putative NADP binding site [chemical binding]; other site 515620002067 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 515620002068 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 515620002069 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 515620002070 domain interfaces; other site 515620002071 active site 515620002072 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 515620002073 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 515620002074 active site 515620002075 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 515620002076 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 515620002077 dimer interface [polypeptide binding]; other site 515620002078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620002079 catalytic residue [active] 515620002080 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 515620002081 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 515620002082 non-specific DNA binding site [nucleotide binding]; other site 515620002083 salt bridge; other site 515620002084 sequence-specific DNA binding site [nucleotide binding]; other site 515620002085 HipA N-terminal domain; Region: Couple_hipA; pfam13657 515620002086 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 515620002087 HipA-like N-terminal domain; Region: HipA_N; pfam07805 515620002088 HipA-like C-terminal domain; Region: HipA_C; pfam07804 515620002089 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 515620002090 EamA-like transporter family; Region: EamA; pfam00892 515620002091 EamA-like transporter family; Region: EamA; pfam00892 515620002092 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 515620002093 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 515620002094 nucleotide binding site [chemical binding]; other site 515620002095 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 515620002096 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 515620002097 Tetramer interface [polypeptide binding]; other site 515620002098 active site 515620002099 FMN-binding site [chemical binding]; other site 515620002100 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 515620002101 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 515620002102 Preprotein translocase subunit; Region: YajC; pfam02699 515620002103 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 515620002104 tartrate dehydrogenase; Region: TTC; TIGR02089 515620002105 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 515620002106 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 515620002107 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 515620002108 PYR/PP interface [polypeptide binding]; other site 515620002109 dimer interface [polypeptide binding]; other site 515620002110 TPP binding site [chemical binding]; other site 515620002111 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 515620002112 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 515620002113 TPP-binding site [chemical binding]; other site 515620002114 dimer interface [polypeptide binding]; other site 515620002115 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 515620002116 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620002117 catalytic residue [active] 515620002118 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 515620002119 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 515620002120 putative ligand binding site [chemical binding]; other site 515620002121 putative NAD binding site [chemical binding]; other site 515620002122 putative catalytic site [active] 515620002123 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 515620002124 L-serine binding site [chemical binding]; other site 515620002125 ACT domain interface; other site 515620002126 Uncharacterized conserved protein [Function unknown]; Region: COG4198 515620002127 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 515620002128 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 515620002129 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 515620002130 glycogen branching enzyme; Provisional; Region: PRK05402 515620002131 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 515620002132 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 515620002133 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 515620002134 active site 515620002135 catalytic site [active] 515620002136 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 515620002137 mechanosensitive channel MscS; Provisional; Region: PRK10334 515620002138 Mechanosensitive ion channel; Region: MS_channel; pfam00924 515620002139 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 515620002140 putative metal binding residues [ion binding]; other site 515620002141 signature motif; other site 515620002142 dimer interface [polypeptide binding]; other site 515620002143 active site 515620002144 polyP binding site; other site 515620002145 substrate binding site [chemical binding]; other site 515620002146 acceptor-phosphate pocket; other site 515620002147 hypothetical protein; Provisional; Region: PRK05473 515620002148 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 515620002149 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 515620002150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 515620002151 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 515620002152 Protein of unknown function (DUF964); Region: DUF964; pfam06133 515620002153 Phosphate-starvation-inducible E; Region: PsiE; cl01264 515620002154 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 515620002155 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 515620002156 S-adenosylmethionine binding site [chemical binding]; other site 515620002157 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 515620002158 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 515620002159 Peptidase family U32; Region: Peptidase_U32; pfam01136 515620002160 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 515620002161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620002162 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620002163 DNA binding residues [nucleotide binding] 515620002164 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 515620002165 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 515620002166 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 515620002167 active site 515620002168 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 515620002169 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 515620002170 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 515620002171 Walker A motif; other site 515620002172 ATP binding site [chemical binding]; other site 515620002173 Walker B motif; other site 515620002174 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 515620002175 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620002176 Walker A motif; other site 515620002177 ATP binding site [chemical binding]; other site 515620002178 Walker B motif; other site 515620002179 O-Antigen ligase; Region: Wzy_C; pfam04932 515620002180 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 515620002181 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 515620002182 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 515620002183 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 515620002184 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 515620002185 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 515620002186 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 515620002187 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 515620002188 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 515620002189 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 515620002190 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 515620002191 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 515620002192 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 515620002193 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 515620002194 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 515620002195 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 515620002196 DNA protecting protein DprA; Region: dprA; TIGR00732 515620002197 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 515620002198 DNA topoisomerase I; Validated; Region: PRK05582 515620002199 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 515620002200 active site 515620002201 interdomain interaction site; other site 515620002202 putative metal-binding site [ion binding]; other site 515620002203 nucleotide binding site [chemical binding]; other site 515620002204 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 515620002205 domain I; other site 515620002206 DNA binding groove [nucleotide binding] 515620002207 phosphate binding site [ion binding]; other site 515620002208 domain II; other site 515620002209 domain III; other site 515620002210 nucleotide binding site [chemical binding]; other site 515620002211 catalytic site [active] 515620002212 domain IV; other site 515620002213 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 515620002214 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 515620002215 transcriptional repressor CodY; Validated; Region: PRK04158 515620002216 CodY GAF-like domain; Region: CodY; pfam06018 515620002217 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 515620002218 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 515620002219 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 515620002220 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 515620002221 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 515620002222 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 515620002223 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 515620002224 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 515620002225 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 515620002226 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 515620002227 MgtE intracellular N domain; Region: MgtE_N; cl15244 515620002228 FliG C-terminal domain; Region: FliG_C; pfam01706 515620002229 Flagellar assembly protein FliH; Region: FliH; pfam02108 515620002230 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 515620002231 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 515620002232 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 515620002233 Walker A motif/ATP binding site; other site 515620002234 Walker B motif; other site 515620002235 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 515620002236 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 515620002237 Uncharacterized conserved protein [Function unknown]; Region: COG3334 515620002238 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 515620002239 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 515620002240 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 515620002241 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 515620002242 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 515620002243 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 515620002244 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 515620002245 Flagellar protein (FlbD); Region: FlbD; pfam06289 515620002246 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 515620002247 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 515620002248 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 515620002249 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 515620002250 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 515620002251 ligand binding site [chemical binding]; other site 515620002252 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 515620002253 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 515620002254 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 515620002255 CheC-like family; Region: CheC; pfam04509 515620002256 Chemotaxis phosphatase CheX; Region: CheX; cl15816 515620002257 flagellar motor switch protein FliN; Region: fliN; TIGR02480 515620002258 Response regulator receiver domain; Region: Response_reg; pfam00072 515620002259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620002260 active site 515620002261 phosphorylation site [posttranslational modification] 515620002262 intermolecular recognition site; other site 515620002263 dimerization interface [polypeptide binding]; other site 515620002264 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 515620002265 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 515620002266 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 515620002267 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 515620002268 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 515620002269 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 515620002270 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 515620002271 FHIPEP family; Region: FHIPEP; pfam00771 515620002272 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 515620002273 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620002274 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 515620002275 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620002276 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620002277 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 515620002278 Flagellar protein YcgR; Region: YcgR_2; pfam12945 515620002279 PilZ domain; Region: PilZ; pfam07238 515620002280 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 515620002281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620002282 active site 515620002283 phosphorylation site [posttranslational modification] 515620002284 intermolecular recognition site; other site 515620002285 dimerization interface [polypeptide binding]; other site 515620002286 CheB methylesterase; Region: CheB_methylest; pfam01339 515620002287 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 515620002288 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 515620002289 putative binding surface; other site 515620002290 active site 515620002291 P2 response regulator binding domain; Region: P2; pfam07194 515620002292 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 515620002293 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620002294 ATP binding site [chemical binding]; other site 515620002295 Mg2+ binding site [ion binding]; other site 515620002296 G-X-G motif; other site 515620002297 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 515620002298 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 515620002299 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 515620002300 CheC-like family; Region: CheC; pfam04509 515620002301 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 515620002302 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 515620002303 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 515620002304 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620002305 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 515620002306 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620002307 DNA binding residues [nucleotide binding] 515620002308 Protein of unknown function (DUF342); Region: DUF342; pfam03961 515620002309 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 515620002310 SpoVA protein; Region: SpoVA; cl04298 515620002311 YceG-like family; Region: YceG; pfam02618 515620002312 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 515620002313 rRNA interaction site [nucleotide binding]; other site 515620002314 S8 interaction site; other site 515620002315 putative laminin-1 binding site; other site 515620002316 elongation factor Ts; Provisional; Region: tsf; PRK09377 515620002317 UBA/TS-N domain; Region: UBA; pfam00627 515620002318 Elongation factor TS; Region: EF_TS; pfam00889 515620002319 Elongation factor TS; Region: EF_TS; pfam00889 515620002320 Elongation factor TS; Region: EF_TS; pfam00889 515620002321 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 515620002322 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 515620002323 putative nucleotide binding site [chemical binding]; other site 515620002324 uridine monophosphate binding site [chemical binding]; other site 515620002325 homohexameric interface [polypeptide binding]; other site 515620002326 ribosome recycling factor; Reviewed; Region: frr; PRK00083 515620002327 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 515620002328 hinge region; other site 515620002329 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 515620002330 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 515620002331 catalytic residue [active] 515620002332 putative FPP diphosphate binding site; other site 515620002333 putative FPP binding hydrophobic cleft; other site 515620002334 dimer interface [polypeptide binding]; other site 515620002335 putative IPP diphosphate binding site; other site 515620002336 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 515620002337 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 515620002338 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 515620002339 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 515620002340 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 515620002341 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 515620002342 RIP metalloprotease RseP; Region: TIGR00054 515620002343 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 515620002344 active site 515620002345 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 515620002346 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 515620002347 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 515620002348 putative substrate binding region [chemical binding]; other site 515620002349 GcpE protein; Region: GcpE; pfam04551 515620002350 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 515620002351 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 515620002352 DNA polymerase III PolC; Validated; Region: polC; PRK00448 515620002353 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 515620002354 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 515620002355 generic binding surface II; other site 515620002356 generic binding surface I; other site 515620002357 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 515620002358 active site 515620002359 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 515620002360 active site 515620002361 catalytic site [active] 515620002362 substrate binding site [chemical binding]; other site 515620002363 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 515620002364 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 515620002365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620002366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620002367 active site 515620002368 phosphorylation site [posttranslational modification] 515620002369 intermolecular recognition site; other site 515620002370 dimerization interface [polypeptide binding]; other site 515620002371 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620002372 DNA binding site [nucleotide binding] 515620002373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620002374 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 515620002375 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620002376 ATP binding site [chemical binding]; other site 515620002377 Mg2+ binding site [ion binding]; other site 515620002378 G-X-G motif; other site 515620002379 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620002380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620002381 active site 515620002382 phosphorylation site [posttranslational modification] 515620002383 intermolecular recognition site; other site 515620002384 dimerization interface [polypeptide binding]; other site 515620002385 LytTr DNA-binding domain; Region: LytTR; smart00850 515620002386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620002387 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 515620002388 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620002389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620002390 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 515620002391 Walker A/P-loop; other site 515620002392 ATP binding site [chemical binding]; other site 515620002393 Q-loop/lid; other site 515620002394 ABC transporter signature motif; other site 515620002395 Walker B; other site 515620002396 D-loop; other site 515620002397 H-loop/switch region; other site 515620002398 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620002399 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620002400 Walker A/P-loop; other site 515620002401 ATP binding site [chemical binding]; other site 515620002402 Q-loop/lid; other site 515620002403 ABC transporter signature motif; other site 515620002404 Walker B; other site 515620002405 D-loop; other site 515620002406 H-loop/switch region; other site 515620002407 FtsX-like permease family; Region: FtsX; pfam02687 515620002408 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 515620002409 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 515620002410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620002411 active site 515620002412 phosphorylation site [posttranslational modification] 515620002413 intermolecular recognition site; other site 515620002414 dimerization interface [polypeptide binding]; other site 515620002415 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 515620002416 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 515620002417 putative active site [active] 515620002418 oxyanion strand; other site 515620002419 catalytic triad [active] 515620002420 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 515620002421 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 515620002422 substrate binding site [chemical binding]; other site 515620002423 glutamase interaction surface [polypeptide binding]; other site 515620002424 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 515620002425 ligand binding site [chemical binding]; other site 515620002426 active site 515620002427 UGI interface [polypeptide binding]; other site 515620002428 catalytic site [active] 515620002429 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 515620002430 ribosome maturation protein RimP; Reviewed; Region: PRK00092 515620002431 Sm and related proteins; Region: Sm_like; cl00259 515620002432 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 515620002433 putative oligomer interface [polypeptide binding]; other site 515620002434 putative RNA binding site [nucleotide binding]; other site 515620002435 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 515620002436 NusA N-terminal domain; Region: NusA_N; pfam08529 515620002437 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 515620002438 RNA binding site [nucleotide binding]; other site 515620002439 homodimer interface [polypeptide binding]; other site 515620002440 NusA-like KH domain; Region: KH_5; pfam13184 515620002441 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 515620002442 G-X-X-G motif; other site 515620002443 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 515620002444 putative RNA binding cleft [nucleotide binding]; other site 515620002445 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 515620002446 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 515620002447 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 515620002448 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 515620002449 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 515620002450 G1 box; other site 515620002451 putative GEF interaction site [polypeptide binding]; other site 515620002452 GTP/Mg2+ binding site [chemical binding]; other site 515620002453 Switch I region; other site 515620002454 G2 box; other site 515620002455 G3 box; other site 515620002456 Switch II region; other site 515620002457 G4 box; other site 515620002458 G5 box; other site 515620002459 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 515620002460 Translation-initiation factor 2; Region: IF-2; pfam11987 515620002461 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 515620002462 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 515620002463 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 515620002464 DHH family; Region: DHH; pfam01368 515620002465 DHHA1 domain; Region: DHHA1; pfam02272 515620002466 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 515620002467 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 515620002468 RNA binding site [nucleotide binding]; other site 515620002469 active site 515620002470 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 515620002471 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 515620002472 active site 515620002473 Riboflavin kinase; Region: Flavokinase; pfam01687 515620002474 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 515620002475 16S/18S rRNA binding site [nucleotide binding]; other site 515620002476 S13e-L30e interaction site [polypeptide binding]; other site 515620002477 25S rRNA binding site [nucleotide binding]; other site 515620002478 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 515620002479 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 515620002480 RNase E interface [polypeptide binding]; other site 515620002481 trimer interface [polypeptide binding]; other site 515620002482 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 515620002483 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 515620002484 RNase E interface [polypeptide binding]; other site 515620002485 trimer interface [polypeptide binding]; other site 515620002486 active site 515620002487 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 515620002488 putative nucleic acid binding region [nucleotide binding]; other site 515620002489 G-X-X-G motif; other site 515620002490 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 515620002491 RNA binding site [nucleotide binding]; other site 515620002492 domain interface; other site 515620002493 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 515620002494 nucleotide binding site/active site [active] 515620002495 HIT family signature motif; other site 515620002496 catalytic residue [active] 515620002497 hypothetical protein; Validated; Region: PRK00110 515620002498 PilZ domain; Region: PilZ; pfam07238 515620002499 Protein of unknown function (DUF983); Region: DUF983; cl02211 515620002500 flagellar operon protein TIGR03826; Region: YvyF 515620002501 Glucuronate isomerase; Region: UxaC; pfam02614 515620002502 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 515620002503 Transcriptional regulators [Transcription]; Region: PurR; COG1609 515620002504 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 515620002505 DNA binding site [nucleotide binding] 515620002506 domain linker motif; other site 515620002507 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 515620002508 dimerization interface [polypeptide binding]; other site 515620002509 ligand binding site [chemical binding]; other site 515620002510 altronate oxidoreductase; Provisional; Region: PRK03643 515620002511 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 515620002512 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 515620002513 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 515620002514 galactarate dehydratase; Region: galactar-dH20; TIGR03248 515620002515 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 515620002516 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 515620002517 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 515620002518 substrate binding site [chemical binding]; other site 515620002519 ATP binding site [chemical binding]; other site 515620002520 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002521 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 515620002522 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 515620002523 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002524 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002525 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 515620002526 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002527 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 515620002528 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002529 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 515620002530 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 515620002531 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002532 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 515620002533 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 515620002534 binding surface 515620002535 TPR motif; other site 515620002536 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 515620002537 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 515620002538 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 515620002539 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 515620002540 FAD binding pocket [chemical binding]; other site 515620002541 FAD binding motif [chemical binding]; other site 515620002542 phosphate binding motif [ion binding]; other site 515620002543 beta-alpha-beta structure motif; other site 515620002544 NAD binding pocket [chemical binding]; other site 515620002545 Iron coordination center [ion binding]; other site 515620002546 putative oxidoreductase; Provisional; Region: PRK12831 515620002547 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 515620002548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 515620002549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620002550 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 515620002551 Thiamine pyrophosphokinase; Region: TPK; cd07995 515620002552 active site 515620002553 dimerization interface [polypeptide binding]; other site 515620002554 thiamine binding site [chemical binding]; other site 515620002555 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 515620002556 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 515620002557 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 515620002558 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 515620002559 carboxyltransferase (CT) interaction site; other site 515620002560 biotinylation site [posttranslational modification]; other site 515620002561 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 515620002562 oxaloacetate decarboxylase; Provisional; Region: PRK12331 515620002563 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 515620002564 active site 515620002565 catalytic residues [active] 515620002566 metal binding site [ion binding]; metal-binding site 515620002567 homodimer binding site [polypeptide binding]; other site 515620002568 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 515620002569 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 515620002570 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 515620002571 putative active site [active] 515620002572 flavoprotein, HI0933 family; Region: TIGR00275 515620002573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620002574 cytidylate kinase; Provisional; Region: cmk; PRK00023 515620002575 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 515620002576 CMP-binding site; other site 515620002577 The sites determining sugar specificity; other site 515620002578 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 515620002579 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 515620002580 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 515620002581 RNA binding site [nucleotide binding]; other site 515620002582 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 515620002583 RNA binding site [nucleotide binding]; other site 515620002584 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 515620002585 RNA binding site [nucleotide binding]; other site 515620002586 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 515620002587 RNA binding site [nucleotide binding]; other site 515620002588 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 515620002589 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 515620002590 RNA binding surface [nucleotide binding]; other site 515620002591 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 515620002592 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 515620002593 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 515620002594 RNase_H superfamily; Region: RNase_H_2; pfam13482 515620002595 active site 515620002596 substrate binding site [chemical binding]; other site 515620002597 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 515620002598 SLBB domain; Region: SLBB; pfam10531 515620002599 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 515620002600 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 515620002601 FMN-binding domain; Region: FMN_bind; cl01081 515620002602 electron transport complex RsxE subunit; Provisional; Region: PRK12405 515620002603 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 515620002604 ferredoxin; Validated; Region: PRK07118 515620002605 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 515620002606 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 515620002607 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 515620002608 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620002609 Walker A motif; other site 515620002610 ATP binding site [chemical binding]; other site 515620002611 Walker B motif; other site 515620002612 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 515620002613 RuvA N terminal domain; Region: RuvA_N; pfam01330 515620002614 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 515620002615 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 515620002616 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620002617 Walker A motif; other site 515620002618 ATP binding site [chemical binding]; other site 515620002619 Walker B motif; other site 515620002620 arginine finger; other site 515620002621 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 515620002622 Cell division protein ZapA; Region: ZapA; pfam05164 515620002623 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 515620002624 Peptidase family U32; Region: Peptidase_U32; pfam01136 515620002625 Collagenase; Region: DUF3656; pfam12392 515620002626 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 515620002627 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 515620002628 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 515620002629 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 515620002630 N-acetyl-D-glucosamine binding site [chemical binding]; other site 515620002631 catalytic residue [active] 515620002632 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 515620002633 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 515620002634 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 515620002635 active site 515620002636 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 515620002637 substrate binding site [chemical binding]; other site 515620002638 catalytic residues [active] 515620002639 dimer interface [polypeptide binding]; other site 515620002640 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 515620002641 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 515620002642 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 515620002643 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 515620002644 Asp23 family; Region: Asp23; pfam03780 515620002645 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 515620002646 DAK2 domain; Region: Dak2; pfam02734 515620002647 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 515620002648 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 515620002649 ssDNA binding site; other site 515620002650 generic binding surface II; other site 515620002651 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 515620002652 ATP binding site [chemical binding]; other site 515620002653 putative Mg++ binding site [ion binding]; other site 515620002654 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 515620002655 nucleotide binding region [chemical binding]; other site 515620002656 ATP-binding site [chemical binding]; other site 515620002657 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 515620002658 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 515620002659 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620002660 active site 515620002661 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 515620002662 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 515620002663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620002664 Walker A/P-loop; other site 515620002665 ATP binding site [chemical binding]; other site 515620002666 Q-loop/lid; other site 515620002667 ABC transporter signature motif; other site 515620002668 Walker B; other site 515620002669 D-loop; other site 515620002670 H-loop/switch region; other site 515620002671 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 515620002672 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 515620002673 motif 1; other site 515620002674 active site 515620002675 motif 2; other site 515620002676 motif 3; other site 515620002677 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 515620002678 DHHA1 domain; Region: DHHA1; pfam02272 515620002679 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 515620002680 YabP family; Region: YabP; cl06766 515620002681 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 515620002682 PhoH-like protein; Region: PhoH; pfam02562 515620002683 AAA domain; Region: AAA_22; pfam13401 515620002684 metal-binding heat shock protein; Provisional; Region: PRK00016 515620002685 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 515620002686 active site 515620002687 catalytic motif [active] 515620002688 Zn binding site [ion binding]; other site 515620002689 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620002690 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620002691 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620002692 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 515620002693 myosin-cross-reactive antigen; Provisional; Region: PRK13977 515620002694 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 515620002695 Cupin domain; Region: Cupin_2; pfam07883 515620002696 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620002697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620002698 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 515620002699 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 515620002700 inhibitor binding site; inhibition site 515620002701 active site 515620002702 flavoprotein, HI0933 family; Region: TIGR00275 515620002703 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 515620002704 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 515620002705 gamma-glutamyl kinase; Provisional; Region: PRK05429 515620002706 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 515620002707 nucleotide binding site [chemical binding]; other site 515620002708 homotetrameric interface [polypeptide binding]; other site 515620002709 putative phosphate binding site [ion binding]; other site 515620002710 putative allosteric binding site; other site 515620002711 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 515620002712 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 515620002713 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 515620002714 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 515620002715 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 515620002716 putative catalytic cysteine [active] 515620002717 PAS fold; Region: PAS_3; pfam08447 515620002718 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620002719 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620002720 metal binding site [ion binding]; metal-binding site 515620002721 active site 515620002722 I-site; other site 515620002723 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 515620002724 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 515620002725 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 515620002726 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 515620002727 FeS/SAM binding site; other site 515620002728 TRAM domain; Region: TRAM; pfam01938 515620002729 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 515620002730 MutS domain I; Region: MutS_I; pfam01624 515620002731 MutS domain II; Region: MutS_II; pfam05188 515620002732 MutS domain III; Region: MutS_III; pfam05192 515620002733 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 515620002734 Walker A/P-loop; other site 515620002735 ATP binding site [chemical binding]; other site 515620002736 Q-loop/lid; other site 515620002737 ABC transporter signature motif; other site 515620002738 Walker B; other site 515620002739 D-loop; other site 515620002740 H-loop/switch region; other site 515620002741 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 515620002742 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620002743 ATP binding site [chemical binding]; other site 515620002744 Mg2+ binding site [ion binding]; other site 515620002745 G-X-G motif; other site 515620002746 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 515620002747 ATP binding site [chemical binding]; other site 515620002748 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 515620002749 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 515620002750 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 515620002751 Aluminium resistance protein; Region: Alum_res; pfam06838 515620002752 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 515620002753 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 515620002754 hypothetical protein; Reviewed; Region: PRK00024 515620002755 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 515620002756 MPN+ (JAMM) motif; other site 515620002757 Zinc-binding site [ion binding]; other site 515620002758 rod shape-determining protein MreB; Provisional; Region: PRK13927 515620002759 MreB and similar proteins; Region: MreB_like; cd10225 515620002760 nucleotide binding site [chemical binding]; other site 515620002761 Mg binding site [ion binding]; other site 515620002762 putative protofilament interaction site [polypeptide binding]; other site 515620002763 RodZ interaction site [polypeptide binding]; other site 515620002764 rod shape-determining protein MreC; Provisional; Region: PRK13922 515620002765 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 515620002766 rod shape-determining protein MreC; Region: MreC; pfam04085 515620002767 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 515620002768 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 515620002769 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 515620002770 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 515620002771 septum formation inhibitor; Reviewed; Region: minC; PRK00513 515620002772 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 515620002773 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 515620002774 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 515620002775 Switch I; other site 515620002776 Switch II; other site 515620002777 Septum formation topological specificity factor MinE; Region: MinE; cl00538 515620002778 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 515620002779 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 515620002780 substrate binding site [chemical binding]; other site 515620002781 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 515620002782 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 515620002783 active site 515620002784 Int/Topo IB signature motif; other site 515620002785 DNA binding site [nucleotide binding] 515620002786 DEAD-like helicases superfamily; Region: DEXDc; smart00487 515620002787 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 515620002788 ATP binding site [chemical binding]; other site 515620002789 putative Mg++ binding site [ion binding]; other site 515620002790 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 515620002791 nucleotide binding region [chemical binding]; other site 515620002792 ATP-binding site [chemical binding]; other site 515620002793 LysM domain; Region: LysM; pfam01476 515620002794 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 515620002795 LexA repressor; Validated; Region: PRK00215 515620002796 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 515620002797 Catalytic site [active] 515620002798 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 515620002799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620002800 Zn2+ binding site [ion binding]; other site 515620002801 Mg2+ binding site [ion binding]; other site 515620002802 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 515620002803 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 515620002804 active site 515620002805 (T/H)XGH motif; other site 515620002806 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 515620002807 GTPase CgtA; Reviewed; Region: obgE; PRK12297 515620002808 GTP1/OBG; Region: GTP1_OBG; pfam01018 515620002809 Obg GTPase; Region: Obg; cd01898 515620002810 G1 box; other site 515620002811 GTP/Mg2+ binding site [chemical binding]; other site 515620002812 Switch I region; other site 515620002813 G2 box; other site 515620002814 G3 box; other site 515620002815 Switch II region; other site 515620002816 G4 box; other site 515620002817 G5 box; other site 515620002818 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 515620002819 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 515620002820 Protein of unknown function (DUF464); Region: DUF464; pfam04327 515620002821 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 515620002822 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 515620002823 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 515620002824 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 515620002825 active site 515620002826 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 515620002827 homodimer interface [polypeptide binding]; other site 515620002828 oligonucleotide binding site [chemical binding]; other site 515620002829 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 515620002830 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 515620002831 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 515620002832 catalytic residues [active] 515620002833 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 515620002834 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 515620002835 putative active site pocket [active] 515620002836 4-fold oligomerization interface [polypeptide binding]; other site 515620002837 metal binding residues [ion binding]; metal-binding site 515620002838 3-fold/trimer interface [polypeptide binding]; other site 515620002839 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 515620002840 histidinol dehydrogenase; Region: hisD; TIGR00069 515620002841 NAD binding site [chemical binding]; other site 515620002842 dimerization interface [polypeptide binding]; other site 515620002843 product binding site; other site 515620002844 substrate binding site [chemical binding]; other site 515620002845 zinc binding site [ion binding]; other site 515620002846 catalytic residues [active] 515620002847 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 515620002848 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 515620002849 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 515620002850 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 515620002851 dimer interface [polypeptide binding]; other site 515620002852 motif 1; other site 515620002853 active site 515620002854 motif 2; other site 515620002855 motif 3; other site 515620002856 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 515620002857 putative active site [active] 515620002858 heme pocket [chemical binding]; other site 515620002859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620002860 metal binding site [ion binding]; metal-binding site 515620002861 active site 515620002862 I-site; other site 515620002863 Recombination protein U; Region: RecU; pfam03838 515620002864 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 515620002865 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 515620002866 active site 515620002867 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 515620002868 hypothetical protein; Provisional; Region: PRK00955 515620002869 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 515620002870 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 515620002871 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 515620002872 RNA binding surface [nucleotide binding]; other site 515620002873 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 515620002874 active site 515620002875 uracil binding [chemical binding]; other site 515620002876 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 515620002877 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 515620002878 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 515620002879 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 515620002880 synthetase active site [active] 515620002881 NTP binding site [chemical binding]; other site 515620002882 metal binding site [ion binding]; metal-binding site 515620002883 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 515620002884 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 515620002885 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 515620002886 active site 515620002887 (T/H)XGH motif; other site 515620002888 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 515620002889 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 515620002890 S-adenosylmethionine binding site [chemical binding]; other site 515620002891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 515620002892 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 515620002893 DNA binding residues [nucleotide binding] 515620002894 dimerization interface [polypeptide binding]; other site 515620002895 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 515620002896 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 515620002897 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 515620002898 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 515620002899 GTP-binding protein Der; Reviewed; Region: PRK00093 515620002900 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 515620002901 G1 box; other site 515620002902 GTP/Mg2+ binding site [chemical binding]; other site 515620002903 Switch I region; other site 515620002904 G2 box; other site 515620002905 Switch II region; other site 515620002906 G3 box; other site 515620002907 G4 box; other site 515620002908 G5 box; other site 515620002909 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 515620002910 G1 box; other site 515620002911 GTP/Mg2+ binding site [chemical binding]; other site 515620002912 Switch I region; other site 515620002913 G2 box; other site 515620002914 G3 box; other site 515620002915 Switch II region; other site 515620002916 G4 box; other site 515620002917 G5 box; other site 515620002918 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 515620002919 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 515620002920 hypothetical protein; Reviewed; Region: PRK12497 515620002921 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 515620002922 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 515620002923 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 515620002924 RNA/DNA hybrid binding site [nucleotide binding]; other site 515620002925 active site 515620002926 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 515620002927 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 515620002928 GTP/Mg2+ binding site [chemical binding]; other site 515620002929 G4 box; other site 515620002930 G5 box; other site 515620002931 G1 box; other site 515620002932 Switch I region; other site 515620002933 G2 box; other site 515620002934 G3 box; other site 515620002935 Switch II region; other site 515620002936 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 515620002937 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 515620002938 Catalytic site [active] 515620002939 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 515620002940 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 515620002941 RimM N-terminal domain; Region: RimM; pfam01782 515620002942 PRC-barrel domain; Region: PRC; pfam05239 515620002943 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 515620002944 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 515620002945 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 515620002946 signal recognition particle protein; Provisional; Region: PRK10867 515620002947 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 515620002948 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 515620002949 P loop; other site 515620002950 GTP binding site [chemical binding]; other site 515620002951 Signal peptide binding domain; Region: SRP_SPB; pfam02978 515620002952 putative DNA-binding protein; Validated; Region: PRK00118 515620002953 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 515620002954 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 515620002955 Domain of unknown function DUF20; Region: UPF0118; pfam01594 515620002956 threonine dehydratase; Provisional; Region: PRK08198 515620002957 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 515620002958 tetramer interface [polypeptide binding]; other site 515620002959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620002960 catalytic residue [active] 515620002961 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 515620002962 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 515620002963 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 515620002964 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 515620002965 P loop; other site 515620002966 GTP binding site [chemical binding]; other site 515620002967 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 515620002968 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 515620002969 Walker A/P-loop; other site 515620002970 ATP binding site [chemical binding]; other site 515620002971 Q-loop/lid; other site 515620002972 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 515620002973 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 515620002974 ABC transporter signature motif; other site 515620002975 Walker B; other site 515620002976 D-loop; other site 515620002977 H-loop/switch region; other site 515620002978 ribonuclease III; Reviewed; Region: rnc; PRK00102 515620002979 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 515620002980 dimerization interface [polypeptide binding]; other site 515620002981 active site 515620002982 metal binding site [ion binding]; metal-binding site 515620002983 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 515620002984 dsRNA binding site [nucleotide binding]; other site 515620002985 acyl carrier protein; Provisional; Region: acpP; PRK00982 515620002986 putative phosphate acyltransferase; Provisional; Region: PRK05331 515620002987 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 515620002988 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 515620002989 propionate/acetate kinase; Provisional; Region: PRK12379 515620002990 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 515620002991 hypothetical protein; Provisional; Region: PRK13670 515620002992 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 515620002993 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 515620002994 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 515620002995 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 515620002996 Cell division protein FtsA; Region: FtsA; smart00842 515620002997 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 515620002998 nucleotide binding site [chemical binding]; other site 515620002999 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 515620003000 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 515620003001 CoA-binding site [chemical binding]; other site 515620003002 ATP-binding [chemical binding]; other site 515620003003 DNA polymerase I; Provisional; Region: PRK05755 515620003004 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 515620003005 active site 515620003006 metal binding site 1 [ion binding]; metal-binding site 515620003007 putative 5' ssDNA interaction site; other site 515620003008 metal binding site 3; metal-binding site 515620003009 metal binding site 2 [ion binding]; metal-binding site 515620003010 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 515620003011 putative DNA binding site [nucleotide binding]; other site 515620003012 putative metal binding site [ion binding]; other site 515620003013 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 515620003014 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 515620003015 active site 515620003016 DNA binding site [nucleotide binding] 515620003017 catalytic site [active] 515620003018 Putative zinc-finger; Region: zf-HC2; pfam13490 515620003019 glycogen synthase; Provisional; Region: glgA; PRK00654 515620003020 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 515620003021 ADP-binding pocket [chemical binding]; other site 515620003022 homodimer interface [polypeptide binding]; other site 515620003023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 515620003024 NlpC/P60 family; Region: NLPC_P60; pfam00877 515620003025 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 515620003026 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 515620003027 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620003028 active site 515620003029 phosphorylation site [posttranslational modification] 515620003030 intermolecular recognition site; other site 515620003031 dimerization interface [polypeptide binding]; other site 515620003032 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 515620003033 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 515620003034 Na2 binding site [ion binding]; other site 515620003035 putative substrate binding site 1 [chemical binding]; other site 515620003036 Na binding site 1 [ion binding]; other site 515620003037 putative substrate binding site 2 [chemical binding]; other site 515620003038 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 515620003039 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 515620003040 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 515620003041 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 515620003042 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 515620003043 Walker A/P-loop; other site 515620003044 ATP binding site [chemical binding]; other site 515620003045 Q-loop/lid; other site 515620003046 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 515620003047 Q-loop/lid; other site 515620003048 ABC transporter signature motif; other site 515620003049 Walker B; other site 515620003050 D-loop; other site 515620003051 H-loop/switch region; other site 515620003052 arginine repressor; Provisional; Region: argR; PRK00441 515620003053 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 515620003054 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 515620003055 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 515620003056 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 515620003057 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 515620003058 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 515620003059 RNA binding surface [nucleotide binding]; other site 515620003060 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 515620003061 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 515620003062 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 515620003063 TPP-binding site; other site 515620003064 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 515620003065 PYR/PP interface [polypeptide binding]; other site 515620003066 dimer interface [polypeptide binding]; other site 515620003067 TPP binding site [chemical binding]; other site 515620003068 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 515620003069 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 515620003070 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 515620003071 substrate binding pocket [chemical binding]; other site 515620003072 chain length determination region; other site 515620003073 substrate-Mg2+ binding site; other site 515620003074 catalytic residues [active] 515620003075 aspartate-rich region 1; other site 515620003076 active site lid residues [active] 515620003077 aspartate-rich region 2; other site 515620003078 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 515620003079 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 515620003080 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 515620003081 generic binding surface II; other site 515620003082 generic binding surface I; other site 515620003083 transcription antitermination factor NusB; Region: nusB; TIGR01951 515620003084 putative RNA binding site [nucleotide binding]; other site 515620003085 Asp23 family; Region: Asp23; pfam03780 515620003086 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 515620003087 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 515620003088 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl17562 515620003089 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 515620003090 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 515620003091 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 515620003092 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 515620003093 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 515620003094 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620003095 Walker A motif; other site 515620003096 ATP binding site [chemical binding]; other site 515620003097 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620003098 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 515620003099 FtsX-like permease family; Region: FtsX; pfam02687 515620003100 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620003101 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 515620003102 FtsX-like permease family; Region: FtsX; pfam02687 515620003103 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620003104 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620003105 Walker A/P-loop; other site 515620003106 ATP binding site [chemical binding]; other site 515620003107 Q-loop/lid; other site 515620003108 ABC transporter signature motif; other site 515620003109 Walker B; other site 515620003110 D-loop; other site 515620003111 H-loop/switch region; other site 515620003112 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 515620003113 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 515620003114 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 515620003115 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 515620003116 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 515620003117 putative active site [active] 515620003118 putative metal binding site [ion binding]; other site 515620003119 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 515620003120 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 515620003121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620003122 Walker A/P-loop; other site 515620003123 ATP binding site [chemical binding]; other site 515620003124 Q-loop/lid; other site 515620003125 ABC transporter signature motif; other site 515620003126 Walker B; other site 515620003127 D-loop; other site 515620003128 H-loop/switch region; other site 515620003129 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 515620003130 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 515620003131 active site 515620003132 Fic family protein [Function unknown]; Region: COG3177 515620003133 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 515620003134 Fic/DOC family; Region: Fic; pfam02661 515620003135 V-type ATP synthase subunit I; Validated; Region: PRK05771 515620003136 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 515620003137 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 515620003138 NADP binding site [chemical binding]; other site 515620003139 homodimer interface [polypeptide binding]; other site 515620003140 active site 515620003141 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 515620003142 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 515620003143 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 515620003144 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 515620003145 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 515620003146 phosphopentomutase; Provisional; Region: PRK05362 515620003147 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 515620003148 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 515620003149 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 515620003150 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 515620003151 dimer interface [polypeptide binding]; other site 515620003152 ADP-ribose binding site [chemical binding]; other site 515620003153 active site 515620003154 nudix motif; other site 515620003155 metal binding site [ion binding]; metal-binding site 515620003156 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 515620003157 pyrroline-5-carboxylate reductase; Region: PLN02688 515620003158 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 515620003159 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 515620003160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620003161 catalytic residue [active] 515620003162 phosphodiesterase; Provisional; Region: PRK12704 515620003163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620003164 Zn2+ binding site [ion binding]; other site 515620003165 Mg2+ binding site [ion binding]; other site 515620003166 recombination regulator RecX; Reviewed; Region: recX; PRK00117 515620003167 recombinase A; Provisional; Region: recA; PRK09354 515620003168 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 515620003169 hexamer interface [polypeptide binding]; other site 515620003170 Walker A motif; other site 515620003171 ATP binding site [chemical binding]; other site 515620003172 Walker B motif; other site 515620003173 Competence-damaged protein; Region: CinA; pfam02464 515620003174 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 515620003175 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 515620003176 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 515620003177 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 515620003178 FeS/SAM binding site; other site 515620003179 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 515620003180 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 515620003181 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 515620003182 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 515620003183 S-adenosylmethionine binding site [chemical binding]; other site 515620003184 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 515620003185 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 515620003186 catalytic site [active] 515620003187 G-X2-G-X-G-K; other site 515620003188 hypothetical protein; Provisional; Region: PRK11820 515620003189 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 515620003190 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 515620003191 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 515620003192 Domain of unknown function (DUF814); Region: DUF814; pfam05670 515620003193 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 515620003194 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 515620003195 active site 515620003196 HIGH motif; other site 515620003197 dimer interface [polypeptide binding]; other site 515620003198 KMSKS motif; other site 515620003199 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 515620003200 RNA binding surface [nucleotide binding]; other site 515620003201 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 515620003202 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 515620003203 domain interfaces; other site 515620003204 active site 515620003205 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 515620003206 nucleotide binding site [chemical binding]; other site 515620003207 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 515620003208 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 515620003209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 515620003210 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 515620003211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 515620003212 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 515620003213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620003214 Walker A/P-loop; other site 515620003215 ATP binding site [chemical binding]; other site 515620003216 Q-loop/lid; other site 515620003217 ABC transporter signature motif; other site 515620003218 Walker B; other site 515620003219 D-loop; other site 515620003220 H-loop/switch region; other site 515620003221 Histidine kinase-like ATPases; This family includes several ATP-binding 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 515620003222 ATP binding site [chemical binding]; other site 515620003223 Mg2+ binding site [ion binding]; other site 515620003224 G-X-G motif; other site 515620003225 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620003226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620003227 active site 515620003228 phosphorylation site [posttranslational modification] 515620003229 intermolecular recognition site; other site 515620003230 LytTr DNA-binding domain; Region: LytTR; smart00850 515620003231 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 515620003232 Na binding site [ion binding]; other site 515620003233 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 515620003234 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 515620003235 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 515620003236 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 515620003237 RNA binding surface [nucleotide binding]; other site 515620003238 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 515620003239 active site 515620003240 lipoprotein signal peptidase; Provisional; Region: PRK14767 515620003241 lipoprotein signal peptidase; Provisional; Region: PRK14787 515620003242 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 515620003243 active site 515620003244 dimer interface [polypeptide binding]; other site 515620003245 metal binding site [ion binding]; metal-binding site 515620003246 Protein of unknown function (DUF552); Region: DUF552; pfam04472 515620003247 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 515620003248 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 515620003249 catalytic residue [active] 515620003250 HlyD family secretion protein; Region: HlyD_2; pfam12700 515620003251 Domain of unknown function (DUF378); Region: DUF378; cl00943 515620003252 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 515620003253 Flavoprotein; Region: Flavoprotein; pfam02441 515620003254 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 515620003255 Type III pantothenate kinase; Region: Pan_kinase; cl17198 515620003256 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 515620003257 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 515620003258 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 515620003259 FeS/SAM binding site; other site 515620003260 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 515620003261 regulatory protein interface [polypeptide binding]; other site 515620003262 regulatory phosphorylation site [posttranslational modification]; other site 515620003263 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 515620003264 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 515620003265 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 515620003266 Ligand Binding Site [chemical binding]; other site 515620003267 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 515620003268 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 515620003269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620003270 catalytic residue [active] 515620003271 RNA methyltransferase, RsmE family; Region: TIGR00046 515620003272 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 515620003273 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 515620003274 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 515620003275 S-adenosylmethionine binding site [chemical binding]; other site 515620003276 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 515620003277 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 515620003278 oligomer interface [polypeptide binding]; other site 515620003279 putative active site [active] 515620003280 metal binding site [ion binding]; metal-binding site 515620003281 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 515620003282 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 515620003283 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 515620003284 Stage II sporulation protein; Region: SpoIID; pfam08486 515620003285 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 515620003286 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 515620003287 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 515620003288 active site 515620003289 substrate-binding site [chemical binding]; other site 515620003290 metal-binding site [ion binding] 515620003291 ATP binding site [chemical binding]; other site 515620003292 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 515620003293 hypothetical protein; Provisional; Region: PRK09273 515620003294 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 515620003295 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 515620003296 BioY family; Region: BioY; pfam02632 515620003297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 515620003298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620003299 Coenzyme A binding pocket [chemical binding]; other site 515620003300 putative pectinesterase; Region: PLN02432; cl01911 515620003301 Pectinesterase; Region: Pectinesterase; pfam01095 515620003302 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 515620003303 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620003304 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620003305 dimerization interface [polypeptide binding]; other site 515620003306 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620003307 dimer interface [polypeptide binding]; other site 515620003308 phosphorylation site [posttranslational modification] 515620003309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620003310 ATP binding site [chemical binding]; other site 515620003311 Mg2+ binding site [ion binding]; other site 515620003312 G-X-G motif; other site 515620003313 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620003314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620003315 active site 515620003316 phosphorylation site [posttranslational modification] 515620003317 intermolecular recognition site; other site 515620003318 dimerization interface [polypeptide binding]; other site 515620003319 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620003320 DNA binding site [nucleotide binding] 515620003321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 515620003322 Zn2+ binding site [ion binding]; other site 515620003323 Mg2+ binding site [ion binding]; other site 515620003324 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 515620003325 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 515620003326 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 515620003327 SmpB-tmRNA interface; other site 515620003328 ribonuclease R; Region: RNase_R; TIGR02063 515620003329 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 515620003330 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 515620003331 RNB domain; Region: RNB; pfam00773 515620003332 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 515620003333 RNA binding site [nucleotide binding]; other site 515620003334 Preprotein translocase SecG subunit; Region: SecG; cl09123 515620003335 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 515620003336 phosphoglyceromutase; Provisional; Region: PRK05434 515620003337 triosephosphate isomerase; Provisional; Region: PRK14567 515620003338 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 515620003339 substrate binding site [chemical binding]; other site 515620003340 dimer interface [polypeptide binding]; other site 515620003341 catalytic triad [active] 515620003342 Phosphoglycerate kinase; Region: PGK; pfam00162 515620003343 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 515620003344 substrate binding site [chemical binding]; other site 515620003345 hinge regions; other site 515620003346 ADP binding site [chemical binding]; other site 515620003347 catalytic site [active] 515620003348 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 515620003349 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 515620003350 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 515620003351 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 515620003352 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 515620003353 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 515620003354 PhoU domain; Region: PhoU; pfam01895 515620003355 PhoU domain; Region: PhoU; pfam01895 515620003356 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 515620003357 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 515620003358 active site 515620003359 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 515620003360 active site 515620003361 catalytic site [active] 515620003362 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 515620003363 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 515620003364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620003365 catalytic residue [active] 515620003366 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 515620003367 Homoserine O-succinyltransferase; Region: HTS; pfam04204 515620003368 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 515620003369 proposed active site lysine [active] 515620003370 conserved cys residue [active] 515620003371 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 515620003372 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 515620003373 nucleotide binding pocket [chemical binding]; other site 515620003374 K-X-D-G motif; other site 515620003375 catalytic site [active] 515620003376 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 515620003377 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 515620003378 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 515620003379 Dimer interface [polypeptide binding]; other site 515620003380 BRCT sequence motif; other site 515620003381 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 515620003382 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 515620003383 RNA binding surface [nucleotide binding]; other site 515620003384 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 515620003385 probable active site [active] 515620003386 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 515620003387 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 515620003388 metal binding site [ion binding]; metal-binding site 515620003389 dimer interface [polypeptide binding]; other site 515620003390 stage II sporulation protein P; Region: spore_II_P; TIGR02867 515620003391 germination protease; Provisional; Region: PRK12362 515620003392 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 515620003393 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 515620003394 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 515620003395 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 515620003396 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 515620003397 Competence protein; Region: Competence; pfam03772 515620003398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 515620003399 Sporulation and spore germination; Region: Germane; pfam10646 515620003400 Sporulation and spore germination; Region: Germane; pfam10646 515620003401 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620003402 dimerization interface [polypeptide binding]; other site 515620003403 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620003404 dimer interface [polypeptide binding]; other site 515620003405 phosphorylation site [posttranslational modification] 515620003406 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620003407 ATP binding site [chemical binding]; other site 515620003408 Mg2+ binding site [ion binding]; other site 515620003409 G-X-G motif; other site 515620003410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620003411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620003412 active site 515620003413 phosphorylation site [posttranslational modification] 515620003414 intermolecular recognition site; other site 515620003415 dimerization interface [polypeptide binding]; other site 515620003416 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620003417 DNA binding site [nucleotide binding] 515620003418 SLBB domain; Region: SLBB; pfam10531 515620003419 comEA protein; Region: comE; TIGR01259 515620003420 Helix-hairpin-helix motif; Region: HHH; pfam00633 515620003421 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 515620003422 argininosuccinate lyase; Provisional; Region: PRK00855 515620003423 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 515620003424 active sites [active] 515620003425 tetramer interface [polypeptide binding]; other site 515620003426 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]; Region: GyrA; COG0188 515620003427 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 515620003428 CAP-like domain; other site 515620003429 active site 515620003430 primary dimer interface [polypeptide binding]; other site 515620003431 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620003432 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 515620003433 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 515620003434 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620003435 ATP binding site [chemical binding]; other site 515620003436 Mg2+ binding site [ion binding]; other site 515620003437 G-X-G motif; other site 515620003438 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 515620003439 anchoring element; other site 515620003440 dimer interface [polypeptide binding]; other site 515620003441 ATP binding site [chemical binding]; other site 515620003442 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 515620003443 active site 515620003444 putative metal-binding site [ion binding]; other site 515620003445 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 515620003446 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 515620003447 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 515620003448 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 515620003449 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 515620003450 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 515620003451 active site 515620003452 motif I; other site 515620003453 motif II; other site 515620003454 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 515620003455 Maf-like protein; Region: Maf; pfam02545 515620003456 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 515620003457 active site 515620003458 dimer interface [polypeptide binding]; other site 515620003459 2-isopropylmalate synthase; Validated; Region: PRK03739 515620003460 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 515620003461 active site 515620003462 catalytic residues [active] 515620003463 metal binding site [ion binding]; metal-binding site 515620003464 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 515620003465 Protein of unknown function DUF58; Region: DUF58; pfam01882 515620003466 MoxR-like ATPases [General function prediction only]; Region: COG0714 515620003467 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620003468 Walker A motif; other site 515620003469 ATP binding site [chemical binding]; other site 515620003470 Walker B motif; other site 515620003471 arginine finger; other site 515620003472 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 515620003473 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 515620003474 AsnC family; Region: AsnC_trans_reg; pfam01037 515620003475 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 515620003476 Part of AAA domain; Region: AAA_19; pfam13245 515620003477 AAA domain; Region: AAA_14; pfam13173 515620003478 Family description; Region: UvrD_C_2; pfam13538 515620003479 transcription elongation factor GreA; Region: greA; TIGR01462 515620003480 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 515620003481 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 515620003482 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620003483 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 515620003484 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 515620003485 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 515620003486 Interdomain contacts; other site 515620003487 Cytokine receptor motif; other site 515620003488 Pectinesterase; Region: Pectinesterase; pfam01095 515620003489 putative pectinesterase; Region: PLN02432; cl01911 515620003490 Cupin domain; Region: Cupin_2; cl17218 515620003491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620003492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620003493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620003494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620003495 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620003496 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 515620003497 non-specific DNA binding site [nucleotide binding]; other site 515620003498 salt bridge; other site 515620003499 sequence-specific DNA binding site [nucleotide binding]; other site 515620003500 GGGtGRT protein; Region: GGGtGRT; pfam14057 515620003501 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 515620003502 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 515620003503 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 515620003504 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 515620003505 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 515620003506 glutaminase active site [active] 515620003507 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 515620003508 dimer interface [polypeptide binding]; other site 515620003509 active site 515620003510 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 515620003511 dimer interface [polypeptide binding]; other site 515620003512 active site 515620003513 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 515620003514 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 515620003515 active site 515620003516 putative interdomain interaction site [polypeptide binding]; other site 515620003517 putative metal-binding site [ion binding]; other site 515620003518 putative nucleotide binding site [chemical binding]; other site 515620003519 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 515620003520 domain I; other site 515620003521 DNA binding groove [nucleotide binding] 515620003522 phosphate binding site [ion binding]; other site 515620003523 domain II; other site 515620003524 domain III; other site 515620003525 nucleotide binding site [chemical binding]; other site 515620003526 catalytic site [active] 515620003527 domain IV; other site 515620003528 HD domain; Region: HD_3; cl17350 515620003529 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 515620003530 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 515620003531 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 515620003532 Pectate lyase; Region: Pec_lyase_C; cl01593 515620003533 Right handed beta helix region; Region: Beta_helix; pfam13229 515620003534 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 515620003535 Pectate lyase; Region: Pec_lyase_C; cl01593 515620003536 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620003537 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 515620003538 putative active site [active] 515620003539 putative metal binding site [ion binding]; other site 515620003540 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 515620003541 putative active site [active] 515620003542 putative metal binding site [ion binding]; other site 515620003543 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 515620003544 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 515620003545 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 515620003546 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 515620003547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620003548 homodimer interface [polypeptide binding]; other site 515620003549 catalytic residue [active] 515620003550 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 515620003551 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 515620003552 active site 515620003553 intersubunit interface [polypeptide binding]; other site 515620003554 catalytic residue [active] 515620003555 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 515620003556 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620003557 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620003558 active site 515620003559 uracil-xanthine permease; Region: ncs2; TIGR00801 515620003560 pyruvate phosphate dikinase; Provisional; Region: PRK09279 515620003561 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 515620003562 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 515620003563 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 515620003564 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 515620003565 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 515620003566 Clp amino terminal domain; Region: Clp_N; pfam02861 515620003567 Clp amino terminal domain; Region: Clp_N; pfam02861 515620003568 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620003569 Walker A motif; other site 515620003570 ATP binding site [chemical binding]; other site 515620003571 Walker B motif; other site 515620003572 arginine finger; other site 515620003573 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620003574 Walker A motif; other site 515620003575 ATP binding site [chemical binding]; other site 515620003576 Walker B motif; other site 515620003577 arginine finger; other site 515620003578 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 515620003579 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 515620003580 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 515620003581 MOFRL family; Region: MOFRL; pfam05161 515620003582 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 515620003583 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 515620003584 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 515620003585 fructuronate transporter; Provisional; Region: PRK10034; cl15264 515620003586 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 515620003587 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 515620003588 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 515620003589 hybrid cluster protein; Provisional; Region: PRK05290 515620003590 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 515620003591 ACS interaction site; other site 515620003592 CODH interaction site; other site 515620003593 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 515620003594 ACS interaction site; other site 515620003595 CODH interaction site; other site 515620003596 metal cluster binding site [ion binding]; other site 515620003597 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 515620003598 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 515620003599 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 515620003600 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 515620003601 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 515620003602 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 515620003603 active site 515620003604 metal binding site [ion binding]; metal-binding site 515620003605 Sporulation related domain; Region: SPOR; pfam05036 515620003606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 515620003607 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 515620003608 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620003609 Double zinc ribbon; Region: DZR; pfam12773 515620003610 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 515620003611 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 515620003612 folate binding site [chemical binding]; other site 515620003613 NADP+ binding site [chemical binding]; other site 515620003614 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 515620003615 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 515620003616 HflX GTPase family; Region: HflX; cd01878 515620003617 G1 box; other site 515620003618 GTP/Mg2+ binding site [chemical binding]; other site 515620003619 Switch I region; other site 515620003620 G2 box; other site 515620003621 G3 box; other site 515620003622 Switch II region; other site 515620003623 G4 box; other site 515620003624 G5 box; other site 515620003625 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 515620003626 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 515620003627 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 515620003628 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 515620003629 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 515620003630 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 515620003631 active site 515620003632 catalytic site [active] 515620003633 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 515620003634 isocitrate dehydrogenase; Validated; Region: PRK08299 515620003635 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 515620003636 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 515620003637 active site 515620003638 dimer interface [polypeptide binding]; other site 515620003639 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 515620003640 Ligand Binding Site [chemical binding]; other site 515620003641 Molecular Tunnel; other site 515620003642 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 515620003643 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 515620003644 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 515620003645 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 515620003646 putative deacylase active site [active] 515620003647 glutamate racemase; Provisional; Region: PRK00865 515620003648 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex; Region: TAF9; cl17378 515620003649 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 515620003650 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 515620003651 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 515620003652 FAD binding site [chemical binding]; other site 515620003653 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 515620003654 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 515620003655 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 515620003656 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 515620003657 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 515620003658 Eukaryotic phosphomannomutase; Region: PMM; cl17107 515620003659 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 515620003660 motif II; other site 515620003661 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 515620003662 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 515620003663 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 515620003664 motif II; other site 515620003665 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 515620003666 NAD synthetase; Reviewed; Region: nadE; PRK02628 515620003667 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 515620003668 multimer interface [polypeptide binding]; other site 515620003669 active site 515620003670 catalytic triad [active] 515620003671 protein interface 1 [polypeptide binding]; other site 515620003672 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 515620003673 homodimer interface [polypeptide binding]; other site 515620003674 NAD binding pocket [chemical binding]; other site 515620003675 ATP binding pocket [chemical binding]; other site 515620003676 Mg binding site [ion binding]; other site 515620003677 active-site loop [active] 515620003678 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 515620003679 PAS domain; Region: PAS_9; pfam13426 515620003680 putative active site [active] 515620003681 heme pocket [chemical binding]; other site 515620003682 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 515620003683 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 515620003684 HIGH motif; other site 515620003685 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 515620003686 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 515620003687 active site 515620003688 KMSKS motif; other site 515620003689 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 515620003690 tRNA binding surface [nucleotide binding]; other site 515620003691 anticodon binding site; other site 515620003692 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 515620003693 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 515620003694 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 515620003695 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 515620003696 4Fe-4S binding domain; Region: Fer4_6; pfam12837 515620003697 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 515620003698 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 515620003699 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620003700 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620003701 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620003702 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 515620003703 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 515620003704 dimerization domain swap beta strand [polypeptide binding]; other site 515620003705 regulatory protein interface [polypeptide binding]; other site 515620003706 active site 515620003707 regulatory phosphorylation site [posttranslational modification]; other site 515620003708 Domain of unknown function (DUF3837); Region: DUF3837; pfam12939 515620003709 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 515620003710 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 515620003711 substrate binding site [chemical binding]; other site 515620003712 active site 515620003713 catalytic residues [active] 515620003714 heterodimer interface [polypeptide binding]; other site 515620003715 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 515620003716 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 515620003717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620003718 catalytic residue [active] 515620003719 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 515620003720 active site 515620003721 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 515620003722 active site 515620003723 ribulose/triose binding site [chemical binding]; other site 515620003724 phosphate binding site [ion binding]; other site 515620003725 substrate (anthranilate) binding pocket [chemical binding]; other site 515620003726 product (indole) binding pocket [chemical binding]; other site 515620003727 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 515620003728 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 515620003729 glutamine binding [chemical binding]; other site 515620003730 catalytic triad [active] 515620003731 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 515620003732 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 515620003733 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 515620003734 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 515620003735 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 515620003736 TPR motif; other site 515620003737 binding surface 515620003738 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 515620003739 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 515620003740 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 515620003741 MFS/sugar transport protein; Region: MFS_2; pfam13347 515620003742 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 515620003743 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 515620003744 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 515620003745 FeS/SAM binding site; other site 515620003746 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 515620003747 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 515620003748 active site 515620003749 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 515620003750 active site 515620003751 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 515620003752 DHH family; Region: DHH; pfam01368 515620003753 DHHA1 domain; Region: DHHA1; pfam02272 515620003754 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 515620003755 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 515620003756 Walker A/P-loop; other site 515620003757 ATP binding site [chemical binding]; other site 515620003758 Q-loop/lid; other site 515620003759 ABC transporter signature motif; other site 515620003760 Walker B; other site 515620003761 D-loop; other site 515620003762 H-loop/switch region; other site 515620003763 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 515620003764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620003765 dimer interface [polypeptide binding]; other site 515620003766 conserved gate region; other site 515620003767 putative PBP binding loops; other site 515620003768 ABC-ATPase subunit interface; other site 515620003769 heat shock protein 90; Provisional; Region: PRK05218 515620003770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620003771 ATP binding site [chemical binding]; other site 515620003772 Mg2+ binding site [ion binding]; other site 515620003773 G-X-G motif; other site 515620003774 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 515620003775 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 515620003776 Catalytic site [active] 515620003777 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 515620003778 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 515620003779 elongation factor P; Validated; Region: PRK00529 515620003780 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 515620003781 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 515620003782 RNA binding site [nucleotide binding]; other site 515620003783 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 515620003784 RNA binding site [nucleotide binding]; other site 515620003785 Dehydroquinase class II; Region: DHquinase_II; pfam01220 515620003786 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 515620003787 trimer interface [polypeptide binding]; other site 515620003788 active site 515620003789 dimer interface [polypeptide binding]; other site 515620003790 shikimate kinase; Reviewed; Region: aroK; PRK00131 515620003791 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 515620003792 ADP binding site [chemical binding]; other site 515620003793 magnesium binding site [ion binding]; other site 515620003794 putative shikimate binding site; other site 515620003795 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 515620003796 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 515620003797 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 515620003798 shikimate binding site; other site 515620003799 NAD(P) binding site [chemical binding]; other site 515620003800 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 515620003801 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 515620003802 active site 515620003803 motif I; other site 515620003804 motif II; other site 515620003805 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 515620003806 ATP cone domain; Region: ATP-cone; pfam03477 515620003807 sporulation sigma factor SigG; Reviewed; Region: PRK08215 515620003808 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620003809 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 515620003810 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620003811 DNA binding residues [nucleotide binding] 515620003812 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 515620003813 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 515620003814 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 515620003815 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 515620003816 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 515620003817 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 515620003818 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 515620003819 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 515620003820 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 515620003821 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 515620003822 active site 515620003823 HIGH motif; other site 515620003824 dimer interface [polypeptide binding]; other site 515620003825 KMSKS motif; other site 515620003826 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620003827 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620003828 Predicted integral membrane protein [Function unknown]; Region: COG5652 515620003829 PilZ domain; Region: PilZ; pfam07238 515620003830 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 515620003831 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 515620003832 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 515620003833 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 515620003834 putative tRNA-binding site [nucleotide binding]; other site 515620003835 B3/4 domain; Region: B3_4; pfam03483 515620003836 tRNA synthetase B5 domain; Region: B5; pfam03484 515620003837 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 515620003838 dimer interface [polypeptide binding]; other site 515620003839 motif 1; other site 515620003840 motif 3; other site 515620003841 motif 2; other site 515620003842 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 515620003843 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 515620003844 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 515620003845 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 515620003846 dimer interface [polypeptide binding]; other site 515620003847 motif 1; other site 515620003848 active site 515620003849 motif 2; other site 515620003850 motif 3; other site 515620003851 TPR repeat; Region: TPR_11; pfam13414 515620003852 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 515620003853 binding surface 515620003854 TPR motif; other site 515620003855 recombination factor protein RarA; Reviewed; Region: PRK13342 515620003856 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620003857 Walker A motif; other site 515620003858 ATP binding site [chemical binding]; other site 515620003859 Walker B motif; other site 515620003860 arginine finger; other site 515620003861 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 515620003862 glycyl-tRNA synthetase; Provisional; Region: PRK04173 515620003863 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 515620003864 motif 1; other site 515620003865 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 515620003866 active site 515620003867 motif 2; other site 515620003868 motif 3; other site 515620003869 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 515620003870 anticodon binding site; other site 515620003871 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 515620003872 FeS/SAM binding site; other site 515620003873 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 515620003874 dimer interface [polypeptide binding]; other site 515620003875 pyridoxal binding site [chemical binding]; other site 515620003876 ATP binding site [chemical binding]; other site 515620003877 Recombination protein O N terminal; Region: RecO_N; pfam11967 515620003878 DNA repair protein RecO; Region: reco; TIGR00613 515620003879 Recombination protein O C terminal; Region: RecO_C; pfam02565 515620003880 GTPase Era; Reviewed; Region: era; PRK00089 515620003881 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 515620003882 G1 box; other site 515620003883 GTP/Mg2+ binding site [chemical binding]; other site 515620003884 Switch I region; other site 515620003885 G2 box; other site 515620003886 Switch II region; other site 515620003887 G3 box; other site 515620003888 G4 box; other site 515620003889 G5 box; other site 515620003890 KH domain; Region: KH_2; pfam07650 515620003891 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 515620003892 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 515620003893 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 515620003894 Peptidase M16C associated; Region: M16C_assoc; pfam08367 515620003895 chaperone protein DnaJ; Provisional; Region: PRK10767 515620003896 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 515620003897 HSP70 interaction site [polypeptide binding]; other site 515620003898 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 515620003899 substrate binding site [polypeptide binding]; other site 515620003900 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 515620003901 Zn binding sites [ion binding]; other site 515620003902 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 515620003903 dimer interface [polypeptide binding]; other site 515620003904 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 515620003905 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 515620003906 nucleotide binding site [chemical binding]; other site 515620003907 NEF interaction site [polypeptide binding]; other site 515620003908 SBD interface [polypeptide binding]; other site 515620003909 GrpE; Region: GrpE; pfam01025 515620003910 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 515620003911 dimer interface [polypeptide binding]; other site 515620003912 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 515620003913 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 515620003914 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 515620003915 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 515620003916 putative active site [active] 515620003917 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 515620003918 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 515620003919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620003920 catalytic residue [active] 515620003921 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 515620003922 DNA binding site [nucleotide binding] 515620003923 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 515620003924 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 515620003925 substrate binding site [chemical binding]; other site 515620003926 ligand binding site [chemical binding]; other site 515620003927 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 515620003928 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 515620003929 substrate binding site [chemical binding]; other site 515620003930 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 515620003931 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 515620003932 substrate binding site [chemical binding]; other site 515620003933 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 515620003934 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 515620003935 substrate binding site [chemical binding]; other site 515620003936 ligand binding site [chemical binding]; other site 515620003937 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 515620003938 putative dimer interface [polypeptide binding]; other site 515620003939 catalytic triad [active] 515620003940 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 515620003941 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 515620003942 domain interfaces; other site 515620003943 active site 515620003944 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 515620003945 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 515620003946 ketol-acid reductoisomerase; Provisional; Region: PRK05479 515620003947 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 515620003948 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 515620003949 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 515620003950 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 515620003951 putative valine binding site [chemical binding]; other site 515620003952 dimer interface [polypeptide binding]; other site 515620003953 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 515620003954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620003955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620003956 metal binding site [ion binding]; metal-binding site 515620003957 active site 515620003958 I-site; other site 515620003959 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 515620003960 Domain of unknown function DUF21; Region: DUF21; pfam01595 515620003961 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 515620003962 Transporter associated domain; Region: CorC_HlyC; pfam03471 515620003963 PemK-like protein; Region: PemK; pfam02452 515620003964 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 515620003965 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 515620003966 putative substrate binding site [chemical binding]; other site 515620003967 putative ATP binding site [chemical binding]; other site 515620003968 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 515620003969 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 515620003970 CoA binding domain; Region: CoA_binding; pfam02629 515620003971 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 515620003972 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 515620003973 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 515620003974 substrate binding pocket [chemical binding]; other site 515620003975 dimer interface [polypeptide binding]; other site 515620003976 inhibitor binding site; inhibition site 515620003977 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 515620003978 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 515620003979 B12 binding site [chemical binding]; other site 515620003980 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 515620003981 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 515620003982 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 515620003983 ATP binding site [chemical binding]; other site 515620003984 Mg++ binding site [ion binding]; other site 515620003985 motif III; other site 515620003986 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 515620003987 nucleotide binding region [chemical binding]; other site 515620003988 ATP-binding site [chemical binding]; other site 515620003989 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 515620003990 RNA binding site [nucleotide binding]; other site 515620003991 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 515620003992 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620003993 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620003994 ABC transporter; Region: ABC_tran_2; pfam12848 515620003995 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620003996 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 515620003997 IHF - DNA interface [nucleotide binding]; other site 515620003998 IHF dimer interface [polypeptide binding]; other site 515620003999 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 515620004000 putative active site [active] 515620004001 putative metal binding residues [ion binding]; other site 515620004002 signature motif; other site 515620004003 putative dimer interface [polypeptide binding]; other site 515620004004 putative phosphate binding site [ion binding]; other site 515620004005 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 515620004006 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 515620004007 Cl- selectivity filter; other site 515620004008 Cl- binding residues [ion binding]; other site 515620004009 pore gating glutamate residue; other site 515620004010 dimer interface [polypeptide binding]; other site 515620004011 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 515620004012 DHH family; Region: DHH; pfam01368 515620004013 DHHA1 domain; Region: DHHA1; pfam02272 515620004014 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 515620004015 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 515620004016 Protein export membrane protein; Region: SecD_SecF; cl14618 515620004017 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 515620004018 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 515620004019 FeS/SAM binding site; other site 515620004020 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 515620004021 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 515620004022 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620004023 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 515620004024 methionine aminopeptidase; Provisional; Region: PRK12318 515620004025 SEC-C motif; Region: SEC-C; pfam02810 515620004026 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 515620004027 active site 515620004028 enolase; Provisional; Region: eno; PRK00077 515620004029 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 515620004030 dimer interface [polypeptide binding]; other site 515620004031 metal binding site [ion binding]; metal-binding site 515620004032 substrate binding pocket [chemical binding]; other site 515620004033 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 515620004034 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 515620004035 Walker A/P-loop; other site 515620004036 ATP binding site [chemical binding]; other site 515620004037 Q-loop/lid; other site 515620004038 ABC transporter signature motif; other site 515620004039 Walker B; other site 515620004040 D-loop; other site 515620004041 H-loop/switch region; other site 515620004042 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 515620004043 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620004044 substrate binding pocket [chemical binding]; other site 515620004045 membrane-bound complex binding site; other site 515620004046 hinge residues; other site 515620004047 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 515620004048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004049 dimer interface [polypeptide binding]; other site 515620004050 conserved gate region; other site 515620004051 putative PBP binding loops; other site 515620004052 ABC-ATPase subunit interface; other site 515620004053 Predicted permeases [General function prediction only]; Region: COG0679 515620004054 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 515620004055 dimer interface [polypeptide binding]; other site 515620004056 substrate binding site [chemical binding]; other site 515620004057 ATP binding site [chemical binding]; other site 515620004058 hypothetical protein; Provisional; Region: PRK13665 515620004059 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 515620004060 4Fe-4S binding domain; Region: Fer4; pfam00037 515620004061 4Fe-4S binding domain; Region: Fer4_6; pfam12837 515620004062 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 515620004063 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 515620004064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004065 dimer interface [polypeptide binding]; other site 515620004066 conserved gate region; other site 515620004067 putative PBP binding loops; other site 515620004068 ABC-ATPase subunit interface; other site 515620004069 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 515620004070 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 515620004071 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 515620004072 regulatory protein interface [polypeptide binding]; other site 515620004073 regulatory phosphorylation site [posttranslational modification]; other site 515620004074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620004075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620004076 metal binding site [ion binding]; metal-binding site 515620004077 active site 515620004078 I-site; other site 515620004079 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 515620004080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620004081 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 515620004082 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 515620004083 active site 515620004084 dimer interface [polypeptide binding]; other site 515620004085 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 515620004086 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 515620004087 active site 515620004088 FMN binding site [chemical binding]; other site 515620004089 substrate binding site [chemical binding]; other site 515620004090 3Fe-4S cluster binding site [ion binding]; other site 515620004091 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 515620004092 domain interface; other site 515620004093 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 515620004094 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 515620004095 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 515620004096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 515620004097 Beta-Casp domain; Region: Beta-Casp; smart01027 515620004098 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 515620004099 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 515620004100 active site 515620004101 catalytic triad [active] 515620004102 oxyanion hole [active] 515620004103 Galectin/galactose-binding lectin. This domain exclusively binds beta-galactosides, such as lactose, and does not require metal ions for activity. GLECT domains occur as homodimers or tandemly repeated domains. They are developmentally regulated and may...; Region: GLECT; cl00071 515620004104 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 515620004105 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 515620004106 G1 box; other site 515620004107 putative GEF interaction site [polypeptide binding]; other site 515620004108 GTP/Mg2+ binding site [chemical binding]; other site 515620004109 Switch I region; other site 515620004110 G2 box; other site 515620004111 G3 box; other site 515620004112 Switch II region; other site 515620004113 G4 box; other site 515620004114 G5 box; other site 515620004115 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 515620004116 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 515620004117 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 515620004118 YacP-like NYN domain; Region: NYN_YacP; pfam05991 515620004119 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620004120 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 515620004121 non-specific DNA binding site [nucleotide binding]; other site 515620004122 salt bridge; other site 515620004123 sequence-specific DNA binding site [nucleotide binding]; other site 515620004124 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 515620004125 putative active site [active] 515620004126 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 515620004127 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 515620004128 CRISPR-associated protein Cpf1, subtype PREFRAN; Region: cas_Cpf1; TIGR04330 515620004129 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 515620004130 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 515620004131 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 515620004132 putative active site; other site 515620004133 catalytic triad [active] 515620004134 putative dimer interface [polypeptide binding]; other site 515620004135 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 515620004136 agmatine deiminase; Region: agmatine_aguA; TIGR03380 515620004137 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 515620004138 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 515620004139 dimer interface [polypeptide binding]; other site 515620004140 active site 515620004141 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 515620004142 catalytic residues [active] 515620004143 substrate binding site [chemical binding]; other site 515620004144 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 515620004145 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 515620004146 NAD(P) binding pocket [chemical binding]; other site 515620004147 spermidine synthase; Provisional; Region: PRK00811 515620004148 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 515620004149 S-adenosylmethionine binding site [chemical binding]; other site 515620004150 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 515620004151 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 515620004152 homodimer interface [polypeptide binding]; other site 515620004153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620004154 catalytic residue [active] 515620004155 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 515620004156 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 515620004157 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 515620004158 HTH domain; Region: HTH_11; pfam08279 515620004159 3H domain; Region: 3H; pfam02829 515620004160 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 515620004161 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 515620004162 dimerization interface [polypeptide binding]; other site 515620004163 active site 515620004164 L-aspartate oxidase; Provisional; Region: PRK06175 515620004165 FAD binding domain; Region: FAD_binding_2; pfam00890 515620004166 Quinolinate synthetase A protein; Region: NadA; pfam02445 515620004167 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 515620004168 dimerization interface [polypeptide binding]; other site 515620004169 putative DNA binding site [nucleotide binding]; other site 515620004170 putative Zn2+ binding site [ion binding]; other site 515620004171 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 515620004172 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 515620004173 Soluble P-type ATPase [General function prediction only]; Region: COG4087 515620004174 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 515620004175 metal-binding site [ion binding] 515620004176 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 515620004177 active site 515620004178 catalytic triad [active] 515620004179 oxyanion hole [active] 515620004180 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 515620004181 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 515620004182 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 515620004183 RNA/DNA hybrid binding site [nucleotide binding]; other site 515620004184 active site 515620004185 homoserine dehydrogenase; Provisional; Region: PRK06349 515620004186 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 515620004187 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 515620004188 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 515620004189 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 515620004190 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 515620004191 peptide chain release factor 1; Validated; Region: prfA; PRK00591 515620004192 Uncharacterized ACR, COG1753; Region: DUF217; cl00762 515620004193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 515620004194 RF-1 domain; Region: RF-1; pfam00472 515620004195 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 515620004196 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 515620004197 S-adenosylmethionine binding site [chemical binding]; other site 515620004198 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 515620004199 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 515620004200 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 515620004201 transcription termination factor Rho; Provisional; Region: PRK12608 515620004202 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 515620004203 RNA binding site [nucleotide binding]; other site 515620004204 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620004205 Walker A motif; other site 515620004206 ATP binding site [chemical binding]; other site 515620004207 Walker B motif; other site 515620004208 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 515620004209 Malic enzyme, N-terminal domain; Region: malic; pfam00390 515620004210 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 515620004211 putative NAD(P) binding site [chemical binding]; other site 515620004212 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 515620004213 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 515620004214 FeS/SAM binding site; other site 515620004215 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 515620004216 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 515620004217 G1 box; other site 515620004218 GTP/Mg2+ binding site [chemical binding]; other site 515620004219 Switch I region; other site 515620004220 G2 box; other site 515620004221 G3 box; other site 515620004222 Switch II region; other site 515620004223 G4 box; other site 515620004224 G5 box; other site 515620004225 Found in ATP-dependent protease La (LON); Region: LON; smart00464 515620004226 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 515620004227 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620004228 Walker A motif; other site 515620004229 ATP binding site [chemical binding]; other site 515620004230 Walker B motif; other site 515620004231 arginine finger; other site 515620004232 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 515620004233 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 515620004234 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 515620004235 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620004236 Walker A motif; other site 515620004237 ATP binding site [chemical binding]; other site 515620004238 Walker B motif; other site 515620004239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 515620004240 Clp protease; Region: CLP_protease; pfam00574 515620004241 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 515620004242 oligomer interface [polypeptide binding]; other site 515620004243 active site residues [active] 515620004244 trigger factor; Provisional; Region: tig; PRK01490 515620004245 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 515620004246 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 515620004247 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 515620004248 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 515620004249 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 515620004250 DJ-1 family protein; Region: not_thiJ; TIGR01383 515620004251 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 515620004252 conserved cys residue [active] 515620004253 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620004254 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 515620004255 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620004256 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 515620004257 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 515620004258 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 515620004259 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 515620004260 dimer interface [polypeptide binding]; other site 515620004261 ADP-ribose binding site [chemical binding]; other site 515620004262 active site 515620004263 nudix motif; other site 515620004264 metal binding site [ion binding]; metal-binding site 515620004265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620004266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620004267 metal binding site [ion binding]; metal-binding site 515620004268 active site 515620004269 I-site; other site 515620004270 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 515620004271 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 515620004272 metal-binding site [ion binding] 515620004273 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 515620004274 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 515620004275 motif II; other site 515620004276 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 515620004277 metal-binding site [ion binding] 515620004278 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 515620004279 metal-binding site [ion binding] 515620004280 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 515620004281 putative homodimer interface [polypeptide binding]; other site 515620004282 putative homotetramer interface [polypeptide binding]; other site 515620004283 putative allosteric switch controlling residues; other site 515620004284 putative metal binding site [ion binding]; other site 515620004285 putative homodimer-homodimer interface [polypeptide binding]; other site 515620004286 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 515620004287 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 515620004288 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 515620004289 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 515620004290 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 515620004291 putative acyl-acceptor binding pocket; other site 515620004292 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 515620004293 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 515620004294 active site 515620004295 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 515620004296 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 515620004297 Ligand binding site; other site 515620004298 metal-binding site 515620004299 Predicted membrane protein [Function unknown]; Region: COG1511 515620004300 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 515620004301 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 515620004302 Predicted membrane protein [Function unknown]; Region: COG1511 515620004303 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 515620004304 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 515620004305 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 515620004306 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 515620004307 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 515620004308 Potassium binding sites [ion binding]; other site 515620004309 Cesium cation binding sites [ion binding]; other site 515620004310 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 515620004311 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 515620004312 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 515620004313 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 515620004314 gamma subunit interface [polypeptide binding]; other site 515620004315 epsilon subunit interface [polypeptide binding]; other site 515620004316 LBP interface [polypeptide binding]; other site 515620004317 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 515620004318 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 515620004319 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 515620004320 alpha subunit interaction interface [polypeptide binding]; other site 515620004321 Walker A motif; other site 515620004322 ATP binding site [chemical binding]; other site 515620004323 Walker B motif; other site 515620004324 inhibitor binding site; inhibition site 515620004325 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 515620004326 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 515620004327 core domain interface [polypeptide binding]; other site 515620004328 delta subunit interface [polypeptide binding]; other site 515620004329 epsilon subunit interface [polypeptide binding]; other site 515620004330 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 515620004331 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 515620004332 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 515620004333 beta subunit interaction interface [polypeptide binding]; other site 515620004334 Walker A motif; other site 515620004335 ATP binding site [chemical binding]; other site 515620004336 Walker B motif; other site 515620004337 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 515620004338 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 515620004339 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 515620004340 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 515620004341 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 515620004342 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 515620004343 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 515620004344 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 515620004345 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620004346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620004347 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 515620004348 putative dimerization interface [polypeptide binding]; other site 515620004349 Predicted membrane protein [Function unknown]; Region: COG2364 515620004350 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 515620004351 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 515620004352 putative active site [active] 515620004353 metal binding site [ion binding]; metal-binding site 515620004354 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620004355 active site 515620004356 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620004357 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 515620004358 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 515620004359 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 515620004360 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 515620004361 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 515620004362 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 515620004363 catalytic loop [active] 515620004364 iron binding site [ion binding]; other site 515620004365 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 515620004366 putative oxidoreductase; Provisional; Region: PRK09799 515620004367 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 515620004368 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 515620004369 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 515620004370 intersubunit interface [polypeptide binding]; other site 515620004371 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 515620004372 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 515620004373 dimer interface [polypeptide binding]; other site 515620004374 putative PBP binding regions; other site 515620004375 ABC-ATPase subunit interface; other site 515620004376 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 515620004377 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 515620004378 Walker A/P-loop; other site 515620004379 ATP binding site [chemical binding]; other site 515620004380 Q-loop/lid; other site 515620004381 ABC transporter signature motif; other site 515620004382 Walker B; other site 515620004383 D-loop; other site 515620004384 H-loop/switch region; other site 515620004385 NTPase; Region: NTPase_1; cl17478 515620004386 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 515620004387 Ligand binding site; other site 515620004388 metal-binding site 515620004389 xanthine permease; Region: pbuX; TIGR03173 515620004390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620004391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004392 active site 515620004393 phosphorylation site [posttranslational modification] 515620004394 intermolecular recognition site; other site 515620004395 dimerization interface [polypeptide binding]; other site 515620004396 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620004397 DNA binding site [nucleotide binding] 515620004398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620004399 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620004400 dimerization interface [polypeptide binding]; other site 515620004401 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004402 dimer interface [polypeptide binding]; other site 515620004403 phosphorylation site [posttranslational modification] 515620004404 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 515620004405 ATP binding site [chemical binding]; other site 515620004406 Mg2+ binding site [ion binding]; other site 515620004407 G-X-G motif; other site 515620004408 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 515620004409 oxyanion hole [active] 515620004410 Ferredoxin [Energy production and conversion]; Region: COG1146 515620004411 4Fe-4S binding domain; Region: Fer4_6; pfam12837 515620004412 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 515620004413 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 515620004414 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 515620004415 ligand binding site [chemical binding]; other site 515620004416 flexible hinge region; other site 515620004417 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 515620004418 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 515620004419 nudix motif; other site 515620004420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620004421 Walker B; other site 515620004422 D-loop; other site 515620004423 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 515620004424 dimerization interface [polypeptide binding]; other site 515620004425 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620004426 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004427 dimer interface [polypeptide binding]; other site 515620004428 phosphorylation site [posttranslational modification] 515620004429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004430 ATP binding site [chemical binding]; other site 515620004431 Mg2+ binding site [ion binding]; other site 515620004432 G-X-G motif; other site 515620004433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620004434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004435 active site 515620004436 phosphorylation site [posttranslational modification] 515620004437 intermolecular recognition site; other site 515620004438 dimerization interface [polypeptide binding]; other site 515620004439 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620004440 DNA binding site [nucleotide binding] 515620004441 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620004442 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 515620004443 FtsX-like permease family; Region: FtsX; pfam02687 515620004444 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620004445 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620004446 Walker A/P-loop; other site 515620004447 ATP binding site [chemical binding]; other site 515620004448 Q-loop/lid; other site 515620004449 ABC transporter signature motif; other site 515620004450 Walker B; other site 515620004451 D-loop; other site 515620004452 H-loop/switch region; other site 515620004453 FtsX-like permease family; Region: FtsX; pfam02687 515620004454 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620004455 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 515620004456 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620004457 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 515620004458 Walker A/P-loop; other site 515620004459 ATP binding site [chemical binding]; other site 515620004460 Q-loop/lid; other site 515620004461 ABC transporter signature motif; other site 515620004462 Walker B; other site 515620004463 D-loop; other site 515620004464 H-loop/switch region; other site 515620004465 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 515620004466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620004467 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620004468 DNA binding residues [nucleotide binding] 515620004469 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 515620004470 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620004471 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 515620004472 FtsX-like permease family; Region: FtsX; pfam02687 515620004473 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620004474 FtsX-like permease family; Region: FtsX; pfam02687 515620004475 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620004476 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620004477 Walker A/P-loop; other site 515620004478 ATP binding site [chemical binding]; other site 515620004479 Q-loop/lid; other site 515620004480 ABC transporter signature motif; other site 515620004481 Walker B; other site 515620004482 D-loop; other site 515620004483 H-loop/switch region; other site 515620004484 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620004485 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004486 dimer interface [polypeptide binding]; other site 515620004487 phosphorylation site [posttranslational modification] 515620004488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004489 ATP binding site [chemical binding]; other site 515620004490 Mg2+ binding site [ion binding]; other site 515620004491 G-X-G motif; other site 515620004492 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620004493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004494 active site 515620004495 phosphorylation site [posttranslational modification] 515620004496 intermolecular recognition site; other site 515620004497 dimerization interface [polypeptide binding]; other site 515620004498 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620004499 DNA binding site [nucleotide binding] 515620004500 Virulence protein [General function prediction only]; Region: COG3943 515620004501 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 515620004502 Uncharacterized conserved protein [Function unknown]; Region: COG1479 515620004503 Protein of unknown function DUF262; Region: DUF262; pfam03235 515620004504 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 515620004505 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 515620004506 Protein of unknown function DUF45; Region: DUF45; pfam01863 515620004507 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 515620004508 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 515620004509 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 515620004510 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 515620004511 ATP binding site [chemical binding]; other site 515620004512 putative Mg++ binding site [ion binding]; other site 515620004513 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 515620004514 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 515620004515 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 515620004516 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 515620004517 HsdM N-terminal domain; Region: HsdM_N; pfam12161 515620004518 Methyltransferase domain; Region: Methyltransf_26; pfam13659 515620004519 Helix-turn-helix domain; Region: HTH_17; pfam12728 515620004520 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 515620004521 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 515620004522 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 515620004523 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 515620004524 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 515620004525 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; cl02788 515620004526 ORF6N domain; Region: ORF6N; pfam10543 515620004527 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 515620004528 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 515620004529 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 515620004530 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 515620004531 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 515620004532 Part of AAA domain; Region: AAA_19; pfam13245 515620004533 Family description; Region: UvrD_C_2; pfam13538 515620004534 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 515620004535 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 515620004536 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 515620004537 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 515620004538 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 515620004539 Trp repressor protein; Region: Trp_repressor; cl17266 515620004540 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620004541 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620004542 Walker A/P-loop; other site 515620004543 ATP binding site [chemical binding]; other site 515620004544 Q-loop/lid; other site 515620004545 ABC transporter signature motif; other site 515620004546 Walker B; other site 515620004547 D-loop; other site 515620004548 H-loop/switch region; other site 515620004549 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 515620004550 FtsX-like permease family; Region: FtsX; pfam02687 515620004551 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 515620004552 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 515620004553 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 515620004554 active site 515620004555 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 515620004556 ATP cone domain; Region: ATP-cone; pfam03477 515620004557 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 515620004558 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620004559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620004560 metal binding site [ion binding]; metal-binding site 515620004561 active site 515620004562 I-site; other site 515620004563 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 515620004564 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 515620004565 Cl binding site [ion binding]; other site 515620004566 oligomer interface [polypeptide binding]; other site 515620004567 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620004568 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 515620004569 non-specific DNA binding site [nucleotide binding]; other site 515620004570 salt bridge; other site 515620004571 sequence-specific DNA binding site [nucleotide binding]; other site 515620004572 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 515620004573 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 515620004574 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 515620004575 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 515620004576 TrkA-N domain; Region: TrkA_N; pfam02254 515620004577 TrkA-C domain; Region: TrkA_C; pfam02080 515620004578 TrkA-N domain; Region: TrkA_N; pfam02254 515620004579 TrkA-C domain; Region: TrkA_C; pfam02080 515620004580 Herpesvirus dUTPase protein; Region: Herpes_ORF11; pfam04797 515620004581 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 515620004582 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620004583 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620004584 DNA binding residues [nucleotide binding] 515620004585 oligoendopeptidase F; Region: pepF; TIGR00181 515620004586 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 515620004587 active site 515620004588 Zn binding site [ion binding]; other site 515620004589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620004590 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620004591 NAD(P) binding site [chemical binding]; other site 515620004592 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620004593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620004594 Coenzyme A binding pocket [chemical binding]; other site 515620004595 dihydrodipicolinate reductase; Provisional; Region: PRK00048 515620004596 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 515620004597 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 515620004598 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 515620004599 dihydrodipicolinate synthase; Region: dapA; TIGR00674 515620004600 dimer interface [polypeptide binding]; other site 515620004601 active site 515620004602 catalytic residue [active] 515620004603 single-stranded DNA-binding protein; Provisional; Region: PRK05813 515620004604 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 515620004605 dimer interface [polypeptide binding]; other site 515620004606 ssDNA binding site [nucleotide binding]; other site 515620004607 tetramer (dimer of dimers) interface [polypeptide binding]; other site 515620004608 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 515620004609 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 515620004610 G1 box; other site 515620004611 putative GEF interaction site [polypeptide binding]; other site 515620004612 GTP/Mg2+ binding site [chemical binding]; other site 515620004613 Switch I region; other site 515620004614 G2 box; other site 515620004615 G3 box; other site 515620004616 Switch II region; other site 515620004617 G4 box; other site 515620004618 G5 box; other site 515620004619 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 515620004620 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 515620004621 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620004622 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 515620004623 non-specific DNA binding site [nucleotide binding]; other site 515620004624 salt bridge; other site 515620004625 sequence-specific DNA binding site [nucleotide binding]; other site 515620004626 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620004627 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620004628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620004629 Walker A/P-loop; other site 515620004630 ATP binding site [chemical binding]; other site 515620004631 Q-loop/lid; other site 515620004632 ABC transporter signature motif; other site 515620004633 Walker B; other site 515620004634 D-loop; other site 515620004635 H-loop/switch region; other site 515620004636 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 515620004637 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 515620004638 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 515620004639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004640 conserved gate region; other site 515620004641 ABC-ATPase subunit interface; other site 515620004642 Double zinc ribbon; Region: DZR; pfam12773 515620004643 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620004644 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 515620004645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004646 dimer interface [polypeptide binding]; other site 515620004647 conserved gate region; other site 515620004648 putative PBP binding loops; other site 515620004649 ABC-ATPase subunit interface; other site 515620004650 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 515620004651 Uncharacterized conserved protein [Function unknown]; Region: COG1739 515620004652 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 515620004653 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 515620004654 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 515620004655 Transglycosylase; Region: Transgly; pfam00912 515620004656 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 515620004657 SpoVA protein; Region: SpoVA; pfam03862 515620004658 stage V sporulation protein AD; Validated; Region: PRK08304 515620004659 stage V sporulation protein AD; Provisional; Region: PRK12404 515620004660 Methyltransferase domain; Region: Methyltransf_31; pfam13847 515620004661 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 515620004662 S-adenosylmethionine binding site [chemical binding]; other site 515620004663 SpoVA protein; Region: SpoVA; pfam03862 515620004664 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 515620004665 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 515620004666 sporulation sigma factor SigF; Validated; Region: PRK05572 515620004667 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620004668 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 515620004669 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620004670 DNA binding residues [nucleotide binding] 515620004671 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 515620004672 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004673 ATP binding site [chemical binding]; other site 515620004674 Mg2+ binding site [ion binding]; other site 515620004675 G-X-G motif; other site 515620004676 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 515620004677 anti sigma factor interaction site; other site 515620004678 regulatory phosphorylation site [posttranslational modification]; other site 515620004679 Tetratricopeptide repeat; Region: TPR_16; pfam13432 515620004680 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 515620004681 binding surface 515620004682 TPR motif; other site 515620004683 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 515620004684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 515620004685 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 515620004686 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 515620004687 glutamate dehydrogenase; Provisional; Region: PRK09414 515620004688 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 515620004689 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 515620004690 NAD(P) binding site [chemical binding]; other site 515620004691 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 515620004692 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 515620004693 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 515620004694 active site 515620004695 motif I; other site 515620004696 motif II; other site 515620004697 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 515620004698 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 515620004699 active site 515620004700 catalytic triad [active] 515620004701 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 515620004702 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 515620004703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620004704 Walker A motif; other site 515620004705 ATP binding site [chemical binding]; other site 515620004706 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 515620004707 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 515620004708 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 515620004709 protein binding site [polypeptide binding]; other site 515620004710 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 515620004711 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 515620004712 active site 515620004713 substrate binding site [chemical binding]; other site 515620004714 metal binding site [ion binding]; metal-binding site 515620004715 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 515620004716 dimerization domain swap beta strand [polypeptide binding]; other site 515620004717 regulatory protein interface [polypeptide binding]; other site 515620004718 active site 515620004719 regulatory phosphorylation site [posttranslational modification]; other site 515620004720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 515620004721 YbbR-like protein; Region: YbbR; pfam07949 515620004722 TIGR00159 family protein; Region: TIGR00159 515620004723 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 515620004724 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004725 dimer interface [polypeptide binding]; other site 515620004726 phosphorylation site [posttranslational modification] 515620004727 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004728 ATP binding site [chemical binding]; other site 515620004729 Mg2+ binding site [ion binding]; other site 515620004730 G-X-G motif; other site 515620004731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620004732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004733 active site 515620004734 phosphorylation site [posttranslational modification] 515620004735 intermolecular recognition site; other site 515620004736 dimerization interface [polypeptide binding]; other site 515620004737 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620004738 DNA binding site [nucleotide binding] 515620004739 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 515620004740 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 515620004741 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 515620004742 PhoU domain; Region: PhoU; pfam01895 515620004743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620004744 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004745 dimer interface [polypeptide binding]; other site 515620004746 phosphorylation site [posttranslational modification] 515620004747 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004748 ATP binding site [chemical binding]; other site 515620004749 Mg2+ binding site [ion binding]; other site 515620004750 G-X-G motif; other site 515620004751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004752 Response regulator receiver domain; Region: Response_reg; pfam00072 515620004753 active site 515620004754 phosphorylation site [posttranslational modification] 515620004755 intermolecular recognition site; other site 515620004756 dimerization interface [polypeptide binding]; other site 515620004757 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 515620004758 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 515620004759 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 515620004760 active site 515620004761 HipA N-terminal domain; Region: Couple_hipA; pfam13657 515620004762 HipA-like N-terminal domain; Region: HipA_N; pfam07805 515620004763 HipA-like C-terminal domain; Region: HipA_C; pfam07804 515620004764 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 515620004765 non-specific DNA binding site [nucleotide binding]; other site 515620004766 salt bridge; other site 515620004767 sequence-specific DNA binding site [nucleotide binding]; other site 515620004768 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620004769 Walker A motif; other site 515620004770 ATP binding site [chemical binding]; other site 515620004771 Walker B motif; other site 515620004772 arginine finger; other site 515620004773 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 515620004774 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 515620004775 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620004776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620004777 dimer interface [polypeptide binding]; other site 515620004778 putative CheW interface [polypeptide binding]; other site 515620004779 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 515620004780 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 515620004781 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 515620004782 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 515620004783 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 515620004784 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 515620004785 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 515620004786 P-loop; other site 515620004787 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 515620004788 active site 515620004789 metal binding site [ion binding]; metal-binding site 515620004790 Protein of unknown function (DUF419); Region: DUF419; pfam04237 515620004791 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 515620004792 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 515620004793 DNA binding site [nucleotide binding] 515620004794 active site 515620004795 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 515620004796 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 515620004797 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 515620004798 TIR domain; Region: TIR_2; pfam13676 515620004799 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 515620004800 Low molecular weight phosphatase family; Region: LMWPc; cl00105 515620004801 active site 515620004802 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 515620004803 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 515620004804 inhibitor binding site; inhibition site 515620004805 active site 515620004806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620004807 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620004808 dimer interface [polypeptide binding]; other site 515620004809 phosphorylation site [posttranslational modification] 515620004810 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620004811 ATP binding site [chemical binding]; other site 515620004812 Mg2+ binding site [ion binding]; other site 515620004813 G-X-G motif; other site 515620004814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620004815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620004816 active site 515620004817 phosphorylation site [posttranslational modification] 515620004818 intermolecular recognition site; other site 515620004819 dimerization interface [polypeptide binding]; other site 515620004820 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620004821 DNA binding site [nucleotide binding] 515620004822 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 515620004823 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620004824 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 515620004825 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620004826 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 515620004827 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 515620004828 Walker A/P-loop; other site 515620004829 ATP binding site [chemical binding]; other site 515620004830 Q-loop/lid; other site 515620004831 ABC transporter signature motif; other site 515620004832 Walker B; other site 515620004833 D-loop; other site 515620004834 H-loop/switch region; other site 515620004835 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 515620004836 non-specific DNA binding site [nucleotide binding]; other site 515620004837 salt bridge; other site 515620004838 sequence-specific DNA binding site [nucleotide binding]; other site 515620004839 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 515620004840 Immunoglobulin I-set domain; Region: I-set; pfam07679 515620004841 Immunoglobulin like; Region: IG_like; smart00410 515620004842 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 515620004843 Cna protein B-type domain; Region: Cna_B; pfam05738 515620004844 Cna protein B-type domain; Region: Cna_B; pfam05738 515620004845 Cna protein B-type domain; Region: Cna_B; pfam05738 515620004846 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 515620004847 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 515620004848 dimer interface [polypeptide binding]; other site 515620004849 putative anticodon binding site; other site 515620004850 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 515620004851 motif 1; other site 515620004852 active site 515620004853 motif 2; other site 515620004854 motif 3; other site 515620004855 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 515620004856 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 515620004857 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 515620004858 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 515620004859 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 515620004860 FMN binding site [chemical binding]; other site 515620004861 active site 515620004862 catalytic residues [active] 515620004863 substrate binding site [chemical binding]; other site 515620004864 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 515620004865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620004866 DNA-binding site [nucleotide binding]; DNA binding site 515620004867 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 515620004868 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 515620004869 ornithine carbamoyltransferase; Validated; Region: PRK02102 515620004870 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 515620004871 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 515620004872 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 515620004873 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 515620004874 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 515620004875 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 515620004876 6-phosphofructokinase; Provisional; Region: PRK03202 515620004877 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 515620004878 active site 515620004879 ADP/pyrophosphate binding site [chemical binding]; other site 515620004880 dimerization interface [polypeptide binding]; other site 515620004881 allosteric effector site; other site 515620004882 fructose-1,6-bisphosphate binding site; other site 515620004883 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 515620004884 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 515620004885 active site 515620004886 PHP Thumb interface [polypeptide binding]; other site 515620004887 metal binding site [ion binding]; metal-binding site 515620004888 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 515620004889 generic binding surface II; other site 515620004890 generic binding surface I; other site 515620004891 PilZ domain; Region: PilZ; pfam07238 515620004892 FtsH Extracellular; Region: FtsH_ext; pfam06480 515620004893 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 515620004894 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620004895 Walker A motif; other site 515620004896 ATP binding site [chemical binding]; other site 515620004897 Walker B motif; other site 515620004898 arginine finger; other site 515620004899 Peptidase family M41; Region: Peptidase_M41; pfam01434 515620004900 CTP synthetase; Validated; Region: pyrG; PRK05380 515620004901 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 515620004902 Catalytic site [active] 515620004903 active site 515620004904 UTP binding site [chemical binding]; other site 515620004905 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 515620004906 active site 515620004907 putative oxyanion hole; other site 515620004908 catalytic triad [active] 515620004909 Penicillinase repressor; Region: Pencillinase_R; pfam03965 515620004910 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 515620004911 Ion channel; Region: Ion_trans_2; pfam07885 515620004912 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620004913 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620004914 Walker A/P-loop; other site 515620004915 ATP binding site [chemical binding]; other site 515620004916 Q-loop/lid; other site 515620004917 ABC transporter signature motif; other site 515620004918 Walker B; other site 515620004919 D-loop; other site 515620004920 H-loop/switch region; other site 515620004921 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620004922 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620004923 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 515620004924 Walker A/P-loop; other site 515620004925 ATP binding site [chemical binding]; other site 515620004926 Q-loop/lid; other site 515620004927 ABC transporter signature motif; other site 515620004928 Walker B; other site 515620004929 D-loop; other site 515620004930 H-loop/switch region; other site 515620004931 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620004932 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620004933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620004934 Walker A/P-loop; other site 515620004935 ATP binding site [chemical binding]; other site 515620004936 Q-loop/lid; other site 515620004937 ABC transporter signature motif; other site 515620004938 Walker B; other site 515620004939 D-loop; other site 515620004940 H-loop/switch region; other site 515620004941 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 515620004942 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620004943 membrane-bound complex binding site; other site 515620004944 hinge residues; other site 515620004945 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 515620004946 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620004947 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 515620004948 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004949 dimer interface [polypeptide binding]; other site 515620004950 conserved gate region; other site 515620004951 putative PBP binding loops; other site 515620004952 ABC-ATPase subunit interface; other site 515620004953 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 515620004954 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 515620004955 Walker A/P-loop; other site 515620004956 ATP binding site [chemical binding]; other site 515620004957 Q-loop/lid; other site 515620004958 ABC transporter signature motif; other site 515620004959 Walker B; other site 515620004960 D-loop; other site 515620004961 H-loop/switch region; other site 515620004962 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 515620004963 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 515620004964 dimerization interface 3.5A [polypeptide binding]; other site 515620004965 active site 515620004966 DEAD-like helicases superfamily; Region: DEXDc; smart00487 515620004967 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 515620004968 ATP binding site [chemical binding]; other site 515620004969 putative Mg++ binding site [ion binding]; other site 515620004970 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 515620004971 nucleotide binding region [chemical binding]; other site 515620004972 ATP-binding site [chemical binding]; other site 515620004973 HRDC domain; Region: HRDC; pfam00570 515620004974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620004975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620004976 metal binding site [ion binding]; metal-binding site 515620004977 active site 515620004978 I-site; other site 515620004979 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 515620004980 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620004981 Walker A motif; other site 515620004982 ATP binding site [chemical binding]; other site 515620004983 Walker B motif; other site 515620004984 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 515620004985 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 515620004986 minor groove reading motif; other site 515620004987 helix-hairpin-helix signature motif; other site 515620004988 substrate binding pocket [chemical binding]; other site 515620004989 active site 515620004990 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 515620004991 Na2 binding site [ion binding]; other site 515620004992 putative substrate binding site 1 [chemical binding]; other site 515620004993 Na binding site 1 [ion binding]; other site 515620004994 putative substrate binding site 2 [chemical binding]; other site 515620004995 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 515620004996 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 515620004997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620004998 dimer interface [polypeptide binding]; other site 515620004999 conserved gate region; other site 515620005000 putative PBP binding loops; other site 515620005001 ABC-ATPase subunit interface; other site 515620005002 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 515620005003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620005004 dimer interface [polypeptide binding]; other site 515620005005 conserved gate region; other site 515620005006 putative PBP binding loops; other site 515620005007 ABC-ATPase subunit interface; other site 515620005008 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 515620005009 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 515620005010 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 515620005011 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620005012 dimerization interface [polypeptide binding]; other site 515620005013 Histidine kinase; Region: His_kinase; pfam06580 515620005014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620005015 ATP binding site [chemical binding]; other site 515620005016 Mg2+ binding site [ion binding]; other site 515620005017 G-X-G motif; other site 515620005018 Response regulator receiver domain; Region: Response_reg; pfam00072 515620005019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620005020 active site 515620005021 phosphorylation site [posttranslational modification] 515620005022 intermolecular recognition site; other site 515620005023 dimerization interface [polypeptide binding]; other site 515620005024 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620005025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620005026 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 515620005027 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 515620005028 Cupin domain; Region: Cupin_2; pfam07883 515620005029 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 515620005030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620005031 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620005032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620005033 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620005034 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 515620005035 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 515620005036 Predicted permeases [General function prediction only]; Region: COG0679 515620005037 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620005038 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 515620005039 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 515620005040 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 515620005041 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 515620005042 dimer interface [polypeptide binding]; other site 515620005043 active site 515620005044 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 515620005045 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 515620005046 NAD(P) binding site [chemical binding]; other site 515620005047 homotetramer interface [polypeptide binding]; other site 515620005048 homodimer interface [polypeptide binding]; other site 515620005049 active site 515620005050 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 515620005051 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 515620005052 FMN binding site [chemical binding]; other site 515620005053 substrate binding site [chemical binding]; other site 515620005054 putative catalytic residue [active] 515620005055 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 515620005056 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 515620005057 FMN binding site [chemical binding]; other site 515620005058 substrate binding site [chemical binding]; other site 515620005059 putative catalytic residue [active] 515620005060 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 515620005061 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 515620005062 dimer interface [polypeptide binding]; other site 515620005063 active site 515620005064 CoA binding pocket [chemical binding]; other site 515620005065 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 515620005066 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 515620005067 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 515620005068 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 515620005069 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 515620005070 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 515620005071 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 515620005072 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 515620005073 carboxyltransferase (CT) interaction site; other site 515620005074 biotinylation site [posttranslational modification]; other site 515620005075 acyl carrier protein; Provisional; Region: acpP; PRK00982 515620005076 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620005077 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620005078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620005079 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 515620005080 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620005081 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620005082 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 515620005083 oxyanion hole [active] 515620005084 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620005085 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 515620005086 Right handed beta helix region; Region: Beta_helix; pfam13229 515620005087 Domain of unknown function DUF128; Region: DUF128; pfam01995 515620005088 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 515620005089 Transposase; Region: DEDD_Tnp_IS110; pfam01548 515620005090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 515620005091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 515620005092 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 515620005093 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620005094 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 515620005095 non-specific DNA binding site [nucleotide binding]; other site 515620005096 salt bridge; other site 515620005097 sequence-specific DNA binding site [nucleotide binding]; other site 515620005098 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 515620005099 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 515620005100 DNA helicase, putative; Region: TIGR00376 515620005101 Part of AAA domain; Region: AAA_19; pfam13245 515620005102 AAA domain; Region: AAA_12; pfam13087 515620005103 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 515620005104 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 515620005105 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 515620005106 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 515620005107 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 515620005108 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620005109 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620005110 Walker A/P-loop; other site 515620005111 ATP binding site [chemical binding]; other site 515620005112 Q-loop/lid; other site 515620005113 ABC transporter signature motif; other site 515620005114 Walker B; other site 515620005115 D-loop; other site 515620005116 H-loop/switch region; other site 515620005117 Predicted transcriptional regulators [Transcription]; Region: COG1725 515620005118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620005119 DNA-binding site [nucleotide binding]; DNA binding site 515620005120 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 515620005121 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 515620005122 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 515620005123 active site 515620005124 catalytic tetrad [active] 515620005125 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 515620005126 Transposase, Mutator family; Region: Transposase_mut; pfam00872 515620005127 MULE transposase domain; Region: MULE; pfam10551 515620005128 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 515620005129 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 515620005130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620005131 Coenzyme A binding pocket [chemical binding]; other site 515620005132 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 515620005133 nudix motif; other site 515620005134 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005135 Zn2+ binding site [ion binding]; other site 515620005136 Mg2+ binding site [ion binding]; other site 515620005137 Domain of unknown function DUF87; Region: DUF87; pfam01935 515620005138 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 515620005139 Divergent AAA domain; Region: AAA_4; pfam04326 515620005140 DpnII restriction endonuclease; Region: DpnII; pfam04556 515620005141 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 515620005142 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 515620005143 S-adenosylmethionine binding site [chemical binding]; other site 515620005144 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 515620005145 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 515620005146 S-adenosylmethionine binding site [chemical binding]; other site 515620005147 DNA methylase; Region: N6_N4_Mtase; cl17433 515620005148 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620005149 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 515620005150 non-specific DNA binding site [nucleotide binding]; other site 515620005151 salt bridge; other site 515620005152 sequence-specific DNA binding site [nucleotide binding]; other site 515620005153 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 515620005154 putative active site [active] 515620005155 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 515620005156 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 515620005157 integrase; Provisional; Region: int; PHA02601 515620005158 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 515620005159 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 515620005160 Int/Topo IB signature motif; other site 515620005161 Helix-turn-helix domain; Region: HTH_17; cl17695 515620005162 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620005163 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 515620005164 non-specific DNA binding site [nucleotide binding]; other site 515620005165 salt bridge; other site 515620005166 sequence-specific DNA binding site [nucleotide binding]; other site 515620005167 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 515620005168 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 515620005169 folate binding site [chemical binding]; other site 515620005170 NADP+ binding site [chemical binding]; other site 515620005171 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 515620005172 RNAase interaction site [polypeptide binding]; other site 515620005173 Helix-turn-helix domain; Region: HTH_18; pfam12833 515620005174 Family description; Region: UvrD_C_2; pfam13538 515620005175 AAA ATPase domain; Region: AAA_15; pfam13175 515620005176 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620005177 Walker A/P-loop; other site 515620005178 ATP binding site [chemical binding]; other site 515620005179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620005180 Walker B; other site 515620005181 D-loop; other site 515620005182 H-loop/switch region; other site 515620005183 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 515620005184 putative active site [active] 515620005185 putative metal-binding site [ion binding]; other site 515620005186 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 515620005187 additional DNA contacts [nucleotide binding]; other site 515620005188 mismatch recognition site; other site 515620005189 active site 515620005190 zinc binding site [ion binding]; other site 515620005191 DNA intercalation site [nucleotide binding]; other site 515620005192 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 515620005193 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 515620005194 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 515620005195 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 515620005196 cofactor binding site; other site 515620005197 DNA binding site [nucleotide binding] 515620005198 substrate interaction site [chemical binding]; other site 515620005199 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 515620005200 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 515620005201 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 515620005202 cofactor binding site; other site 515620005203 DNA binding site [nucleotide binding] 515620005204 substrate interaction site [chemical binding]; other site 515620005205 HNH endonuclease; Region: HNH_2; pfam13391 515620005206 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 515620005207 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 515620005208 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 515620005209 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 515620005210 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 515620005211 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 515620005212 Int/Topo IB signature motif; other site 515620005213 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620005214 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 515620005215 non-specific DNA binding site [nucleotide binding]; other site 515620005216 salt bridge; other site 515620005217 sequence-specific DNA binding site [nucleotide binding]; other site 515620005218 GMP synthase; Reviewed; Region: guaA; PRK00074 515620005219 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 515620005220 AMP/PPi binding site [chemical binding]; other site 515620005221 candidate oxyanion hole; other site 515620005222 catalytic triad [active] 515620005223 potential glutamine specificity residues [chemical binding]; other site 515620005224 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 515620005225 ATP Binding subdomain [chemical binding]; other site 515620005226 Ligand Binding sites [chemical binding]; other site 515620005227 Dimerization subdomain; other site 515620005228 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 515620005229 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 515620005230 motif II; other site 515620005231 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005232 Zn2+ binding site [ion binding]; other site 515620005233 Mg2+ binding site [ion binding]; other site 515620005234 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 515620005235 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 515620005236 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 515620005237 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 515620005238 excinuclease ABC subunit B; Provisional; Region: PRK05298 515620005239 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 515620005240 ATP binding site [chemical binding]; other site 515620005241 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 515620005242 nucleotide binding region [chemical binding]; other site 515620005243 ATP-binding site [chemical binding]; other site 515620005244 Ultra-violet resistance protein B; Region: UvrB; pfam12344 515620005245 UvrB/uvrC motif; Region: UVR; pfam02151 515620005246 C-terminal peptidase (prc); Region: prc; TIGR00225 515620005247 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 515620005248 protein binding site [polypeptide binding]; other site 515620005249 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 515620005250 Catalytic dyad [active] 515620005251 AmiB activator; Provisional; Region: PRK11637 515620005252 Peptidase family M23; Region: Peptidase_M23; pfam01551 515620005253 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 515620005254 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 515620005255 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 515620005256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620005257 Walker A/P-loop; other site 515620005258 ATP binding site [chemical binding]; other site 515620005259 Q-loop/lid; other site 515620005260 ABC transporter signature motif; other site 515620005261 Walker B; other site 515620005262 D-loop; other site 515620005263 H-loop/switch region; other site 515620005264 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 515620005265 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 515620005266 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 515620005267 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 515620005268 Walker A/P-loop; other site 515620005269 ATP binding site [chemical binding]; other site 515620005270 Q-loop/lid; other site 515620005271 ABC transporter signature motif; other site 515620005272 Walker B; other site 515620005273 D-loop; other site 515620005274 H-loop/switch region; other site 515620005275 TOBE domain; Region: TOBE_2; pfam08402 515620005276 Putative motility protein; Region: YjfB_motility; pfam14070 515620005277 CAAX protease self-immunity; Region: Abi; pfam02517 515620005278 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 515620005279 homotrimer interaction site [polypeptide binding]; other site 515620005280 putative active site [active] 515620005281 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 515620005282 S1 domain; Region: S1_2; pfam13509 515620005283 S1 domain; Region: S1_2; pfam13509 515620005284 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 515620005285 RNA binding site [nucleotide binding]; other site 515620005286 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 515620005287 Nitrogen regulatory protein P-II; Region: P-II; smart00938 515620005288 DHHW protein; Region: DHHW; pfam14286 515620005289 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 515620005290 Protein of unknown function, DUF624; Region: DUF624; pfam04854 515620005291 Protein of unknown function, DUF624; Region: DUF624; cl02369 515620005292 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 515620005293 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 515620005294 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 515620005295 active site 515620005296 Repair protein; Region: Repair_PSII; pfam04536 515620005297 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 515620005298 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 515620005299 intersubunit interface [polypeptide binding]; other site 515620005300 active site 515620005301 zinc binding site [ion binding]; other site 515620005302 Na+ binding site [ion binding]; other site 515620005303 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 515620005304 active site 515620005305 catalytic site [active] 515620005306 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 515620005307 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 515620005308 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 515620005309 S-ribosylhomocysteinase; Provisional; Region: PRK02260 515620005310 Uncharacterized conserved protein [Function unknown]; Region: COG1432 515620005311 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 515620005312 putative metal binding site [ion binding]; other site 515620005313 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 515620005314 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 515620005315 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 515620005316 active site residue [active] 515620005317 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 515620005318 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 515620005319 Ligand Binding Site [chemical binding]; other site 515620005320 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 515620005321 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 515620005322 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 515620005323 non-specific DNA binding site [nucleotide binding]; other site 515620005324 salt bridge; other site 515620005325 sequence-specific DNA binding site [nucleotide binding]; other site 515620005326 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 515620005327 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 515620005328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620005329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620005330 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 515620005331 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 515620005332 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 515620005333 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 515620005334 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 515620005335 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 515620005336 MFS/sugar transport protein; Region: MFS_2; pfam13347 515620005337 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 515620005338 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 515620005339 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 515620005340 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 515620005341 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 515620005342 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 515620005343 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 515620005344 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 515620005345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620005346 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 515620005347 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 515620005348 S-adenosylmethionine binding site [chemical binding]; other site 515620005349 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 515620005350 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 515620005351 generic binding surface I; other site 515620005352 generic binding surface II; other site 515620005353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005354 Zn2+ binding site [ion binding]; other site 515620005355 Mg2+ binding site [ion binding]; other site 515620005356 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 515620005357 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 515620005358 protein binding site [polypeptide binding]; other site 515620005359 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 515620005360 MutS domain III; Region: MutS_III; pfam05192 515620005361 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 515620005362 Walker A/P-loop; other site 515620005363 ATP binding site [chemical binding]; other site 515620005364 Q-loop/lid; other site 515620005365 ABC transporter signature motif; other site 515620005366 Walker B; other site 515620005367 D-loop; other site 515620005368 H-loop/switch region; other site 515620005369 Smr domain; Region: Smr; pfam01713 515620005370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620005371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620005372 active site 515620005373 phosphorylation site [posttranslational modification] 515620005374 intermolecular recognition site; other site 515620005375 dimerization interface [polypeptide binding]; other site 515620005376 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620005377 DNA binding site [nucleotide binding] 515620005378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620005379 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620005380 dimerization interface [polypeptide binding]; other site 515620005381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620005382 dimer interface [polypeptide binding]; other site 515620005383 phosphorylation site [posttranslational modification] 515620005384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620005385 ATP binding site [chemical binding]; other site 515620005386 Mg2+ binding site [ion binding]; other site 515620005387 G-X-G motif; other site 515620005388 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 515620005389 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 515620005390 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 515620005391 hypothetical protein; Validated; Region: PRK07682 515620005392 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 515620005393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620005394 homodimer interface [polypeptide binding]; other site 515620005395 catalytic residue [active] 515620005396 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 515620005397 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 515620005398 AsnC family; Region: AsnC_trans_reg; pfam01037 515620005399 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 515620005400 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 515620005401 ATP binding site [chemical binding]; other site 515620005402 dimerization interface [polypeptide binding]; other site 515620005403 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 515620005404 active site 515620005405 catalytic site [active] 515620005406 substrate binding site [chemical binding]; other site 515620005407 PAS fold; Region: PAS_3; pfam08447 515620005408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620005409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620005410 metal binding site [ion binding]; metal-binding site 515620005411 active site 515620005412 I-site; other site 515620005413 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 515620005414 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 515620005415 active site 515620005416 catalytic triad [active] 515620005417 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 515620005418 homodimer interface [polypeptide binding]; other site 515620005419 maltodextrin glucosidase; Provisional; Region: PRK10785 515620005420 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 515620005421 active site 515620005422 homodimer interface [polypeptide binding]; other site 515620005423 catalytic site [active] 515620005424 FtsH Extracellular; Region: FtsH_ext; pfam06480 515620005425 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 515620005426 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620005427 Walker A motif; other site 515620005428 ATP binding site [chemical binding]; other site 515620005429 Walker B motif; other site 515620005430 arginine finger; other site 515620005431 Peptidase family M41; Region: Peptidase_M41; pfam01434 515620005432 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620005433 active site 515620005434 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 515620005435 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 515620005436 Ligand Binding Site [chemical binding]; other site 515620005437 TilS substrate C-terminal domain; Region: TilS_C; smart00977 515620005438 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 515620005439 Septum formation initiator; Region: DivIC; cl17659 515620005440 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 515620005441 YabP family; Region: YabP; cl06766 515620005442 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 515620005443 RNA binding surface [nucleotide binding]; other site 515620005444 stage V sporulation protein T; Region: spore_V_T; TIGR02851 515620005445 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 515620005446 Predicted transcriptional regulators [Transcription]; Region: COG1695 515620005447 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 515620005448 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 515620005449 Carbon starvation protein CstA; Region: CstA; pfam02554 515620005450 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 515620005451 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 515620005452 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 515620005453 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 515620005454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620005455 dimer interface [polypeptide binding]; other site 515620005456 putative CheW interface [polypeptide binding]; other site 515620005457 PilZ domain; Region: PilZ; pfam07238 515620005458 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 515620005459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620005460 Walker A/P-loop; other site 515620005461 ATP binding site [chemical binding]; other site 515620005462 Q-loop/lid; other site 515620005463 ABC transporter signature motif; other site 515620005464 Walker B; other site 515620005465 D-loop; other site 515620005466 H-loop/switch region; other site 515620005467 sulfate transport protein; Provisional; Region: cysT; CHL00187 515620005468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620005469 dimer interface [polypeptide binding]; other site 515620005470 conserved gate region; other site 515620005471 putative PBP binding loops; other site 515620005472 ABC-ATPase subunit interface; other site 515620005473 sulfate transport protein; Provisional; Region: cysT; CHL00187 515620005474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620005475 dimer interface [polypeptide binding]; other site 515620005476 conserved gate region; other site 515620005477 putative PBP binding loops; other site 515620005478 ABC-ATPase subunit interface; other site 515620005479 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 515620005480 Predicted transcriptional regulators [Transcription]; Region: COG1725 515620005481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620005482 DNA-binding site [nucleotide binding]; DNA binding site 515620005483 Predicted membrane protein [General function prediction only]; Region: COG4194 515620005484 Helix-turn-helix domain; Region: HTH_17; pfam12728 515620005485 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 515620005486 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 515620005487 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 515620005488 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 515620005489 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 515620005490 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620005491 membrane-bound complex binding site; other site 515620005492 hinge residues; other site 515620005493 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 515620005494 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 515620005495 CysD dimerization site [polypeptide binding]; other site 515620005496 G1 box; other site 515620005497 putative GEF interaction site [polypeptide binding]; other site 515620005498 GTP/Mg2+ binding site [chemical binding]; other site 515620005499 Switch I region; other site 515620005500 G2 box; other site 515620005501 G3 box; other site 515620005502 Switch II region; other site 515620005503 G4 box; other site 515620005504 G5 box; other site 515620005505 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 515620005506 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 515620005507 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 515620005508 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 515620005509 Active Sites [active] 515620005510 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 515620005511 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 515620005512 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 515620005513 L-aspartate oxidase; Provisional; Region: PRK06175 515620005514 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 515620005515 active site 515620005516 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 515620005517 QueT transporter; Region: QueT; pfam06177 515620005518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 515620005519 ATP binding site [chemical binding]; other site 515620005520 Mg2+ binding site [ion binding]; other site 515620005521 G-X-G motif; other site 515620005522 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620005523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620005524 active site 515620005525 phosphorylation site [posttranslational modification] 515620005526 intermolecular recognition site; other site 515620005527 dimerization interface [polypeptide binding]; other site 515620005528 LytTr DNA-binding domain; Region: LytTR; pfam04397 515620005529 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 515620005530 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 515620005531 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 515620005532 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 515620005533 dimer interface [polypeptide binding]; other site 515620005534 PYR/PP interface [polypeptide binding]; other site 515620005535 TPP binding site [chemical binding]; other site 515620005536 substrate binding site [chemical binding]; other site 515620005537 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 515620005538 TPP-binding site; other site 515620005539 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 515620005540 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 515620005541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 515620005542 acyl-activating enzyme (AAE) consensus motif; other site 515620005543 AMP binding site [chemical binding]; other site 515620005544 active site 515620005545 CoA binding site [chemical binding]; other site 515620005546 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 515620005547 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 515620005548 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 515620005549 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 515620005550 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 515620005551 homodimer interface [polypeptide binding]; other site 515620005552 substrate-cofactor binding pocket; other site 515620005553 catalytic residue [active] 515620005554 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 515620005555 active site 515620005556 catalytic residues [active] 515620005557 metal binding site [ion binding]; metal-binding site 515620005558 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 515620005559 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 515620005560 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 515620005561 ATP binding site [chemical binding]; other site 515620005562 putative Mg++ binding site [ion binding]; other site 515620005563 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 515620005564 nucleotide binding region [chemical binding]; other site 515620005565 ATP-binding site [chemical binding]; other site 515620005566 TRCF domain; Region: TRCF; pfam03461 515620005567 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 515620005568 putative active site [active] 515620005569 catalytic residue [active] 515620005570 regulatory protein SpoVG; Reviewed; Region: PRK13259 515620005571 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 515620005572 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 515620005573 ligand binding site; other site 515620005574 oligomer interface; other site 515620005575 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 515620005576 dimer interface [polypeptide binding]; other site 515620005577 N-terminal domain interface [polypeptide binding]; other site 515620005578 sulfate 1 binding site; other site 515620005579 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 515620005580 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 515620005581 ligand binding site; other site 515620005582 oligomer interface; other site 515620005583 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 515620005584 dimer interface [polypeptide binding]; other site 515620005585 N-terminal domain interface [polypeptide binding]; other site 515620005586 sulfate 1 binding site; other site 515620005587 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 515620005588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 515620005589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 515620005590 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 515620005591 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 515620005592 DNA replication protein DnaC; Validated; Region: PRK06835 515620005593 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620005594 Walker A motif; other site 515620005595 ATP binding site [chemical binding]; other site 515620005596 Walker B motif; other site 515620005597 arginine finger; other site 515620005598 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 515620005599 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 515620005600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 515620005601 active site 515620005602 Transglycosylase; Region: Transgly; pfam00912 515620005603 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 515620005604 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 515620005605 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 515620005606 Methyltransferase domain; Region: Methyltransf_31; pfam13847 515620005607 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 515620005608 S-adenosylmethionine binding site [chemical binding]; other site 515620005609 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 515620005610 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 515620005611 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 515620005612 gamma subunit interface [polypeptide binding]; other site 515620005613 epsilon subunit interface [polypeptide binding]; other site 515620005614 LBP interface [polypeptide binding]; other site 515620005615 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 515620005616 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 515620005617 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 515620005618 alpha subunit interaction interface [polypeptide binding]; other site 515620005619 Walker A motif; other site 515620005620 ATP binding site [chemical binding]; other site 515620005621 Walker B motif; other site 515620005622 inhibitor binding site; inhibition site 515620005623 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 515620005624 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 515620005625 core domain interface [polypeptide binding]; other site 515620005626 delta subunit interface [polypeptide binding]; other site 515620005627 epsilon subunit interface [polypeptide binding]; other site 515620005628 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 515620005629 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 515620005630 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 515620005631 beta subunit interaction interface [polypeptide binding]; other site 515620005632 Walker A motif; other site 515620005633 ATP binding site [chemical binding]; other site 515620005634 Walker B motif; other site 515620005635 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 515620005636 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 515620005637 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 515620005638 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 515620005639 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 515620005640 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 515620005641 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 515620005642 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 515620005643 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 515620005644 Protein of unknown function (DUF402); Region: DUF402; pfam04167 515620005645 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 515620005646 catalytic motif [active] 515620005647 Zn binding site [ion binding]; other site 515620005648 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 515620005649 Low molecular weight phosphatase family; Region: LMWPc; cl00105 515620005650 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 515620005651 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 515620005652 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 515620005653 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 515620005654 active site 515620005655 metal binding site [ion binding]; metal-binding site 515620005656 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 515620005657 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 515620005658 active site 515620005659 Protein kinase domain; Region: Pkinase; pfam00069 515620005660 Catalytic domain of Protein Kinases; Region: PKc; cd00180 515620005661 active site 515620005662 ATP binding site [chemical binding]; other site 515620005663 substrate binding site [chemical binding]; other site 515620005664 activation loop (A-loop); other site 515620005665 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 515620005666 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 515620005667 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 515620005668 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 515620005669 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 515620005670 replicative DNA helicase; Region: DnaB; TIGR00665 515620005671 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 515620005672 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 515620005673 Walker A motif; other site 515620005674 ATP binding site [chemical binding]; other site 515620005675 Walker B motif; other site 515620005676 DNA binding loops [nucleotide binding] 515620005677 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 515620005678 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 515620005679 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 515620005680 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 515620005681 DHH family; Region: DHH; pfam01368 515620005682 DHHA1 domain; Region: DHHA1; pfam02272 515620005683 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 515620005684 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 515620005685 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 515620005686 dimer interface [polypeptide binding]; other site 515620005687 ssDNA binding site [nucleotide binding]; other site 515620005688 tetramer (dimer of dimers) interface [polypeptide binding]; other site 515620005689 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 515620005690 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 515620005691 NAD-dependent deacetylase; Provisional; Region: PRK00481 515620005692 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 515620005693 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 515620005694 Chain length determinant protein; Region: Wzz; cl15801 515620005695 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 515620005696 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 515620005697 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 515620005698 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 515620005699 putative hydratase; Provisional; Region: PRK11413 515620005700 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 515620005701 substrate binding site [chemical binding]; other site 515620005702 ligand binding site [chemical binding]; other site 515620005703 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 515620005704 substrate binding site [chemical binding]; other site 515620005705 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 515620005706 HIT family signature motif; other site 515620005707 catalytic residue [active] 515620005708 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 515620005709 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 515620005710 ATP binding site [chemical binding]; other site 515620005711 Mg2+ binding site [ion binding]; other site 515620005712 G-X-G motif; other site 515620005713 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 515620005714 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 515620005715 phosphopeptide binding site; other site 515620005716 TadE-like protein; Region: TadE; pfam07811 515620005717 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 515620005718 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 515620005719 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 515620005720 ATP binding site [chemical binding]; other site 515620005721 Walker A motif; other site 515620005722 hexamer interface [polypeptide binding]; other site 515620005723 Walker B motif; other site 515620005724 AAA domain; Region: AAA_31; pfam13614 515620005725 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 515620005726 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 515620005727 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 515620005728 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 515620005729 active site 515620005730 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 515620005731 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 515620005732 putative NADH binding site [chemical binding]; other site 515620005733 putative active site [active] 515620005734 nudix motif; other site 515620005735 putative metal binding site [ion binding]; other site 515620005736 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620005737 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 515620005738 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 515620005739 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 515620005740 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 515620005741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 515620005742 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 515620005743 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 515620005744 FAD binding domain; Region: FAD_binding_4; pfam01565 515620005745 Domain of unknown function DUF22; Region: DUF22; pfam01629 515620005746 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 515620005747 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 515620005748 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 515620005749 nucleotide binding site [chemical binding]; other site 515620005750 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 515620005751 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 515620005752 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 515620005753 Hpr binding site; other site 515620005754 active site 515620005755 homohexamer subunit interaction site [polypeptide binding]; other site 515620005756 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 515620005757 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 515620005758 GIY-YIG motif/motif A; other site 515620005759 active site 515620005760 catalytic site [active] 515620005761 putative DNA binding site [nucleotide binding]; other site 515620005762 metal binding site [ion binding]; metal-binding site 515620005763 UvrB/uvrC motif; Region: UVR; pfam02151 515620005764 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 515620005765 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 515620005766 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 515620005767 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 515620005768 Protein of unknown function DUF58; Region: DUF58; pfam01882 515620005769 MoxR-like ATPases [General function prediction only]; Region: COG0714 515620005770 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620005771 Walker A motif; other site 515620005772 ATP binding site [chemical binding]; other site 515620005773 Walker B motif; other site 515620005774 arginine finger; other site 515620005775 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 515620005776 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620005777 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 515620005778 dinuclear metal binding motif [ion binding]; other site 515620005779 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 515620005780 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 515620005781 putative active site [active] 515620005782 metal binding site [ion binding]; metal-binding site 515620005783 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 515620005784 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 515620005785 TPP-binding site [chemical binding]; other site 515620005786 dimer interface [polypeptide binding]; other site 515620005787 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 515620005788 PYR/PP interface [polypeptide binding]; other site 515620005789 dimer interface [polypeptide binding]; other site 515620005790 TPP binding site [chemical binding]; other site 515620005791 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 515620005792 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 515620005793 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 515620005794 recombination protein RecR; Reviewed; Region: recR; PRK00076 515620005795 RecR protein; Region: RecR; pfam02132 515620005796 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 515620005797 putative active site [active] 515620005798 putative metal-binding site [ion binding]; other site 515620005799 tetramer interface [polypeptide binding]; other site 515620005800 hypothetical protein; Validated; Region: PRK00153 515620005801 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 515620005802 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620005803 Walker A motif; other site 515620005804 ATP binding site [chemical binding]; other site 515620005805 Walker B motif; other site 515620005806 arginine finger; other site 515620005807 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 515620005808 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 515620005809 putative deacylase active site [active] 515620005810 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620005811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620005812 Walker A/P-loop; other site 515620005813 ATP binding site [chemical binding]; other site 515620005814 Q-loop/lid; other site 515620005815 ABC transporter signature motif; other site 515620005816 Walker B; other site 515620005817 D-loop; other site 515620005818 H-loop/switch region; other site 515620005819 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 515620005820 nucleoside/Zn binding site; other site 515620005821 dimer interface [polypeptide binding]; other site 515620005822 catalytic motif [active] 515620005823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 515620005824 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 515620005825 Coenzyme A binding pocket [chemical binding]; other site 515620005826 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620005827 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620005828 metal binding site [ion binding]; metal-binding site 515620005829 active site 515620005830 I-site; other site 515620005831 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 515620005832 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 515620005833 S-adenosylmethionine binding site [chemical binding]; other site 515620005834 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 515620005835 active site 515620005836 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 515620005837 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 515620005838 active site 515620005839 HIGH motif; other site 515620005840 KMSKS motif; other site 515620005841 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 515620005842 tRNA binding surface [nucleotide binding]; other site 515620005843 anticodon binding site; other site 515620005844 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 515620005845 dimer interface [polypeptide binding]; other site 515620005846 putative tRNA-binding site [nucleotide binding]; other site 515620005847 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 515620005848 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 515620005849 HSP70 interaction site [polypeptide binding]; other site 515620005850 Tetratricopeptide repeat; Region: TPR_16; pfam13432 515620005851 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 515620005852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 515620005853 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 515620005854 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 515620005855 Domain of unknown function DUF20; Region: UPF0118; pfam01594 515620005856 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 515620005857 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 515620005858 S-adenosylmethionine binding site [chemical binding]; other site 515620005859 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 515620005860 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 515620005861 Flagellar protein FliS; Region: FliS; cl00654 515620005862 flagellin; Provisional; Region: PRK12806 515620005863 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 515620005864 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 515620005865 glycogen branching enzyme; Provisional; Region: PRK12313 515620005866 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 515620005867 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 515620005868 active site 515620005869 catalytic site [active] 515620005870 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 515620005871 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 515620005872 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 515620005873 Mg++ binding site [ion binding]; other site 515620005874 putative catalytic motif [active] 515620005875 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 515620005876 active site 515620005877 catalytic site [active] 515620005878 substrate binding site [chemical binding]; other site 515620005879 Cache domain; Region: Cache_1; pfam02743 515620005880 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620005881 dimerization interface [polypeptide binding]; other site 515620005882 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620005883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620005884 dimer interface [polypeptide binding]; other site 515620005885 putative CheW interface [polypeptide binding]; other site 515620005886 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 515620005887 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005888 Zn2+ binding site [ion binding]; other site 515620005889 Mg2+ binding site [ion binding]; other site 515620005890 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 515620005891 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 515620005892 putative catalytic cysteine [active] 515620005893 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 515620005894 putative active site [active] 515620005895 metal binding site [ion binding]; metal-binding site 515620005896 Phosphotransferase enzyme family; Region: APH; pfam01636 515620005897 serine/threonine protein kinase; Provisional; Region: PRK14879 515620005898 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 515620005899 seryl-tRNA synthetase; Provisional; Region: PRK05431 515620005900 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 515620005901 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 515620005902 motif 1; other site 515620005903 dimer interface [polypeptide binding]; other site 515620005904 active site 515620005905 motif 2; other site 515620005906 motif 3; other site 515620005907 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 515620005908 ParB-like nuclease domain; Region: ParB; smart00470 515620005909 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 515620005910 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 515620005911 P-loop; other site 515620005912 Magnesium ion binding site [ion binding]; other site 515620005913 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 515620005914 Magnesium ion binding site [ion binding]; other site 515620005915 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 515620005916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620005917 active site 515620005918 phosphorylation site [posttranslational modification] 515620005919 intermolecular recognition site; other site 515620005920 dimerization interface [polypeptide binding]; other site 515620005921 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 515620005922 DNA binding residues [nucleotide binding] 515620005923 dimerization interface [polypeptide binding]; other site 515620005924 Histidine kinase; Region: HisKA_3; pfam07730 515620005925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 515620005926 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620005927 ATP binding site [chemical binding]; other site 515620005928 Mg2+ binding site [ion binding]; other site 515620005929 G-X-G motif; other site 515620005930 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 515620005931 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 515620005932 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 515620005933 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 515620005934 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 515620005935 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 515620005936 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 515620005937 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 515620005938 trmE is a tRNA modification GTPase; Region: trmE; cd04164 515620005939 G1 box; other site 515620005940 GTP/Mg2+ binding site [chemical binding]; other site 515620005941 Switch I region; other site 515620005942 G2 box; other site 515620005943 Switch II region; other site 515620005944 G3 box; other site 515620005945 G4 box; other site 515620005946 G5 box; other site 515620005947 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 515620005948 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 515620005949 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 515620005950 G-X-X-G motif; other site 515620005951 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 515620005952 RxxxH motif; other site 515620005953 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 515620005954 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 515620005955 Haemolytic domain; Region: Haemolytic; pfam01809 515620005956 ribonuclease P; Reviewed; Region: rnpA; PRK00499 515620005957 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 515620005958 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620005959 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620005960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620005961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 515620005962 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 515620005963 Nitroreductase family; Region: Nitroreductase; pfam00881 515620005964 FMN binding site [chemical binding]; other site 515620005965 dimer interface [polypeptide binding]; other site 515620005966 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 515620005967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620005968 Coenzyme A binding pocket [chemical binding]; other site 515620005969 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620005970 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 515620005971 non-specific DNA binding site [nucleotide binding]; other site 515620005972 salt bridge; other site 515620005973 sequence-specific DNA binding site [nucleotide binding]; other site 515620005974 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 515620005975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620005976 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 515620005977 Coenzyme A binding pocket [chemical binding]; other site 515620005978 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 515620005979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 515620005980 Hemerythrin; Region: Hemerythrin; cd12107 515620005981 Fe binding site [ion binding]; other site 515620005982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005983 Zn2+ binding site [ion binding]; other site 515620005984 Mg2+ binding site [ion binding]; other site 515620005985 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 515620005986 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620005987 Zn2+ binding site [ion binding]; other site 515620005988 Mg2+ binding site [ion binding]; other site 515620005989 Rubredoxin; Region: Rubredoxin; pfam00301 515620005990 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 515620005991 iron binding site [ion binding]; other site 515620005992 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 515620005993 non-heme iron binding site [ion binding]; other site 515620005994 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 515620005995 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 515620005996 NAD binding site [chemical binding]; other site 515620005997 dimer interface [polypeptide binding]; other site 515620005998 substrate binding site [chemical binding]; other site 515620005999 tetramer (dimer of dimers) interface [polypeptide binding]; other site 515620006000 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 515620006001 metal binding site 2 [ion binding]; metal-binding site 515620006002 putative DNA binding helix; other site 515620006003 metal binding site 1 [ion binding]; metal-binding site 515620006004 dimer interface [polypeptide binding]; other site 515620006005 structural Zn2+ binding site [ion binding]; other site 515620006006 Protein of unknown function (DUF328); Region: DUF328; pfam03883 515620006007 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 515620006008 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 515620006009 catalytic triad [active] 515620006010 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cl00234 515620006011 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620006012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620006013 dimer interface [polypeptide binding]; other site 515620006014 phosphorylation site [posttranslational modification] 515620006015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620006016 ATP binding site [chemical binding]; other site 515620006017 Mg2+ binding site [ion binding]; other site 515620006018 G-X-G motif; other site 515620006019 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620006020 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620006021 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 515620006022 Walker A/P-loop; other site 515620006023 ATP binding site [chemical binding]; other site 515620006024 Q-loop/lid; other site 515620006025 ABC transporter signature motif; other site 515620006026 Walker B; other site 515620006027 D-loop; other site 515620006028 H-loop/switch region; other site 515620006029 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620006030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006031 active site 515620006032 phosphorylation site [posttranslational modification] 515620006033 intermolecular recognition site; other site 515620006034 dimerization interface [polypeptide binding]; other site 515620006035 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620006036 DNA binding site [nucleotide binding] 515620006037 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 515620006038 Catalytic site [active] 515620006039 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 515620006040 non-specific DNA binding site [nucleotide binding]; other site 515620006041 salt bridge; other site 515620006042 sequence-specific DNA binding site [nucleotide binding]; other site 515620006043 Chromate transporter; Region: Chromate_transp; pfam02417 515620006044 Chromate transporter; Region: Chromate_transp; pfam02417 515620006045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620006046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620006047 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 515620006048 putative dimerization interface [polypeptide binding]; other site 515620006049 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 515620006050 sequence-specific DNA binding site [nucleotide binding]; other site 515620006051 salt bridge; other site 515620006052 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 515620006053 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 515620006054 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 515620006055 dimer interface [polypeptide binding]; other site 515620006056 cheY-homologous receiver domain; Region: REC; smart00448 515620006057 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 515620006058 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 515620006059 metal binding site [ion binding]; metal-binding site 515620006060 dimer interface [polypeptide binding]; other site 515620006061 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 515620006062 OPT oligopeptide transporter protein; Region: OPT; cl14607 515620006063 putative oligopeptide transporter, OPT family; Region: TIGR00733 515620006064 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620006065 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 515620006066 non-specific DNA binding site [nucleotide binding]; other site 515620006067 salt bridge; other site 515620006068 sequence-specific DNA binding site [nucleotide binding]; other site 515620006069 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 515620006070 Pyruvate formate lyase 1; Region: PFL1; cd01678 515620006071 coenzyme A binding site [chemical binding]; other site 515620006072 active site 515620006073 catalytic residues [active] 515620006074 glycine loop; other site 515620006075 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 515620006076 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 515620006077 catalytic residues [active] 515620006078 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 515620006079 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 515620006080 LytTr DNA-binding domain; Region: LytTR; smart00850 515620006081 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 515620006082 Double zinc ribbon; Region: DZR; pfam12773 515620006083 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 515620006084 dihydroorotase; Validated; Region: pyrC; PRK09357 515620006085 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 515620006086 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 515620006087 active site 515620006088 Domain of unknown function, E. rectale Gene description (DUF3878); Region: DUF3878; pfam12994 515620006089 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 515620006090 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 515620006091 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 515620006092 FeS/SAM binding site; other site 515620006093 Helix-hairpin-helix motif; Region: HHH; pfam00633 515620006094 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620006095 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 515620006096 non-specific DNA binding site [nucleotide binding]; other site 515620006097 salt bridge; other site 515620006098 sequence-specific DNA binding site [nucleotide binding]; other site 515620006099 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 515620006100 non-specific DNA binding site [nucleotide binding]; other site 515620006101 salt bridge; other site 515620006102 sequence-specific DNA binding site [nucleotide binding]; other site 515620006103 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 515620006104 non-specific DNA binding site [nucleotide binding]; other site 515620006105 salt bridge; other site 515620006106 sequence-specific DNA binding site [nucleotide binding]; other site 515620006107 Accessory gene regulator B; Region: AgrB; cl01873 515620006108 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 515620006109 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620006110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006111 active site 515620006112 phosphorylation site [posttranslational modification] 515620006113 intermolecular recognition site; other site 515620006114 dimerization interface [polypeptide binding]; other site 515620006115 LytTr DNA-binding domain; Region: LytTR; pfam04397 515620006116 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620006117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620006118 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 515620006119 Walker A/P-loop; other site 515620006120 ATP binding site [chemical binding]; other site 515620006121 Q-loop/lid; other site 515620006122 ABC transporter signature motif; other site 515620006123 Walker B; other site 515620006124 D-loop; other site 515620006125 H-loop/switch region; other site 515620006126 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620006127 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620006128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006129 Walker A/P-loop; other site 515620006130 ATP binding site [chemical binding]; other site 515620006131 Q-loop/lid; other site 515620006132 ABC transporter signature motif; other site 515620006133 Walker B; other site 515620006134 D-loop; other site 515620006135 H-loop/switch region; other site 515620006136 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 515620006137 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 515620006138 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...; Region: nylC_like; cd02252 515620006139 putative active site pocket [active] 515620006140 cleavage site 515620006141 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 515620006142 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 515620006143 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 515620006144 active site turn [active] 515620006145 phosphorylation site [posttranslational modification] 515620006146 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 515620006147 HPr interaction site; other site 515620006148 glycerol kinase (GK) interaction site [polypeptide binding]; other site 515620006149 active site 515620006150 phosphorylation site [posttranslational modification] 515620006151 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 515620006152 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 515620006153 active site 515620006154 dimer interface [polypeptide binding]; other site 515620006155 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 515620006156 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 515620006157 active site 515620006158 trimer interface [polypeptide binding]; other site 515620006159 allosteric site; other site 515620006160 active site lid [active] 515620006161 hexamer (dimer of trimers) interface [polypeptide binding]; other site 515620006162 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 515620006163 Flagellin N-methylase; Region: FliB; cl00497 515620006164 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 515620006165 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 515620006166 substrate binding site [chemical binding]; other site 515620006167 ATP binding site [chemical binding]; other site 515620006168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620006169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620006170 ATP binding site [chemical binding]; other site 515620006171 Mg2+ binding site [ion binding]; other site 515620006172 G-X-G motif; other site 515620006173 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 515620006174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006175 active site 515620006176 phosphorylation site [posttranslational modification] 515620006177 intermolecular recognition site; other site 515620006178 dimerization interface [polypeptide binding]; other site 515620006179 LytTr DNA-binding domain; Region: LytTR; smart00850 515620006180 Accessory gene regulator B; Region: AgrB; pfam04647 515620006181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006182 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 515620006183 Walker A/P-loop; other site 515620006184 ATP binding site [chemical binding]; other site 515620006185 Q-loop/lid; other site 515620006186 ABC transporter signature motif; other site 515620006187 Walker B; other site 515620006188 D-loop; other site 515620006189 H-loop/switch region; other site 515620006190 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 515620006191 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 515620006192 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 515620006193 substrate binding site [chemical binding]; other site 515620006194 THF binding site; other site 515620006195 zinc-binding site [ion binding]; other site 515620006196 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620006197 Zn2+ binding site [ion binding]; other site 515620006198 Mg2+ binding site [ion binding]; other site 515620006199 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 515620006200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620006201 Zn2+ binding site [ion binding]; other site 515620006202 Mg2+ binding site [ion binding]; other site 515620006203 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 515620006204 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 515620006205 motif II; other site 515620006206 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620006207 Zn2+ binding site [ion binding]; other site 515620006208 Mg2+ binding site [ion binding]; other site 515620006209 Cupin domain; Region: Cupin_2; cl17218 515620006210 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 515620006211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620006212 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620006213 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 515620006214 Low molecular weight phosphatase family; Region: LMWPc; cl00105 515620006215 active site 515620006216 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 515620006217 putative DNA binding site [nucleotide binding]; other site 515620006218 dimerization interface [polypeptide binding]; other site 515620006219 putative Zn2+ binding site [ion binding]; other site 515620006220 potential frameshift: common BLAST hit: gi|218665116|ref|YP_002425173.1| death-on-curing family protein 515620006221 Fic/DOC family; Region: Fic; cl00960 515620006222 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 515620006223 flavodoxin; Provisional; Region: PRK06242 515620006224 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 515620006225 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 515620006226 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 515620006227 homopentamer interface [polypeptide binding]; other site 515620006228 active site 515620006229 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 515620006230 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 515620006231 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 515620006232 dimerization interface [polypeptide binding]; other site 515620006233 active site 515620006234 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 515620006235 Lumazine binding domain; Region: Lum_binding; pfam00677 515620006236 Lumazine binding domain; Region: Lum_binding; pfam00677 515620006237 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 515620006238 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 515620006239 catalytic motif [active] 515620006240 Zn binding site [ion binding]; other site 515620006241 RibD C-terminal domain; Region: RibD_C; cl17279 515620006242 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 515620006243 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 515620006244 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 515620006245 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 515620006246 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 515620006247 peptidase T; Region: peptidase-T; TIGR01882 515620006248 metal binding site [ion binding]; metal-binding site 515620006249 dimer interface [polypeptide binding]; other site 515620006250 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 515620006251 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 515620006252 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 515620006253 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 515620006254 synthetase active site [active] 515620006255 NTP binding site [chemical binding]; other site 515620006256 metal binding site [ion binding]; metal-binding site 515620006257 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 515620006258 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 515620006259 motif II; other site 515620006260 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 515620006261 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 515620006262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620006263 homodimer interface [polypeptide binding]; other site 515620006264 catalytic residue [active] 515620006265 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 515620006266 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 515620006267 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 515620006268 trimerization site [polypeptide binding]; other site 515620006269 active site 515620006270 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 515620006271 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 515620006272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620006273 catalytic residue [active] 515620006274 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 515620006275 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 515620006276 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 515620006277 FeS assembly protein SufB; Region: sufB; TIGR01980 515620006278 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 515620006279 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 515620006280 Walker A/P-loop; other site 515620006281 ATP binding site [chemical binding]; other site 515620006282 Q-loop/lid; other site 515620006283 ABC transporter signature motif; other site 515620006284 Walker B; other site 515620006285 D-loop; other site 515620006286 H-loop/switch region; other site 515620006287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620006288 metal binding site [ion binding]; metal-binding site 515620006289 active site 515620006290 I-site; other site 515620006291 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 515620006292 glycerol kinase; Provisional; Region: glpK; PRK00047 515620006293 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 515620006294 N- and C-terminal domain interface [polypeptide binding]; other site 515620006295 active site 515620006296 MgATP binding site [chemical binding]; other site 515620006297 catalytic site [active] 515620006298 metal binding site [ion binding]; metal-binding site 515620006299 glycerol binding site [chemical binding]; other site 515620006300 homotetramer interface [polypeptide binding]; other site 515620006301 homodimer interface [polypeptide binding]; other site 515620006302 FBP binding site [chemical binding]; other site 515620006303 protein IIAGlc interface [polypeptide binding]; other site 515620006304 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 515620006305 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 515620006306 Ligand Binding Site [chemical binding]; other site 515620006307 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 515620006308 GTP cyclohydrolase I; Provisional; Region: PLN03044 515620006309 active site 515620006310 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 515620006311 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 515620006312 FeS/SAM binding site; other site 515620006313 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 515620006314 active site 515620006315 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 515620006316 putative ADP-ribose binding site [chemical binding]; other site 515620006317 putative active site [active] 515620006318 Domain of unknown function (DUF307); Region: DUF307; pfam03733 515620006319 PAS domain; Region: PAS; smart00091 515620006320 PAS domain; Region: PAS_9; pfam13426 515620006321 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 515620006322 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 515620006323 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620006324 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 515620006325 DNA binding residues [nucleotide binding] 515620006326 Transposase IS200 like; Region: Y1_Tnp; pfam01797 515620006327 Transposase IS200 like; Region: Y1_Tnp; cl00848 515620006328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 515620006329 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 515620006330 Coenzyme A binding pocket [chemical binding]; other site 515620006331 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 515620006332 S-adenosylmethionine binding site [chemical binding]; other site 515620006333 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 515620006334 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620006335 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620006336 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 515620006337 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 515620006338 active site 515620006339 metal binding site [ion binding]; metal-binding site 515620006340 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 515620006341 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 515620006342 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620006343 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620006344 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006345 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 515620006346 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 515620006347 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 515620006348 active site 515620006349 catalytic tetrad [active] 515620006350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620006351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006352 active site 515620006353 phosphorylation site [posttranslational modification] 515620006354 intermolecular recognition site; other site 515620006355 dimerization interface [polypeptide binding]; other site 515620006356 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620006357 DNA binding site [nucleotide binding] 515620006358 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 515620006359 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620006360 dimer interface [polypeptide binding]; other site 515620006361 phosphorylation site [posttranslational modification] 515620006362 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620006363 ATP binding site [chemical binding]; other site 515620006364 Mg2+ binding site [ion binding]; other site 515620006365 G-X-G motif; other site 515620006366 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 515620006367 TrkA-N domain; Region: TrkA_N; pfam02254 515620006368 TrkA-C domain; Region: TrkA_C; pfam02080 515620006369 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 515620006370 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 515620006371 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 515620006372 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 515620006373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006374 Walker A/P-loop; other site 515620006375 ATP binding site [chemical binding]; other site 515620006376 Q-loop/lid; other site 515620006377 ABC transporter signature motif; other site 515620006378 Walker B; other site 515620006379 D-loop; other site 515620006380 H-loop/switch region; other site 515620006381 cobyric acid synthase; Provisional; Region: PRK00784 515620006382 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 515620006383 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 515620006384 catalytic triad [active] 515620006385 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 515620006386 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 515620006387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620006388 homodimer interface [polypeptide binding]; other site 515620006389 catalytic residue [active] 515620006390 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 515620006391 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 515620006392 catalytic core [active] 515620006393 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 515620006394 cobalamin synthase; Reviewed; Region: cobS; PRK00235 515620006395 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 515620006396 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 515620006397 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 515620006398 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620006399 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 515620006400 catalytic triad [active] 515620006401 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 515620006402 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 515620006403 putative dimer interface [polypeptide binding]; other site 515620006404 active site pocket [active] 515620006405 putative cataytic base [active] 515620006406 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 515620006407 active site 515620006408 putative homodimer interface [polypeptide binding]; other site 515620006409 SAM binding site [chemical binding]; other site 515620006410 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 515620006411 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 515620006412 S-adenosylmethionine binding site [chemical binding]; other site 515620006413 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 515620006414 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 515620006415 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 515620006416 active site 515620006417 SAM binding site [chemical binding]; other site 515620006418 homodimer interface [polypeptide binding]; other site 515620006419 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 515620006420 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 515620006421 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 515620006422 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 515620006423 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 515620006424 active site 515620006425 SAM binding site [chemical binding]; other site 515620006426 homodimer interface [polypeptide binding]; other site 515620006427 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 515620006428 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 515620006429 Precorrin-8X methylmutase; Region: CbiC; pfam02570 515620006430 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 515620006431 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 515620006432 Walker A/P-loop; other site 515620006433 ATP binding site [chemical binding]; other site 515620006434 Q-loop/lid; other site 515620006435 ABC transporter signature motif; other site 515620006436 Walker B; other site 515620006437 D-loop; other site 515620006438 H-loop/switch region; other site 515620006439 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 515620006440 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 515620006441 ABC-ATPase subunit interface; other site 515620006442 dimer interface [polypeptide binding]; other site 515620006443 putative PBP binding regions; other site 515620006444 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 515620006445 intersubunit interface [polypeptide binding]; other site 515620006446 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 515620006447 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 the...; Region: Chelatase_Class_II; cl02784 515620006448 active site 515620006449 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 515620006450 active site 515620006451 N-terminal domain interface [polypeptide binding]; other site 515620006452 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 515620006453 active site 515620006454 SAM binding site [chemical binding]; other site 515620006455 homodimer interface [polypeptide binding]; other site 515620006456 Cysteine-rich small domain; Region: zf-like; cl00946 515620006457 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 515620006458 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 515620006459 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006460 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006461 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620006462 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 515620006463 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 515620006464 active site 515620006465 NTP binding site [chemical binding]; other site 515620006466 metal binding triad [ion binding]; metal-binding site 515620006467 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 515620006468 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; cl00206 515620006469 regulatory protein interface [polypeptide binding]; other site 515620006470 regulatory phosphorylation site [posttranslational modification]; other site 515620006471 GntP family permease; Region: GntP_permease; pfam02447 515620006472 fructuronate transporter; Provisional; Region: PRK10034; cl15264 515620006473 Transcriptional regulators [Transcription]; Region: FadR; COG2186 515620006474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620006475 DNA-binding site [nucleotide binding]; DNA binding site 515620006476 FCD domain; Region: FCD; cl11656 515620006477 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 515620006478 hypothetical protein; Provisional; Region: PRK09609 515620006479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620006480 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 515620006481 non-specific DNA binding site [nucleotide binding]; other site 515620006482 sequence-specific DNA binding site [nucleotide binding]; other site 515620006483 salt bridge; other site 515620006484 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 515620006485 putative active site [active] 515620006486 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 515620006487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620006488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620006489 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 515620006490 dimerization interface [polypeptide binding]; other site 515620006491 Uncharacterized conserved protein [Function unknown]; Region: COG2966 515620006492 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 515620006493 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 515620006494 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 515620006495 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 515620006496 GDP-binding site [chemical binding]; other site 515620006497 ACT binding site; other site 515620006498 IMP binding site; other site 515620006499 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 515620006500 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 515620006501 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 515620006502 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 515620006503 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 515620006504 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 515620006505 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620006506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620006507 metal binding site [ion binding]; metal-binding site 515620006508 active site 515620006509 I-site; other site 515620006510 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 515620006511 intersubunit interface [polypeptide binding]; other site 515620006512 active site 515620006513 Zn2+ binding site [ion binding]; other site 515620006514 L-rhamnose isomerase; Provisional; Region: PRK01076 515620006515 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 515620006516 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 515620006517 N- and C-terminal domain interface [polypeptide binding]; other site 515620006518 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 515620006519 active site 515620006520 putative catalytic site [active] 515620006521 metal binding site [ion binding]; metal-binding site 515620006522 ATP binding site [chemical binding]; other site 515620006523 carbohydrate binding site [chemical binding]; other site 515620006524 Domain of unknown function (DUF718); Region: DUF718; cl01281 515620006525 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 515620006526 DctM-like transporters; Region: DctM; pfam06808 515620006527 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 515620006528 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 515620006529 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 515620006530 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 515620006531 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 515620006532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620006533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620006534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620006535 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 515620006536 Part of AAA domain; Region: AAA_19; pfam13245 515620006537 Fic family protein [Function unknown]; Region: COG3177 515620006538 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 515620006539 Fic/DOC family; Region: Fic; pfam02661 515620006540 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 515620006541 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 515620006542 putative active site [active] 515620006543 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 515620006544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006545 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 515620006546 Walker A/P-loop; other site 515620006547 ATP binding site [chemical binding]; other site 515620006548 Q-loop/lid; other site 515620006549 ABC transporter signature motif; other site 515620006550 Walker B; other site 515620006551 D-loop; other site 515620006552 H-loop/switch region; other site 515620006553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620006554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620006555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006556 Walker A/P-loop; other site 515620006557 ATP binding site [chemical binding]; other site 515620006558 Q-loop/lid; other site 515620006559 ABC transporter signature motif; other site 515620006560 Walker B; other site 515620006561 D-loop; other site 515620006562 H-loop/switch region; other site 515620006563 hypothetical protein; Validated; Region: PRK07668 515620006564 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 515620006565 AAA domain; Region: AAA_14; pfam13173 515620006566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 515620006567 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 515620006568 dimerization interface [polypeptide binding]; other site 515620006569 putative DNA binding site [nucleotide binding]; other site 515620006570 putative Zn2+ binding site [ion binding]; other site 515620006571 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 515620006572 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620006573 Walker A/P-loop; other site 515620006574 ATP binding site [chemical binding]; other site 515620006575 Q-loop/lid; other site 515620006576 ABC transporter signature motif; other site 515620006577 Walker B; other site 515620006578 D-loop; other site 515620006579 H-loop/switch region; other site 515620006580 SdpI/YhfL protein family; Region: SdpI; pfam13630 515620006581 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 515620006582 dimerization interface [polypeptide binding]; other site 515620006583 putative DNA binding site [nucleotide binding]; other site 515620006584 putative Zn2+ binding site [ion binding]; other site 515620006585 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 515620006586 FMN binding site [chemical binding]; other site 515620006587 dimer interface [polypeptide binding]; other site 515620006588 stage V sporulation protein K; Region: spore_V_K; TIGR02881 515620006589 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620006590 Walker A motif; other site 515620006591 ATP binding site [chemical binding]; other site 515620006592 Walker B motif; other site 515620006593 arginine finger; other site 515620006594 WYL domain; Region: WYL; pfam13280 515620006595 Domain of unknown function (DUF955); Region: DUF955; pfam06114 515620006596 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620006597 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 515620006598 non-specific DNA binding site [nucleotide binding]; other site 515620006599 salt bridge; other site 515620006600 sequence-specific DNA binding site [nucleotide binding]; other site 515620006601 cell division protein FtsZ; Validated; Region: PRK09330 515620006602 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 515620006603 nucleotide binding site [chemical binding]; other site 515620006604 SulA interaction site; other site 515620006605 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 515620006606 Part of AAA domain; Region: AAA_19; pfam13245 515620006607 Family description; Region: UvrD_C_2; pfam13538 515620006608 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 515620006609 FMN binding site [chemical binding]; other site 515620006610 dimer interface [polypeptide binding]; other site 515620006611 Protein of unknown function DUF45; Region: DUF45; pfam01863 515620006612 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 515620006613 putative deacylase active site [active] 515620006614 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 515620006615 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 515620006616 putative dimer interface [polypeptide binding]; other site 515620006617 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 515620006618 active site 515620006619 metal binding site [ion binding]; metal-binding site 515620006620 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 515620006621 putative phosphate acyltransferase; Provisional; Region: PRK05331 515620006622 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620006623 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620006624 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 515620006625 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 515620006626 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 515620006627 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 515620006628 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 515620006629 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 515620006630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620006631 NAD(P) binding site [chemical binding]; other site 515620006632 active site 515620006633 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 515620006634 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 515620006635 dimer interface [polypeptide binding]; other site 515620006636 active site 515620006637 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 515620006638 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 515620006639 active site 515620006640 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 515620006641 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 515620006642 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 515620006643 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620006644 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 515620006645 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 515620006646 PAS fold; Region: PAS_3; pfam08447 515620006647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620006648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620006649 metal binding site [ion binding]; metal-binding site 515620006650 active site 515620006651 I-site; other site 515620006652 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 515620006653 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 515620006654 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620006655 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620006656 dimer interface [polypeptide binding]; other site 515620006657 putative CheW interface [polypeptide binding]; other site 515620006658 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 515620006659 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620006660 putative active site [active] 515620006661 putative metal binding site [ion binding]; other site 515620006662 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 515620006663 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 515620006664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 515620006665 Sterol carrier protein domain; Region: SCP2_2; pfam13530 515620006666 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 515620006667 Transcriptional regulators [Transcription]; Region: GntR; COG1802 515620006668 FCD domain; Region: FCD; pfam07729 515620006669 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 515620006670 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620006671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006672 Walker A/P-loop; other site 515620006673 ATP binding site [chemical binding]; other site 515620006674 Q-loop/lid; other site 515620006675 ABC transporter signature motif; other site 515620006676 Walker B; other site 515620006677 D-loop; other site 515620006678 H-loop/switch region; other site 515620006679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620006680 ABC transporter; Region: ABC_tran_2; pfam12848 515620006681 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 515620006682 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 515620006683 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 515620006684 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 515620006685 Abi-like protein; Region: Abi_2; pfam07751 515620006686 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 515620006687 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 515620006688 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 515620006689 SdiA-regulated; Region: SdiA-regulated; cd09971 515620006690 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 515620006691 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 515620006692 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 515620006693 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 515620006694 active site 515620006695 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 515620006696 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 515620006697 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 515620006698 active site 515620006699 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 515620006700 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 515620006701 Bacterial sugar transferase; Region: Bac_transf; cl00939 515620006702 Bacterial sugar transferase; Region: Bac_transf; pfam02397 515620006703 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 515620006704 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 515620006705 Chain length determinant protein; Region: Wzz; cl15801 515620006706 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 515620006707 PHP domain; Region: PHP; pfam02811 515620006708 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 515620006709 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 515620006710 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 515620006711 putative acyl-acceptor binding pocket; other site 515620006712 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 515620006713 active site 515620006714 catalytic triad [active] 515620006715 oxyanion hole [active] 515620006716 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 515620006717 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 515620006718 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 515620006719 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 515620006720 active site 515620006721 nucleophile elbow; other site 515620006722 acyl carrier protein; Provisional; Region: acpP; PRK00982 515620006723 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 515620006724 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 515620006725 acyl-activating enzyme (AAE) consensus motif; other site 515620006726 active site 515620006727 AMP binding site [chemical binding]; other site 515620006728 CoA binding site [chemical binding]; other site 515620006729 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 515620006730 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 515620006731 putative acyl-acceptor binding pocket; other site 515620006732 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 515620006733 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 515620006734 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620006735 dimerization interface [polypeptide binding]; other site 515620006736 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620006737 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620006738 dimer interface [polypeptide binding]; other site 515620006739 putative CheW interface [polypeptide binding]; other site 515620006740 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 515620006741 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 515620006742 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 515620006743 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 515620006744 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 515620006745 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 515620006746 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006747 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 515620006748 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 515620006749 active site 515620006750 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 515620006751 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 515620006752 P-loop; other site 515620006753 Magnesium ion binding site [ion binding]; other site 515620006754 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 515620006755 Magnesium ion binding site [ion binding]; other site 515620006756 ParB-like nuclease domain; Region: ParB; smart00470 515620006757 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 515620006758 active site 515620006759 catalytic residues [active] 515620006760 Int/Topo IB signature motif; other site 515620006761 DNA binding site [nucleotide binding] 515620006762 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 515620006763 active site 515620006764 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 515620006765 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 515620006766 dimer interface [polypeptide binding]; other site 515620006767 active site 515620006768 metal binding site [ion binding]; metal-binding site 515620006769 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 515620006770 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 515620006771 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 515620006772 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 515620006773 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 515620006774 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 515620006775 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 515620006776 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 515620006777 active site 515620006778 homodimer interface [polypeptide binding]; other site 515620006779 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 515620006780 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 515620006781 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 515620006782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620006783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620006784 metal binding site [ion binding]; metal-binding site 515620006785 active site 515620006786 I-site; other site 515620006787 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 515620006788 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 515620006789 active site 515620006790 motif I; other site 515620006791 motif II; other site 515620006792 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 515620006793 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 515620006794 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620006795 active site 515620006796 HIGH motif; other site 515620006797 nucleotide binding site [chemical binding]; other site 515620006798 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 515620006799 active site 515620006800 KMSKS motif; other site 515620006801 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 515620006802 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 515620006803 nudix motif; other site 515620006804 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620006805 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620006806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006807 Walker A/P-loop; other site 515620006808 ATP binding site [chemical binding]; other site 515620006809 Q-loop/lid; other site 515620006810 ABC transporter signature motif; other site 515620006811 Walker B; other site 515620006812 D-loop; other site 515620006813 H-loop/switch region; other site 515620006814 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620006815 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620006816 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 515620006817 Walker A/P-loop; other site 515620006818 ATP binding site [chemical binding]; other site 515620006819 Q-loop/lid; other site 515620006820 ABC transporter signature motif; other site 515620006821 Walker B; other site 515620006822 D-loop; other site 515620006823 H-loop/switch region; other site 515620006824 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 515620006825 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 515620006826 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 515620006827 putative active site [active] 515620006828 catalytic site [active] 515620006829 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 515620006830 putative active site [active] 515620006831 catalytic site [active] 515620006832 NUDIX domain; Region: NUDIX; pfam00293 515620006833 nudix motif; other site 515620006834 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620006835 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620006836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 515620006837 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006838 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620006839 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 515620006840 thiamine phosphate binding site [chemical binding]; other site 515620006841 active site 515620006842 pyrophosphate binding site [ion binding]; other site 515620006843 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 515620006844 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 515620006845 motif II; other site 515620006846 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 515620006847 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 515620006848 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 515620006849 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 515620006850 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 515620006851 catalytic residue [active] 515620006852 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 515620006853 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 515620006854 homodimer interface [polypeptide binding]; other site 515620006855 substrate-cofactor binding pocket; other site 515620006856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620006857 catalytic residue [active] 515620006858 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 515620006859 Response regulator receiver domain; Region: Response_reg; pfam00072 515620006860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006861 active site 515620006862 phosphorylation site [posttranslational modification] 515620006863 intermolecular recognition site; other site 515620006864 dimerization interface [polypeptide binding]; other site 515620006865 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 515620006866 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 515620006867 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620006868 membrane-bound complex binding site; other site 515620006869 alanine racemase; Reviewed; Region: alr; PRK00053 515620006870 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 515620006871 active site 515620006872 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 515620006873 dimer interface [polypeptide binding]; other site 515620006874 substrate binding site [chemical binding]; other site 515620006875 catalytic residues [active] 515620006876 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620006877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620006878 active site 515620006879 phosphorylation site [posttranslational modification] 515620006880 intermolecular recognition site; other site 515620006881 dimerization interface [polypeptide binding]; other site 515620006882 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620006883 DNA binding site [nucleotide binding] 515620006884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620006885 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620006886 dimer interface [polypeptide binding]; other site 515620006887 phosphorylation site [posttranslational modification] 515620006888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620006889 ATP binding site [chemical binding]; other site 515620006890 Mg2+ binding site [ion binding]; other site 515620006891 G-X-G motif; other site 515620006892 Rhomboid family; Region: Rhomboid; pfam01694 515620006893 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 515620006894 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 515620006895 active site 515620006896 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006897 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 515620006898 Walker A/P-loop; other site 515620006899 ATP binding site [chemical binding]; other site 515620006900 Q-loop/lid; other site 515620006901 ABC transporter signature motif; other site 515620006902 Walker B; other site 515620006903 D-loop; other site 515620006904 H-loop/switch region; other site 515620006905 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 515620006906 hydroxyglutarate oxidase; Provisional; Region: PRK11728 515620006907 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 515620006908 Predicted membrane protein [Function unknown]; Region: COG2119 515620006909 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 515620006910 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 515620006911 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 515620006912 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 515620006913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 515620006914 hypothetical protein; Provisional; Region: PRK13663 515620006915 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 515620006916 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 515620006917 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 515620006918 active site 515620006919 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 515620006920 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 515620006921 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 515620006922 G1 box; other site 515620006923 GTP/Mg2+ binding site [chemical binding]; other site 515620006924 Switch I region; other site 515620006925 G2 box; other site 515620006926 G3 box; other site 515620006927 Switch II region; other site 515620006928 G4 box; other site 515620006929 G5 box; other site 515620006930 Nucleoside recognition; Region: Gate; pfam07670 515620006931 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 515620006932 Nucleoside recognition; Region: Gate; pfam07670 515620006933 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 515620006934 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 515620006935 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 515620006936 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620006937 DNA-binding site [nucleotide binding]; DNA binding site 515620006938 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 515620006939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620006940 homodimer interface [polypeptide binding]; other site 515620006941 catalytic residue [active] 515620006942 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006943 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 515620006944 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 515620006945 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 515620006946 Germination protease; Region: Peptidase_A25; cl04057 515620006947 FtsX-like permease family; Region: FtsX; pfam02687 515620006948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620006949 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620006950 Walker A/P-loop; other site 515620006951 ATP binding site [chemical binding]; other site 515620006952 Q-loop/lid; other site 515620006953 ABC transporter signature motif; other site 515620006954 Walker B; other site 515620006955 D-loop; other site 515620006956 H-loop/switch region; other site 515620006957 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 515620006958 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620006959 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 515620006960 DNA polymerase IV; Reviewed; Region: PRK03103 515620006961 Y-family of DNA polymerases; Region: PolY; cl12025 515620006962 active site 515620006963 DNA binding site [nucleotide binding] 515620006964 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 515620006965 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 515620006966 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 515620006967 homodimer interface [polypeptide binding]; other site 515620006968 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 515620006969 putative substrate binding site 1 [chemical binding]; other site 515620006970 Na binding site 1 [ion binding]; other site 515620006971 putative substrate binding site 2 [chemical binding]; other site 515620006972 Na2 binding site [ion binding]; other site 515620006973 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 515620006974 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 515620006975 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 515620006976 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 515620006977 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 515620006978 ATP-grasp domain; Region: ATP-grasp_4; cl17255 515620006979 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 515620006980 IMP binding site; other site 515620006981 dimer interface [polypeptide binding]; other site 515620006982 interdomain contacts; other site 515620006983 partial ornithine binding site; other site 515620006984 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 515620006985 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 515620006986 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 515620006987 catalytic site [active] 515620006988 subunit interface [polypeptide binding]; other site 515620006989 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 515620006990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620006991 Walker A/P-loop; other site 515620006992 ATP binding site [chemical binding]; other site 515620006993 Q-loop/lid; other site 515620006994 ABC transporter signature motif; other site 515620006995 Walker B; other site 515620006996 D-loop; other site 515620006997 H-loop/switch region; other site 515620006998 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 515620006999 active site 515620007000 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 515620007001 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 515620007002 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 515620007003 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 515620007004 Walker A/P-loop; other site 515620007005 ATP binding site [chemical binding]; other site 515620007006 Q-loop/lid; other site 515620007007 ABC transporter signature motif; other site 515620007008 Walker B; other site 515620007009 D-loop; other site 515620007010 H-loop/switch region; other site 515620007011 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 515620007012 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 515620007013 biotin synthase; Region: bioB; TIGR00433 515620007014 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 515620007015 FeS/SAM binding site; other site 515620007016 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 515620007017 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 515620007018 Sensory domain found in PocR; Region: PocR; pfam10114 515620007019 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620007020 putative CheW interface [polypeptide binding]; other site 515620007021 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 515620007022 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 515620007023 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 515620007024 substrate binding site; other site 515620007025 dimerization interface; other site 515620007026 hypothetical protein; Provisional; Region: PRK07248 515620007027 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 515620007028 Prephenate dehydratase; Region: PDT; pfam00800 515620007029 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 515620007030 putative L-Phe binding site [chemical binding]; other site 515620007031 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 515620007032 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 515620007033 dimer interface [polypeptide binding]; other site 515620007034 anticodon binding site; other site 515620007035 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 515620007036 homodimer interface [polypeptide binding]; other site 515620007037 motif 1; other site 515620007038 active site 515620007039 motif 2; other site 515620007040 GAD domain; Region: GAD; pfam02938 515620007041 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 515620007042 motif 3; other site 515620007043 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620007044 Zn2+ binding site [ion binding]; other site 515620007045 Mg2+ binding site [ion binding]; other site 515620007046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620007047 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620007048 metal binding site [ion binding]; metal-binding site 515620007049 active site 515620007050 I-site; other site 515620007051 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 515620007052 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 515620007053 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 515620007054 NodB motif; other site 515620007055 active site 515620007056 catalytic site [active] 515620007057 Zn binding site [ion binding]; other site 515620007058 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620007059 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620007060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620007061 Walker A/P-loop; other site 515620007062 ATP binding site [chemical binding]; other site 515620007063 Q-loop/lid; other site 515620007064 ABC transporter signature motif; other site 515620007065 Walker B; other site 515620007066 D-loop; other site 515620007067 H-loop/switch region; other site 515620007068 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620007069 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620007070 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 515620007071 Walker A/P-loop; other site 515620007072 ATP binding site [chemical binding]; other site 515620007073 Q-loop/lid; other site 515620007074 ABC transporter signature motif; other site 515620007075 Walker B; other site 515620007076 D-loop; other site 515620007077 H-loop/switch region; other site 515620007078 Double zinc ribbon; Region: DZR; pfam12773 515620007079 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620007080 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620007081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620007082 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620007083 dimer interface [polypeptide binding]; other site 515620007084 phosphorylation site [posttranslational modification] 515620007085 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620007086 ATP binding site [chemical binding]; other site 515620007087 Mg2+ binding site [ion binding]; other site 515620007088 G-X-G motif; other site 515620007089 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 515620007090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620007091 active site 515620007092 phosphorylation site [posttranslational modification] 515620007093 intermolecular recognition site; other site 515620007094 dimerization interface [polypeptide binding]; other site 515620007095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 515620007096 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 515620007097 substrate binding pocket [chemical binding]; other site 515620007098 membrane-bound complex binding site; other site 515620007099 hinge residues; other site 515620007100 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 515620007101 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 515620007102 active site 515620007103 multimer interface [polypeptide binding]; other site 515620007104 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 515620007105 predicted active site [active] 515620007106 catalytic triad [active] 515620007107 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 515620007108 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 515620007109 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 515620007110 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 515620007111 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 515620007112 potential frameshift: common BLAST hit: gi|15895841|ref|NP_349190.1| 6-pyruvoyl-tetrahydropterin synthase 515620007113 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 515620007114 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 515620007115 putative glycosyltransferase, exosortase G-associated; Region: glyc2_xrt_Gpos1; TIGR03111 515620007116 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 515620007117 DXD motif; other site 515620007118 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 515620007119 GlpM protein; Region: GlpM; cl01212 515620007120 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 515620007121 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 515620007122 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; cl00206 515620007123 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 515620007124 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 515620007125 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 515620007126 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 515620007127 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_33; cd04692 515620007128 nudix motif; other site 515620007129 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 515620007130 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 515620007131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620007132 Walker A/P-loop; other site 515620007133 ATP binding site [chemical binding]; other site 515620007134 AAA domain; Region: AAA_21; pfam13304 515620007135 Transposase, Mutator family; Region: Transposase_mut; pfam00872 515620007136 MULE transposase domain; Region: MULE; pfam10551 515620007137 Dynamin family; Region: Dynamin_N; pfam00350 515620007138 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 515620007139 G1 box; other site 515620007140 GTP/Mg2+ binding site [chemical binding]; other site 515620007141 G2 box; other site 515620007142 Switch I region; other site 515620007143 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 515620007144 G3 box; other site 515620007145 Switch II region; other site 515620007146 G4 box; other site 515620007147 Predicted transcriptional regulator [Transcription]; Region: COG2378 515620007148 WYL domain; Region: WYL; pfam13280 515620007149 Protein of unknown function (DUF2661); Region: DUF2661; pfam10860 515620007150 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620007151 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 515620007152 non-specific DNA binding site [nucleotide binding]; other site 515620007153 salt bridge; other site 515620007154 sequence-specific DNA binding site [nucleotide binding]; other site 515620007155 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 515620007156 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 515620007157 metal binding site [ion binding]; metal-binding site 515620007158 Predicted membrane protein [Function unknown]; Region: COG1288 515620007159 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 515620007160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620007161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620007162 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 515620007163 dimerization interface [polypeptide binding]; other site 515620007164 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 515620007165 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 515620007166 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 515620007167 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 515620007168 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 515620007169 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 515620007170 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 515620007171 active site 515620007172 Zn binding site [ion binding]; other site 515620007173 Uncharacterized conserved protein [Function unknown]; Region: COG4933 515620007174 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 515620007175 BCCT family transporter; Region: BCCT; pfam02028 515620007176 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 515620007177 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 515620007178 active site 515620007179 metal-binding site 515620007180 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 515620007181 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 515620007182 active site 515620007183 metal-binding site 515620007184 Phosphotransferase enzyme family; Region: APH; pfam01636 515620007185 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 515620007186 active site 515620007187 ATP binding site [chemical binding]; other site 515620007188 substrate binding site [chemical binding]; other site 515620007189 dimer interface [polypeptide binding]; other site 515620007190 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 515620007191 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 515620007192 FeS/SAM binding site; other site 515620007193 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 515620007194 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 515620007195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 515620007196 Zn2+ binding site [ion binding]; other site 515620007197 Mg2+ binding site [ion binding]; other site 515620007198 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 515620007199 synthetase active site [active] 515620007200 NTP binding site [chemical binding]; other site 515620007201 metal binding site [ion binding]; metal-binding site 515620007202 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 515620007203 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 515620007204 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 515620007205 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 515620007206 Metal-binding active site; metal-binding site 515620007207 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 515620007208 active site 515620007209 zinc binding site [ion binding]; other site 515620007210 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 515620007211 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 515620007212 FeS/SAM binding site; other site 515620007213 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 515620007214 trimer interface [polypeptide binding]; other site 515620007215 active site 515620007216 trigger factor; Region: tig; TIGR00115 515620007217 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 515620007218 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 515620007219 23S rRNA binding site [nucleotide binding]; other site 515620007220 L21 binding site [polypeptide binding]; other site 515620007221 L13 binding site [polypeptide binding]; other site 515620007222 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 515620007223 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 515620007224 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 515620007225 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 515620007226 EDD domain protein, DegV family; Region: DegV; TIGR00762 515620007227 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 515620007228 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 515620007229 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620007230 active site 515620007231 phosphorylation site [posttranslational modification] 515620007232 intermolecular recognition site; other site 515620007233 dimerization interface [polypeptide binding]; other site 515620007234 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 515620007235 synthetase active site [active] 515620007236 NTP binding site [chemical binding]; other site 515620007237 metal binding site [ion binding]; metal-binding site 515620007238 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 515620007239 adenosine deaminase; Provisional; Region: PRK09358 515620007240 active site 515620007241 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 515620007242 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 515620007243 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 515620007244 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 515620007245 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 515620007246 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 515620007247 non-specific DNA binding site [nucleotide binding]; other site 515620007248 salt bridge; other site 515620007249 sequence-specific DNA binding site [nucleotide binding]; other site 515620007250 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 515620007251 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 515620007252 FeS/SAM binding site; other site 515620007253 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 515620007254 DEAD/DEAH box helicase; Region: DEAD; pfam00270 515620007255 ATP binding site [chemical binding]; other site 515620007256 putative Mg++ binding site [ion binding]; other site 515620007257 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 515620007258 nucleotide binding region [chemical binding]; other site 515620007259 ATP-binding site [chemical binding]; other site 515620007260 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 515620007261 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 515620007262 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 515620007263 active site 515620007264 dimer interface [polypeptide binding]; other site 515620007265 motif 1; other site 515620007266 motif 2; other site 515620007267 motif 3; other site 515620007268 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 515620007269 anticodon binding site; other site 515620007270 EUBELI_20510; RF00230 T-box leader; T-box leader 515620007271 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620007272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620007273 dimer interface [polypeptide binding]; other site 515620007274 putative CheW interface [polypeptide binding]; other site 515620007275 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 515620007276 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 515620007277 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 515620007278 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 515620007279 active site 515620007280 catalytic residues [active] 515620007281 metal binding site [ion binding]; metal-binding site 515620007282 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 515620007283 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 515620007284 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 515620007285 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 515620007286 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 515620007287 dimerization domain swap beta strand [polypeptide binding]; other site 515620007288 regulatory protein interface [polypeptide binding]; other site 515620007289 active site 515620007290 regulatory phosphorylation site [posttranslational modification]; other site 515620007291 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 515620007292 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 515620007293 active site 515620007294 phosphorylation site [posttranslational modification] 515620007295 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 515620007296 active site 515620007297 P-loop; other site 515620007298 phosphorylation site [posttranslational modification] 515620007299 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 515620007300 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 515620007301 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 515620007302 putative substrate binding site [chemical binding]; other site 515620007303 putative ATP binding site [chemical binding]; other site 515620007304 Predicted membrane protein [Function unknown]; Region: COG3601 515620007305 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 515620007306 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 515620007307 EamA-like transporter family; Region: EamA; pfam00892 515620007308 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 515620007309 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 515620007310 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 515620007311 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 515620007312 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620007313 active site 515620007314 metal binding site [ion binding]; metal-binding site 515620007315 DNA binding site [nucleotide binding] 515620007316 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 515620007317 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 515620007318 active site 515620007319 catalytic residues [active] 515620007320 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 515620007321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620007322 dimer interface [polypeptide binding]; other site 515620007323 conserved gate region; other site 515620007324 putative PBP binding loops; other site 515620007325 ABC-ATPase subunit interface; other site 515620007326 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 515620007327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620007328 dimer interface [polypeptide binding]; other site 515620007329 conserved gate region; other site 515620007330 putative PBP binding loops; other site 515620007331 ABC-ATPase subunit interface; other site 515620007332 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 515620007333 Transcriptional regulators [Transcription]; Region: PurR; COG1609 515620007334 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 515620007335 DNA binding site [nucleotide binding] 515620007336 domain linker motif; other site 515620007337 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 515620007338 dimerization interface [polypeptide binding]; other site 515620007339 ligand binding site [chemical binding]; other site 515620007340 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 515620007341 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 515620007342 catalytic domain interface [polypeptide binding]; other site 515620007343 homodimer interface [polypeptide binding]; other site 515620007344 putative active site [active] 515620007345 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 515620007346 beta-galactosidase; Region: BGL; TIGR03356 515620007347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620007348 AAA domain; Region: AAA_21; pfam13304 515620007349 Walker A/P-loop; other site 515620007350 ATP binding site [chemical binding]; other site 515620007351 Protein of unknown function (DUF975); Region: DUF975; cl10504 515620007352 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 515620007353 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 515620007354 HSP70 interaction site [polypeptide binding]; other site 515620007355 Predicted transcriptional regulators [Transcription]; Region: COG1725 515620007356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620007357 DNA-binding site [nucleotide binding]; DNA binding site 515620007358 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 515620007359 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 515620007360 Walker A/P-loop; other site 515620007361 ATP binding site [chemical binding]; other site 515620007362 Q-loop/lid; other site 515620007363 ABC transporter signature motif; other site 515620007364 Walker B; other site 515620007365 D-loop; other site 515620007366 H-loop/switch region; other site 515620007367 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620007368 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 515620007369 putative DNA binding site [nucleotide binding]; other site 515620007370 putative Zn2+ binding site [ion binding]; other site 515620007371 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620007372 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620007373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620007374 Walker A/P-loop; other site 515620007375 ATP binding site [chemical binding]; other site 515620007376 Q-loop/lid; other site 515620007377 ABC transporter signature motif; other site 515620007378 Walker B; other site 515620007379 D-loop; other site 515620007380 H-loop/switch region; other site 515620007381 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 515620007382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 515620007383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 515620007384 Walker A/P-loop; other site 515620007385 ATP binding site [chemical binding]; other site 515620007386 Q-loop/lid; other site 515620007387 ABC transporter signature motif; other site 515620007388 Walker B; other site 515620007389 D-loop; other site 515620007390 H-loop/switch region; other site 515620007391 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 515620007392 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 515620007393 FtsX-like permease family; Region: FtsX; pfam02687 515620007394 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620007395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620007396 Walker A/P-loop; other site 515620007397 ATP binding site [chemical binding]; other site 515620007398 Q-loop/lid; other site 515620007399 ABC transporter signature motif; other site 515620007400 Walker B; other site 515620007401 D-loop; other site 515620007402 H-loop/switch region; other site 515620007403 FtsX-like permease family; Region: FtsX; pfam02687 515620007404 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620007405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620007406 active site 515620007407 phosphorylation site [posttranslational modification] 515620007408 intermolecular recognition site; other site 515620007409 dimerization interface [polypeptide binding]; other site 515620007410 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620007411 DNA binding site [nucleotide binding] 515620007412 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620007413 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620007414 dimer interface [polypeptide binding]; other site 515620007415 phosphorylation site [posttranslational modification] 515620007416 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620007417 ATP binding site [chemical binding]; other site 515620007418 Mg2+ binding site [ion binding]; other site 515620007419 G-X-G motif; other site 515620007420 YibE/F-like protein; Region: YibE_F; pfam07907 515620007421 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 515620007422 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 515620007423 active site 515620007424 metal binding site [ion binding]; metal-binding site 515620007425 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 515620007426 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 515620007427 inhibitor-cofactor binding pocket; inhibition site 515620007428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620007429 catalytic residue [active] 515620007430 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 515620007431 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 515620007432 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 515620007433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620007434 dimer interface [polypeptide binding]; other site 515620007435 conserved gate region; other site 515620007436 putative PBP binding loops; other site 515620007437 ABC-ATPase subunit interface; other site 515620007438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 515620007439 dimer interface [polypeptide binding]; other site 515620007440 conserved gate region; other site 515620007441 putative PBP binding loops; other site 515620007442 ABC-ATPase subunit interface; other site 515620007443 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 515620007444 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 515620007445 Walker A/P-loop; other site 515620007446 ATP binding site [chemical binding]; other site 515620007447 Q-loop/lid; other site 515620007448 ABC transporter signature motif; other site 515620007449 Walker B; other site 515620007450 D-loop; other site 515620007451 H-loop/switch region; other site 515620007452 TOBE domain; Region: TOBE_2; pfam08402 515620007453 TOBE domain; Region: TOBE_2; pfam08402 515620007454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 515620007455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 515620007456 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 515620007457 dimerization interface [polypeptide binding]; other site 515620007458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620007459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620007460 metal binding site [ion binding]; metal-binding site 515620007461 active site 515620007462 I-site; other site 515620007463 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 515620007464 putative binding surface; other site 515620007465 active site 515620007466 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 515620007467 Na2 binding site [ion binding]; other site 515620007468 putative substrate binding site 1 [chemical binding]; other site 515620007469 Na binding site 1 [ion binding]; other site 515620007470 putative substrate binding site 2 [chemical binding]; other site 515620007471 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 515620007472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620007473 DNA-binding site [nucleotide binding]; DNA binding site 515620007474 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 515620007475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620007476 homodimer interface [polypeptide binding]; other site 515620007477 catalytic residue [active] 515620007478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 515620007479 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 515620007480 NAD(P) binding site [chemical binding]; other site 515620007481 active site 515620007482 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 515620007483 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 515620007484 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 515620007485 putative active site [active] 515620007486 nucleotide binding site [chemical binding]; other site 515620007487 nudix motif; other site 515620007488 putative metal binding site [ion binding]; other site 515620007489 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 515620007490 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 515620007491 active site 515620007492 metal binding site [ion binding]; metal-binding site 515620007493 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 515620007494 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 515620007495 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 515620007496 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 515620007497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 515620007498 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 515620007499 FtsX-like permease family; Region: FtsX; pfam02687 515620007500 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620007501 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620007502 Walker A/P-loop; other site 515620007503 ATP binding site [chemical binding]; other site 515620007504 Q-loop/lid; other site 515620007505 ABC transporter signature motif; other site 515620007506 Walker B; other site 515620007507 D-loop; other site 515620007508 H-loop/switch region; other site 515620007509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620007510 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620007511 dimer interface [polypeptide binding]; other site 515620007512 phosphorylation site [posttranslational modification] 515620007513 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620007514 ATP binding site [chemical binding]; other site 515620007515 Mg2+ binding site [ion binding]; other site 515620007516 G-X-G motif; other site 515620007517 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620007518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620007519 active site 515620007520 phosphorylation site [posttranslational modification] 515620007521 intermolecular recognition site; other site 515620007522 dimerization interface [polypeptide binding]; other site 515620007523 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620007524 DNA binding site [nucleotide binding] 515620007525 CBD_II domain; Region: CBD_II; smart00637 515620007526 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 515620007527 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 515620007528 dimer interface [polypeptide binding]; other site 515620007529 Citrate synthase; Region: Citrate_synt; pfam00285 515620007530 active site 515620007531 citrylCoA binding site [chemical binding]; other site 515620007532 oxalacetate/citrate binding site [chemical binding]; other site 515620007533 coenzyme A binding site [chemical binding]; other site 515620007534 catalytic triad [active] 515620007535 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 515620007536 putative efflux protein, MATE family; Region: matE; TIGR00797 515620007537 beta-D-glucuronidase; Provisional; Region: PRK10150 515620007538 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 515620007539 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 515620007540 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 515620007541 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 515620007542 MFS/sugar transport protein; Region: MFS_2; pfam13347 515620007543 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 515620007544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 515620007545 Transcriptional regulators [Transcription]; Region: GntR; COG1802 515620007546 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 515620007547 DNA-binding site [nucleotide binding]; DNA binding site 515620007548 FCD domain; Region: FCD; pfam07729 515620007549 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 515620007550 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 515620007551 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 515620007552 mannonate dehydratase; Provisional; Region: PRK03906 515620007553 mannonate dehydratase; Region: uxuA; TIGR00695 515620007554 VanZ like family; Region: VanZ; pfam04892 515620007555 RDD family; Region: RDD; cl00746 515620007556 hypothetical protein; Provisional; Region: PRK08912 515620007557 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 515620007558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620007559 homodimer interface [polypeptide binding]; other site 515620007560 catalytic residue [active] 515620007561 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 515620007562 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 515620007563 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 515620007564 non-specific DNA binding site [nucleotide binding]; other site 515620007565 salt bridge; other site 515620007566 sequence-specific DNA binding site [nucleotide binding]; other site 515620007567 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 515620007568 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 515620007569 homodimer interface [polypeptide binding]; other site 515620007570 substrate-cofactor binding pocket; other site 515620007571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 515620007572 catalytic residue [active] 515620007573 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 515620007574 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 515620007575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620007576 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620007577 metal binding site [ion binding]; metal-binding site 515620007578 active site 515620007579 I-site; other site 515620007580 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 515620007581 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 515620007582 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 515620007583 RelB antitoxin; Region: RelB; cl01171 515620007584 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 515620007585 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 515620007586 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 515620007587 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 515620007588 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 515620007589 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 515620007590 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 515620007591 active site clefts [active] 515620007592 zinc binding site [ion binding]; other site 515620007593 dimer interface [polypeptide binding]; other site 515620007594 endonuclease IV; Provisional; Region: PRK01060 515620007595 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 515620007596 AP (apurinic/apyrimidinic) site pocket; other site 515620007597 DNA interaction; other site 515620007598 Metal-binding active site; metal-binding site 515620007599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 515620007600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 515620007601 metal binding site [ion binding]; metal-binding site 515620007602 active site 515620007603 I-site; other site 515620007604 AzlC protein; Region: AzlC; cl00570 515620007605 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 515620007606 putative hydrolase; Validated; Region: PRK09248 515620007607 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 515620007608 active site 515620007609 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 515620007610 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 515620007611 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 515620007612 transmembrane helices; other site 515620007613 Domain of unknown function (DUF386); Region: DUF386; cl01047 515620007614 KduI/IolB family; Region: KduI; pfam04962 515620007615 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 515620007616 Ligand Binding Site [chemical binding]; other site 515620007617 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 515620007618 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 515620007619 Radical SAM superfamily; Region: Radical_SAM; pfam04055 515620007620 FeS/SAM binding site; other site 515620007621 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 515620007622 MarR family; Region: MarR_2; cl17246 515620007623 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620007624 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 515620007625 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 515620007626 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 515620007627 putative ADP-ribose binding site [chemical binding]; other site 515620007628 putative active site [active] 515620007629 flavodoxin; Provisional; Region: PRK06242 515620007630 hypothetical protein; Provisional; Region: PRK10977 515620007631 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 515620007632 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 515620007633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 515620007634 Coenzyme A binding pocket [chemical binding]; other site 515620007635 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 515620007636 ArsC family; Region: ArsC; pfam03960 515620007637 catalytic residue [active] 515620007638 hypothetical protein; Validated; Region: PRK00124 515620007639 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 515620007640 active site 515620007641 Predicted transcriptional regulator [Transcription]; Region: COG2932 515620007642 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 515620007643 Catalytic site [active] 515620007644 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 515620007645 non-specific DNA binding site [nucleotide binding]; other site 515620007646 salt bridge; other site 515620007647 sequence-specific DNA binding site [nucleotide binding]; other site 515620007648 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 515620007649 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620007650 dimerization interface [polypeptide binding]; other site 515620007651 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 515620007652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 515620007653 dimer interface [polypeptide binding]; other site 515620007654 putative CheW interface [polypeptide binding]; other site 515620007655 Transposase, Mutator family; Region: Transposase_mut; pfam00872 515620007656 MULE transposase domain; Region: MULE; pfam10551 515620007657 FtsH Extracellular; Region: FtsH_ext; pfam06480 515620007658 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 515620007659 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 515620007660 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 515620007661 Walker A motif; other site 515620007662 ATP binding site [chemical binding]; other site 515620007663 Walker B motif; other site 515620007664 arginine finger; other site 515620007665 Peptidase family M41; Region: Peptidase_M41; pfam01434 515620007666 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 515620007667 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 515620007668 active site 515620007669 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 515620007670 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 515620007671 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 515620007672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 515620007673 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 515620007674 dimerization interface [polypeptide binding]; other site 515620007675 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 515620007676 dimer interface [polypeptide binding]; other site 515620007677 phosphorylation site [posttranslational modification] 515620007678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 515620007679 ATP binding site [chemical binding]; other site 515620007680 Mg2+ binding site [ion binding]; other site 515620007681 G-X-G motif; other site 515620007682 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 515620007683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 515620007684 active site 515620007685 phosphorylation site [posttranslational modification] 515620007686 intermolecular recognition site; other site 515620007687 dimerization interface [polypeptide binding]; other site 515620007688 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 515620007689 DNA binding site [nucleotide binding] 515620007690 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 515620007691 PLD-like domain; Region: PLDc_2; pfam13091 515620007692 putative active site [active] 515620007693 catalytic site [active] 515620007694 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 515620007695 PLD-like domain; Region: PLDc_2; pfam13091 515620007696 putative active site [active] 515620007697 catalytic site [active] 515620007698 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 515620007699 MarR family; Region: MarR_2; pfam12802 515620007700 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 515620007701 dimer interface [polypeptide binding]; other site 515620007702 Citrate synthase; Region: Citrate_synt; pfam00285 515620007703 active site 515620007704 citrylCoA binding site [chemical binding]; other site 515620007705 oxalacetate/citrate binding site [chemical binding]; other site 515620007706 coenzyme A binding site [chemical binding]; other site 515620007707 catalytic triad [active] 515620007708 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 515620007709 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 515620007710 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 515620007711 putative active site [active] 515620007712 catalytic site [active] 515620007713 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 515620007714 putative active site [active] 515620007715 catalytic site [active] 515620007716 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 515620007717 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 515620007718 synthetase active site [active] 515620007719 NTP binding site [chemical binding]; other site 515620007720 metal binding site [ion binding]; metal-binding site 515620007721 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 515620007722 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620007723 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 515620007724 non-specific DNA binding site [nucleotide binding]; other site 515620007725 salt bridge; other site 515620007726 sequence-specific DNA binding site [nucleotide binding]; other site 515620007727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 515620007728 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 515620007729 Walker A/P-loop; other site 515620007730 ATP binding site [chemical binding]; other site 515620007731 Q-loop/lid; other site 515620007732 ABC transporter signature motif; other site 515620007733 Walker B; other site 515620007734 D-loop; other site 515620007735 H-loop/switch region; other site 515620007736 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 515620007737 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 515620007738 catalytic residues [active] 515620007739 catalytic nucleophile [active] 515620007740 Recombinase; Region: Recombinase; pfam07508 515620007741 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 515620007742 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 515620007743 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 515620007744 Bacteriophage holin; Region: Phage_holin_1; cl02344 515620007745 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 515620007746 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 515620007747 putative active site [active] 515620007748 putative NTP binding site [chemical binding]; other site 515620007749 putative nucleic acid binding site [nucleotide binding]; other site 515620007750 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 515620007751 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 515620007752 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 515620007753 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 515620007754 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 515620007755 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 515620007756 Phage-related protein [Function unknown]; Region: COG5412 515620007757 Phage XkdN-like protein; Region: XkdN; pfam08890 515620007758 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 515620007759 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 515620007760 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 515620007761 Dfp1/Him1, central region; Region: Dfp1_Him1_M; pfam08630 515620007762 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 515620007763 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 515620007764 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 515620007765 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 515620007766 Terminase-like family; Region: Terminase_6; pfam03237 515620007767 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 515620007768 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 515620007769 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 515620007770 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 515620007771 ParB-like nuclease domain; Region: ParBc; pfam02195 515620007772 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 515620007773 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 515620007774 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 515620007775 N-acetyl-D-glucosamine binding site [chemical binding]; other site 515620007776 catalytic residue [active] 515620007777 Transcriptional regulator; Region: Rrf2; cl17282 515620007778 conjugal transfer protein TrbL; Provisional; Region: PRK13875 515620007779 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u2; cd11539 515620007780 metal binding site [ion binding]; metal-binding site 515620007781 HTH domain; Region: HTH_11; pfam08279 515620007782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620007783 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 515620007784 non-specific DNA binding site [nucleotide binding]; other site 515620007785 salt bridge; other site 515620007786 sequence-specific DNA binding site [nucleotide binding]; other site 515620007787 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620007788 recombinase A; Provisional; Region: recA; PRK09354 515620007789 Walker A motif; other site 515620007790 ATP binding site [chemical binding]; other site 515620007791 Walker B motif; other site 515620007792 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 515620007793 putative metal binding site [ion binding]; other site 515620007794 Stage III sporulation protein D; Region: SpoIIID; cl17560 515620007795 Recombination protein U; Region: RecU; cl01314 515620007796 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 515620007797 MT-A70; Region: MT-A70; cl01947 515620007798 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 515620007799 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 515620007800 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 515620007801 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 515620007802 non-specific DNA binding site [nucleotide binding]; other site 515620007803 salt bridge; other site 515620007804 sequence-specific DNA binding site [nucleotide binding]; other site 515620007805 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 515620007806 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 515620007807 active site 515620007808 catalytic site [active] 515620007809 substrate binding site [chemical binding]; other site 515620007810 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 515620007811 active site 515620007812 DNA binding site [nucleotide binding] 515620007813 catalytic site [active] 515620007814 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 515620007815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 515620007816 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 515620007817 DNA binding residues [nucleotide binding] 515620007818 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 515620007819 CHC2 zinc finger; Region: zf-CHC2; cl17510 515620007820 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 515620007821 active site 515620007822 metal binding site [ion binding]; metal-binding site 515620007823 interdomain interaction site; other site 515620007824 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620007825 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 515620007826 non-specific DNA binding site [nucleotide binding]; other site 515620007827 salt bridge; other site 515620007828 sequence-specific DNA binding site [nucleotide binding]; other site 515620007829 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 515620007830 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 515620007831 non-specific DNA binding site [nucleotide binding]; other site 515620007832 salt bridge; other site 515620007833 sequence-specific DNA binding site [nucleotide binding]; other site 515620007834 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 515620007835 non-specific DNA binding site [nucleotide binding]; other site 515620007836 salt bridge; other site 515620007837 sequence-specific DNA binding site [nucleotide binding]; other site 515620007838 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 515620007839 Helix-turn-helix domain; Region: HTH_17; pfam12728 515620007840 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 515620007841 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 515620007842 Walker A motif; other site 515620007843 ATP binding site [chemical binding]; other site 515620007844 Walker B motif; other site 515620007845 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 515620007846 Helix-turn-helix domain; Region: HTH_36; pfam13730 515620007847 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 515620007848 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 515620007849 DNA binding residues [nucleotide binding] 515620007850 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 515620007851 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 515620007852 ATP binding site [chemical binding]; other site 515620007853 putative Mg++ binding site [ion binding]; other site 515620007854 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 515620007855 nucleotide binding region [chemical binding]; other site 515620007856 ATP-binding site [chemical binding]; other site