-- dump date 20140619_102135 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398767000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 398767000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398767000003 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 398767000004 Walker A motif; other site 398767000005 ATP binding site [chemical binding]; other site 398767000006 Walker B motif; other site 398767000007 arginine finger; other site 398767000008 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 398767000009 DnaA box-binding interface [nucleotide binding]; other site 398767000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 398767000011 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 398767000012 putative DNA binding surface [nucleotide binding]; other site 398767000013 dimer interface [polypeptide binding]; other site 398767000014 beta-clamp/clamp loader binding surface; other site 398767000015 beta-clamp/translesion DNA polymerase binding surface; other site 398767000016 recombination protein F; Reviewed; Region: recF; PRK00064 398767000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767000018 Walker A/P-loop; other site 398767000019 ATP binding site [chemical binding]; other site 398767000020 Q-loop/lid; other site 398767000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767000022 ABC transporter signature motif; other site 398767000023 Walker B; other site 398767000024 D-loop; other site 398767000025 H-loop/switch region; other site 398767000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 398767000027 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 398767000028 Mg2+ binding site [ion binding]; other site 398767000029 G-X-G motif; other site 398767000030 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 398767000031 anchoring element; other site 398767000032 dimer interface [polypeptide binding]; other site 398767000033 ATP binding site [chemical binding]; other site 398767000034 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 398767000035 active site 398767000036 putative metal-binding site [ion binding]; other site 398767000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398767000038 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 398767000039 Transposase domain (DUF772); Region: DUF772; pfam05598 398767000040 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767000041 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767000042 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767000043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398767000044 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398767000045 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398767000046 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 398767000047 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 398767000048 nucleotide binding site [chemical binding]; other site 398767000049 SulA interaction site; other site 398767000050 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 398767000051 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 398767000052 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 398767000053 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 398767000054 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 398767000055 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767000056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767000057 Integrase core domain; Region: rve; pfam00665 398767000058 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767000059 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 398767000060 Walker A motif; other site 398767000061 ATP binding site [chemical binding]; other site 398767000062 Walker B motif; other site 398767000063 putative transposase OrfB; Reviewed; Region: PHA02517 398767000064 HTH-like domain; Region: HTH_21; pfam13276 398767000065 Integrase core domain; Region: rve; pfam00665 398767000066 Integrase core domain; Region: rve_3; pfam13683 398767000067 Transposase; Region: HTH_Tnp_1; pfam01527 398767000068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398767000069 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 398767000070 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 398767000071 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398767000072 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 398767000073 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 398767000074 WYL domain; Region: WYL; pfam13280 398767000075 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 398767000076 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 398767000077 Walker A motif; other site 398767000078 ATP binding site [chemical binding]; other site 398767000079 Walker B motif; other site 398767000080 DNA binding loops [nucleotide binding] 398767000081 DNA gyrase subunit A; Validated; Region: PRK05560 398767000082 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 398767000083 CAP-like domain; other site 398767000084 active site 398767000085 primary dimer interface [polypeptide binding]; other site 398767000086 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398767000087 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398767000088 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398767000089 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398767000090 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398767000091 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398767000092 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398767000093 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398767000094 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398767000095 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767000096 ligand binding site [chemical binding]; other site 398767000097 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398767000098 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398767000099 Flagellar protein (FlbD); Region: FlbD; pfam06289 398767000100 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 398767000101 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398767000102 DRTGG domain; Region: DRTGG; pfam07085 398767000103 PilZ domain; Region: PilZ; cl01260 398767000104 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398767000105 thiS-thiF/thiG interaction site; other site 398767000106 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 398767000107 ThiS interaction site; other site 398767000108 putative active site [active] 398767000109 tetramer interface [polypeptide binding]; other site 398767000110 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 398767000111 thiamine phosphate binding site [chemical binding]; other site 398767000112 active site 398767000113 pyrophosphate binding site [ion binding]; other site 398767000114 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 398767000115 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 398767000116 FeS/SAM binding site; other site 398767000117 Prophage antirepressor [Transcription]; Region: COG3617 398767000118 BRO family, N-terminal domain; Region: Bro-N; smart01040 398767000119 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 398767000120 Uncharacterized conserved protein [Function unknown]; Region: COG2006 398767000121 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767000122 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767000123 N-terminal plug; other site 398767000124 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 398767000125 ligand-binding site [chemical binding]; other site 398767000126 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767000127 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 398767000128 substrate binding pocket [chemical binding]; other site 398767000129 membrane-bound complex binding site; other site 398767000130 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 398767000131 dimerization interface [polypeptide binding]; other site 398767000132 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767000133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767000134 metal binding site [ion binding]; metal-binding site 398767000135 active site 398767000136 I-site; other site 398767000137 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 398767000138 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 398767000139 putative active site [active] 398767000140 dimerization interface [polypeptide binding]; other site 398767000141 putative tRNAtyr binding site [nucleotide binding]; other site 398767000142 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 398767000143 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 398767000144 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 398767000145 generic binding surface II; other site 398767000146 generic binding surface I; other site 398767000147 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 398767000148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767000149 Zn2+ binding site [ion binding]; other site 398767000150 Mg2+ binding site [ion binding]; other site 398767000151 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767000152 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 398767000153 active site 398767000154 phosphorylation site [posttranslational modification] 398767000155 intermolecular recognition site; other site 398767000156 dimerization interface [polypeptide binding]; other site 398767000157 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 398767000158 DNA binding site [nucleotide binding] 398767000159 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 398767000160 dimerization interface [polypeptide binding]; other site 398767000161 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 398767000162 dimer interface [polypeptide binding]; other site 398767000163 phosphorylation site [posttranslational modification] 398767000164 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 398767000165 ATP binding site [chemical binding]; other site 398767000166 Mg2+ binding site [ion binding]; other site 398767000167 G-X-G motif; other site 398767000168 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 398767000169 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398767000170 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767000171 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 398767000172 TPR motif; other site 398767000173 binding surface 398767000174 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767000175 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767000176 Tetratricopeptide repeat; Region: TPR_10; pfam13374 398767000177 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767000178 CHAT domain; Region: CHAT; pfam12770 398767000179 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767000180 D-galactonate transporter; Region: 2A0114; TIGR00893 398767000181 putative substrate translocation pore; other site 398767000182 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767000183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767000184 Zn2+ binding site [ion binding]; other site 398767000185 Mg2+ binding site [ion binding]; other site 398767000186 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 398767000187 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 398767000188 HicB family; Region: HicB; pfam05534 398767000189 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 398767000190 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 398767000191 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 398767000192 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398767000193 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398767000194 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 398767000195 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 398767000196 inhibitor-cofactor binding pocket; inhibition site 398767000197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767000198 catalytic residue [active] 398767000199 TIR domain; Region: TIR_2; pfam13676 398767000200 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 398767000201 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 398767000202 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 398767000203 putative active site [active] 398767000204 H+ Antiporter protein; Region: 2A0121; TIGR00900 398767000205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767000206 putative substrate translocation pore; other site 398767000207 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 398767000208 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 398767000209 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 398767000210 dimer interface [polypeptide binding]; other site 398767000211 phosphorylation site [posttranslational modification] 398767000212 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 398767000213 ATP binding site [chemical binding]; other site 398767000214 Mg2+ binding site [ion binding]; other site 398767000215 G-X-G motif; other site 398767000216 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 398767000217 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 398767000218 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398767000219 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 398767000220 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 398767000221 PEGA domain; Region: PEGA; pfam08308 398767000222 GTPase RsgA; Reviewed; Region: PRK01889 398767000223 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 398767000224 RNA binding site [nucleotide binding]; other site 398767000225 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398767000226 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398767000227 GTP/Mg2+ binding site [chemical binding]; other site 398767000228 G4 box; other site 398767000229 G5 box; other site 398767000230 G1 box; other site 398767000231 Switch I region; other site 398767000232 G2 box; other site 398767000233 G3 box; other site 398767000234 Switch II region; other site 398767000235 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398767000236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767000237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398767000238 Coenzyme A binding pocket [chemical binding]; other site 398767000239 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 398767000240 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767000241 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 398767000242 S-adenosylmethionine binding site [chemical binding]; other site 398767000243 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398767000244 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 398767000245 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 398767000246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 398767000247 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 398767000248 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 398767000249 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 398767000250 Fic family protein [Function unknown]; Region: COG3177 398767000251 Fic/DOC family; Region: Fic; pfam02661 398767000252 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398767000253 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767000254 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767000255 putative substrate translocation pore; other site 398767000256 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 398767000257 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398767000258 active site 398767000259 catalytic tetrad [active] 398767000260 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398767000261 Beta-lactamase; Region: Beta-lactamase; pfam00144 398767000262 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 398767000263 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 398767000264 non-specific DNA binding site [nucleotide binding]; other site 398767000265 salt bridge; other site 398767000266 sequence-specific DNA binding site [nucleotide binding]; other site 398767000267 Pirin-related protein [General function prediction only]; Region: COG1741 398767000268 Pirin; Region: Pirin; pfam02678 398767000269 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398767000270 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 398767000271 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398767000272 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398767000273 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 398767000274 Ferritin-like domain; Region: Ferritin; pfam00210 398767000275 diiron binding motif [ion binding]; other site 398767000276 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 398767000277 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767000278 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398767000279 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398767000280 FMN binding site [chemical binding]; other site 398767000281 active site 398767000282 substrate binding site [chemical binding]; other site 398767000283 catalytic residue [active] 398767000284 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767000285 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767000286 putative active site [active] 398767000287 heme pocket [chemical binding]; other site 398767000288 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767000289 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767000290 putative active site [active] 398767000291 heme pocket [chemical binding]; other site 398767000292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767000293 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 398767000294 dimer interface [polypeptide binding]; other site 398767000295 phosphorylation site [posttranslational modification] 398767000296 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 398767000297 ATP binding site [chemical binding]; other site 398767000298 Mg2+ binding site [ion binding]; other site 398767000299 G-X-G motif; other site 398767000300 Response regulator receiver domain; Region: Response_reg; pfam00072 398767000301 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 398767000302 active site 398767000303 phosphorylation site [posttranslational modification] 398767000304 intermolecular recognition site; other site 398767000305 dimerization interface [polypeptide binding]; other site 398767000306 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 398767000307 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 398767000308 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 398767000309 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398767000310 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 398767000311 S-adenosylmethionine binding site [chemical binding]; other site 398767000312 Restriction endonuclease; Region: Mrr_cat; pfam04471 398767000313 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767000314 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398767000315 SnoaL-like domain; Region: SnoaL_2; pfam12680 398767000316 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 398767000317 Cupin domain; Region: Cupin_2; cl17218 398767000318 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 398767000319 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 398767000320 putative FMN binding site [chemical binding]; other site 398767000321 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398767000322 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767000323 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767000324 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398767000325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767000326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767000327 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 398767000328 LrgA family; Region: LrgA; pfam03788 398767000329 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398767000330 CoenzymeA binding site [chemical binding]; other site 398767000331 subunit interaction site [polypeptide binding]; other site 398767000332 PHB binding site; other site 398767000333 Predicted permease; Region: DUF318; cl17795 398767000334 Predicted permease; Region: DUF318; cl17795 398767000335 Predicted transcriptional regulators [Transcription]; Region: COG1695 398767000336 Transcriptional regulator PadR-like family; Region: PadR; cl17335 398767000337 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 398767000338 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767000339 PAS fold; Region: PAS_3; pfam08447 398767000340 putative active site [active] 398767000341 heme pocket [chemical binding]; other site 398767000342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767000343 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 398767000344 phosphorylation site [posttranslational modification] 398767000345 dimer interface [polypeptide binding]; other site 398767000346 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 398767000347 ATP binding site [chemical binding]; other site 398767000348 Mg2+ binding site [ion binding]; other site 398767000349 G-X-G motif; other site 398767000350 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 398767000351 Response regulator receiver domain; Region: Response_reg; pfam00072 398767000352 active site 398767000353 phosphorylation site [posttranslational modification] 398767000354 intermolecular recognition site; other site 398767000355 dimerization interface [polypeptide binding]; other site 398767000356 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398767000357 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398767000358 DNA binding residues [nucleotide binding] 398767000359 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398767000360 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 398767000361 dimer interface [polypeptide binding]; other site 398767000362 phosphorylation site [posttranslational modification] 398767000363 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 398767000364 ATP binding site [chemical binding]; other site 398767000365 Mg2+ binding site [ion binding]; other site 398767000366 G-X-G motif; other site 398767000367 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767000368 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 398767000369 active site 398767000370 phosphorylation site [posttranslational modification] 398767000371 intermolecular recognition site; other site 398767000372 dimerization interface [polypeptide binding]; other site 398767000373 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 398767000374 Walker A motif; other site 398767000375 ATP binding site [chemical binding]; other site 398767000376 Walker B motif; other site 398767000377 arginine finger; other site 398767000378 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767000379 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 398767000380 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398767000381 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 398767000382 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 398767000383 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 398767000384 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398767000385 hydrogenase 2 large subunit; Provisional; Region: PRK10467 398767000386 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 398767000387 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 398767000388 putative substrate-binding site; other site 398767000389 nickel binding site [ion binding]; other site 398767000390 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 398767000391 dimerization interface [polypeptide binding]; other site 398767000392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767000393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767000394 dimer interface [polypeptide binding]; other site 398767000395 putative CheW interface [polypeptide binding]; other site 398767000396 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 398767000397 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398767000398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767000399 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398767000400 dimerization interface [polypeptide binding]; other site 398767000401 substrate binding pocket [chemical binding]; other site 398767000402 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767000403 putative substrate translocation pore; other site 398767000404 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767000405 Transposase domain (DUF772); Region: DUF772; pfam05598 398767000406 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767000407 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767000408 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767000409 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 398767000410 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 398767000411 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398767000412 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398767000413 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 398767000414 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398767000415 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398767000416 nucleotide binding site [chemical binding]; other site 398767000417 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398767000418 aminodeoxychorismate synthase; Provisional; Region: PRK07508 398767000419 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398767000420 hypothetical protein; Provisional; Region: PRK07546 398767000421 substrate-cofactor binding pocket; other site 398767000422 homodimer interface [polypeptide binding]; other site 398767000423 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398767000424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767000425 catalytic residue [active] 398767000426 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 398767000427 putative active site [active] 398767000428 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398767000429 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767000430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767000431 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767000432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767000433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767000434 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 398767000435 non-specific DNA binding site [nucleotide binding]; other site 398767000436 salt bridge; other site 398767000437 sequence-specific DNA binding site [nucleotide binding]; other site 398767000438 FRG domain; Region: FRG; pfam08867 398767000439 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 398767000440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398767000441 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 398767000442 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 398767000443 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 398767000444 RNA binding surface [nucleotide binding]; other site 398767000445 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398767000446 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398767000447 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398767000448 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 398767000449 sequence-specific DNA binding site [nucleotide binding]; other site 398767000450 salt bridge; other site 398767000451 hypothetical protein; Provisional; Region: PRK11019 398767000452 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398767000453 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 398767000454 putative active site [active] 398767000455 metal binding site [ion binding]; metal-binding site 398767000456 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398767000457 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398767000458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398767000459 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 398767000460 non-specific DNA binding site [nucleotide binding]; other site 398767000461 salt bridge; other site 398767000462 sequence-specific DNA binding site [nucleotide binding]; other site 398767000463 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 398767000464 non-specific DNA binding site [nucleotide binding]; other site 398767000465 salt bridge; other site 398767000466 sequence-specific DNA binding site [nucleotide binding]; other site 398767000467 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767000468 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 398767000469 non-specific DNA binding site [nucleotide binding]; other site 398767000470 salt bridge; other site 398767000471 sequence-specific DNA binding site [nucleotide binding]; other site 398767000472 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398767000473 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 398767000474 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767000475 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 398767000476 DNA binding residues [nucleotide binding] 398767000477 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398767000478 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398767000479 putative dimer interface [polypeptide binding]; other site 398767000480 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398767000481 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398767000482 putative dimer interface [polypeptide binding]; other site 398767000483 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398767000484 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398767000485 putative dimer interface [polypeptide binding]; other site 398767000486 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 398767000487 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 398767000488 HSP70 interaction site [polypeptide binding]; other site 398767000489 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398767000490 substrate binding site [polypeptide binding]; other site 398767000491 dimer interface [polypeptide binding]; other site 398767000492 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 398767000493 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 398767000494 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398767000495 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 398767000496 protein binding site [polypeptide binding]; other site 398767000497 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 398767000498 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 398767000499 catalytic residues [active] 398767000500 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 398767000501 non-specific DNA binding site [nucleotide binding]; other site 398767000502 salt bridge; other site 398767000503 sequence-specific DNA binding site [nucleotide binding]; other site 398767000504 Fic family protein [Function unknown]; Region: COG3177 398767000505 Fic/DOC family; Region: Fic; pfam02661 398767000506 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 398767000507 non-specific DNA binding site [nucleotide binding]; other site 398767000508 salt bridge; other site 398767000509 sequence-specific DNA binding site [nucleotide binding]; other site 398767000510 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 398767000511 non-specific DNA binding site [nucleotide binding]; other site 398767000512 salt bridge; other site 398767000513 sequence-specific DNA binding site [nucleotide binding]; other site 398767000514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767000515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767000516 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398767000517 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 398767000518 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 398767000519 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 398767000520 Hemerythrin-like domain; Region: Hr-like; cd12108 398767000521 Copper resistance protein D; Region: CopD; cl00563 398767000522 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 398767000523 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398767000524 Cytochrome c; Region: Cytochrom_C; pfam00034 398767000525 Cytochrome c; Region: Cytochrom_C; pfam00034 398767000526 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 398767000527 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 398767000528 [4Fe-4S] binding site [ion binding]; other site 398767000529 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767000530 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767000531 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767000532 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767000533 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 398767000534 molybdopterin cofactor binding site; other site 398767000535 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 398767000536 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767000537 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398767000538 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 398767000539 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 398767000540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767000541 putative substrate translocation pore; other site 398767000542 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 398767000543 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767000544 heme-binding residues [chemical binding]; other site 398767000545 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398767000546 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398767000547 dimer interface [polypeptide binding]; other site 398767000548 putative functional site; other site 398767000549 putative MPT binding site; other site 398767000550 Cytochrome c552; Region: Cytochrom_C552; pfam02335 398767000551 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398767000552 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398767000553 catalytic triad [active] 398767000554 hybrid cluster protein; Provisional; Region: PRK05290 398767000555 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 398767000556 ACS interaction site; other site 398767000557 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 398767000558 hybrid metal cluster; other site 398767000559 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767000560 PAS domain; Region: PAS_9; pfam13426 398767000561 putative active site [active] 398767000562 heme pocket [chemical binding]; other site 398767000563 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398767000564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398767000565 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767000566 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767000567 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767000568 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398767000569 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 398767000570 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 398767000571 Hemerythrin-like domain; Region: Hr-like; cd12108 398767000572 Fe binding site [ion binding]; other site 398767000573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767000574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767000575 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398767000576 HlyD family secretion protein; Region: HlyD_2; pfam12700 398767000577 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398767000578 E3 interaction surface; other site 398767000579 lipoyl attachment site [posttranslational modification]; other site 398767000580 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767000581 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 398767000582 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767000583 Uncharacterized conserved protein [Function unknown]; Region: COG1262 398767000584 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398767000585 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767000586 FtsX-like permease family; Region: FtsX; pfam02687 398767000587 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767000588 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767000589 Walker A/P-loop; other site 398767000590 ATP binding site [chemical binding]; other site 398767000591 Q-loop/lid; other site 398767000592 ABC transporter signature motif; other site 398767000593 Walker B; other site 398767000594 D-loop; other site 398767000595 H-loop/switch region; other site 398767000596 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 398767000597 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 398767000598 active site 398767000599 substrate binding site [chemical binding]; other site 398767000600 Mg2+ binding site [ion binding]; other site 398767000601 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 398767000602 OB-fold nucleic acid binding domain; Region: tRNA_anti_2; pfam13742 398767000603 generic binding surface II; other site 398767000604 generic binding surface I; other site 398767000605 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 398767000606 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 398767000607 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 398767000608 IHF dimer interface [polypeptide binding]; other site 398767000609 IHF - DNA interface [nucleotide binding]; other site 398767000610 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 398767000611 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398767000612 active site 398767000613 catalytic site [active] 398767000614 substrate binding site [chemical binding]; other site 398767000615 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 398767000616 putative FMN binding site [chemical binding]; other site 398767000617 NADPH bind site [chemical binding]; other site 398767000618 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 398767000619 AAA domain; Region: AAA_30; pfam13604 398767000620 Family description; Region: UvrD_C_2; pfam13538 398767000621 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398767000622 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767000623 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767000624 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 398767000625 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398767000626 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 398767000627 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767000628 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 398767000629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767000630 catalytic residue [active] 398767000631 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398767000632 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767000633 Zn2+ binding site [ion binding]; other site 398767000634 Mg2+ binding site [ion binding]; other site 398767000635 F plasmid transfer operon protein; Region: TraF; pfam13728 398767000636 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 398767000637 catalytic residues [active] 398767000638 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 398767000639 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398767000640 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 398767000641 dimer interface [polypeptide binding]; other site 398767000642 ssDNA binding site [nucleotide binding]; other site 398767000643 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398767000644 TSCPD domain; Region: TSCPD; pfam12637 398767000645 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 398767000646 Walker A motif; other site 398767000647 ATP binding site [chemical binding]; other site 398767000648 Walker B motif; other site 398767000649 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 398767000650 WGR domain; Region: WGR; cl01581 398767000651 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 398767000652 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 398767000653 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398767000654 metal ion-dependent adhesion site (MIDAS); other site 398767000655 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767000656 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 398767000657 CHC2 zinc finger; Region: zf-CHC2; cl17510 398767000658 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398767000659 MPN+ (JAMM) motif; other site 398767000660 Zinc-binding site [ion binding]; other site 398767000661 Fic family protein [Function unknown]; Region: COG3177 398767000662 Fic/DOC family; Region: Fic; pfam02661 398767000663 TIR domain; Region: TIR_2; pfam13676 398767000664 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 398767000665 TIR domain; Region: TIR_2; pfam13676 398767000666 Predicted transcriptional regulator [Transcription]; Region: COG2378 398767000667 WYL domain; Region: WYL; pfam13280 398767000668 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 398767000669 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 398767000670 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 398767000671 metal binding triad [ion binding]; metal-binding site 398767000672 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398767000673 HD domain; Region: HD; pfam01966 398767000674 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398767000675 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 398767000676 active site 398767000677 DNA binding site [nucleotide binding] 398767000678 Int/Topo IB signature motif; other site 398767000679 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 398767000680 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398767000681 active site 398767000682 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 398767000683 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 398767000684 ATP binding site [chemical binding]; other site 398767000685 Mg2+ binding site [ion binding]; other site 398767000686 G-X-G motif; other site 398767000687 DNA binding domains of BfiI, EcoRII and plant B3 proteins; Region: BfiI_C_EcoRII_N_B3; cl15242 398767000688 DNA binding site [nucleotide binding] 398767000689 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 398767000690 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 398767000691 ATP binding site [chemical binding]; other site 398767000692 putative Mg++ binding site [ion binding]; other site 398767000693 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 398767000694 nucleotide binding region [chemical binding]; other site 398767000695 ATP-binding site [chemical binding]; other site 398767000696 EcoRII C terminal; Region: EcoRII-C; pfam09019 398767000697 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 398767000698 additional DNA contacts [nucleotide binding]; other site 398767000699 mismatch recognition site; other site 398767000700 active site 398767000701 zinc binding site [ion binding]; other site 398767000702 DNA intercalation site [nucleotide binding]; other site 398767000703 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 398767000704 non-specific DNA binding site [nucleotide binding]; other site 398767000705 salt bridge; other site 398767000706 DNA cytosine methylase; Provisional; Region: PRK10458 398767000707 sequence-specific DNA binding site [nucleotide binding]; other site 398767000708 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 398767000709 cofactor binding site; other site 398767000710 DNA binding site [nucleotide binding] 398767000711 substrate interaction site [chemical binding]; other site 398767000712 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 398767000713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767000714 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 398767000715 ATP binding site [chemical binding]; other site 398767000716 Mg2+ binding site [ion binding]; other site 398767000717 G-X-G motif; other site 398767000718 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 398767000719 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 398767000720 cofactor binding site; other site 398767000721 DNA binding site [nucleotide binding] 398767000722 substrate interaction site [chemical binding]; other site 398767000723 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 398767000724 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 398767000725 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 398767000726 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 398767000727 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 398767000728 TraU protein; Region: TraU; pfam06834 398767000729 Myelin proteolipid protein (PLP or lipophilin); Region: Myelin_PLP; cl02417 398767000730 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 398767000731 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 398767000732 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 398767000733 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 398767000734 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 398767000735 Walker A motif; other site 398767000736 ATP binding site [chemical binding]; other site 398767000737 Walker B motif; other site 398767000738 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 398767000739 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 398767000740 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 398767000741 TraK protein; Region: TraK; pfam06586 398767000742 TraE protein; Region: TraE; cl05060 398767000743 TraL protein; Region: TraL; cl06278 398767000744 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 398767000745 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 398767000746 dimerization domain [polypeptide binding]; other site 398767000747 dimer interface [polypeptide binding]; other site 398767000748 catalytic residues [active] 398767000749 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398767000750 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767000751 ligand binding site [chemical binding]; other site 398767000752 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398767000753 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398767000754 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767000755 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 398767000756 non-specific DNA binding site [nucleotide binding]; other site 398767000757 salt bridge; other site 398767000758 sequence-specific DNA binding site [nucleotide binding]; other site 398767000759 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398767000760 nucleotide binding site [chemical binding]; other site 398767000761 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398767000762 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 398767000763 DNA binding residues [nucleotide binding] 398767000764 Replication initiator protein A; Region: RPA; cl17860 398767000765 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 398767000766 Predicted transcriptional regulator [Transcription]; Region: COG2932 398767000767 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 398767000768 Catalytic site [active] 398767000769 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398767000770 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 398767000771 catalytic residues [active] 398767000772 catalytic nucleophile [active] 398767000773 Recombinase; Region: Recombinase; pfam07508 398767000774 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 398767000775 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398767000776 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398767000777 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 398767000778 Walker A motif; other site 398767000779 ATP binding site [chemical binding]; other site 398767000780 Walker B motif; other site 398767000781 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398767000782 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 398767000783 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398767000784 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398767000785 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398767000786 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 398767000787 active site 398767000788 DNA binding site [nucleotide binding] 398767000789 Int/Topo IB signature motif; other site 398767000790 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767000791 Winged helix-turn helix; Region: HTH_29; pfam13551 398767000792 Integrase core domain; Region: rve; pfam00665 398767000793 DDE domain; Region: DDE_Tnp_IS240; pfam13610 398767000794 Integrase core domain; Region: rve_3; pfam13683 398767000795 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398767000796 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 398767000797 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398767000798 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398767000799 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398767000800 dimerization interface 3.5A [polypeptide binding]; other site 398767000801 active site 398767000802 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 398767000803 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398767000804 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 398767000805 tartrate dehydrogenase; Region: TTC; TIGR02089 398767000806 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398767000807 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398767000808 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398767000809 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398767000810 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 398767000811 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 398767000812 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 398767000813 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 398767000814 active site residue [active] 398767000815 AAA domain; Region: AAA_25; pfam13481 398767000816 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 398767000817 ATP binding site [chemical binding]; other site 398767000818 Walker A motif; other site 398767000819 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 398767000820 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 398767000821 homotetramer interface [polypeptide binding]; other site 398767000822 ligand binding site [chemical binding]; other site 398767000823 catalytic site [active] 398767000824 NAD binding site [chemical binding]; other site 398767000825 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 398767000826 dimerization interface [polypeptide binding]; other site 398767000827 putative DNA binding site [nucleotide binding]; other site 398767000828 putative Zn2+ binding site [ion binding]; other site 398767000829 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767000830 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 398767000831 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398767000832 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 398767000833 FMN binding site [chemical binding]; other site 398767000834 substrate binding site [chemical binding]; other site 398767000835 putative catalytic residue [active] 398767000836 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 398767000837 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 398767000838 homodimer interface [polypeptide binding]; other site 398767000839 substrate-cofactor binding pocket; other site 398767000840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767000841 catalytic residue [active] 398767000842 Protein of unknown function (DUF422); Region: DUF422; cl00991 398767000843 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 398767000844 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 398767000845 Site-specific recombinase; Region: SpecificRecomb; pfam10136 398767000846 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398767000847 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398767000848 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 398767000849 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 398767000850 Walker A motif; other site 398767000851 ATP binding site [chemical binding]; other site 398767000852 Walker B motif; other site 398767000853 arginine finger; other site 398767000854 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398767000855 hypothetical protein; Validated; Region: PRK00153 398767000856 recombination protein RecR; Reviewed; Region: recR; PRK00076 398767000857 RecR protein; Region: RecR; pfam02132 398767000858 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 398767000859 putative active site [active] 398767000860 putative metal-binding site [ion binding]; other site 398767000861 tetramer interface [polypeptide binding]; other site 398767000862 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 398767000863 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 398767000864 dimer interface [polypeptide binding]; other site 398767000865 PYR/PP interface [polypeptide binding]; other site 398767000866 TPP binding site [chemical binding]; other site 398767000867 substrate binding site [chemical binding]; other site 398767000868 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398767000869 Domain of unknown function; Region: EKR; pfam10371 398767000870 4Fe-4S binding domain; Region: Fer4_6; pfam12837 398767000871 4Fe-4S binding domain; Region: Fer4; pfam00037 398767000872 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 398767000873 TPP-binding site [chemical binding]; other site 398767000874 dimer interface [polypeptide binding]; other site 398767000875 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 398767000876 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 398767000877 dimerization interface [polypeptide binding]; other site 398767000878 domain crossover interface; other site 398767000879 redox-dependent activation switch; other site 398767000880 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398767000881 Peptidase family U32; Region: Peptidase_U32; pfam01136 398767000882 Collagenase; Region: DUF3656; pfam12392 398767000883 Peptidase family U32; Region: Peptidase_U32; cl03113 398767000884 Staphylococcal nuclease homologues; Region: SNc; smart00318 398767000885 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 398767000886 Catalytic site; other site 398767000887 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767000888 Response regulator receiver domain; Region: Response_reg; pfam00072 398767000889 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 398767000890 active site 398767000891 phosphorylation site [posttranslational modification] 398767000892 intermolecular recognition site; other site 398767000893 dimerization interface [polypeptide binding]; other site 398767000894 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 398767000895 active site 398767000896 intersubunit interactions; other site 398767000897 catalytic residue [active] 398767000898 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 398767000899 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 398767000900 catalytic center binding site [active] 398767000901 ATP binding site [chemical binding]; other site 398767000902 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398767000903 endonuclease III; Region: ENDO3c; smart00478 398767000904 minor groove reading motif; other site 398767000905 helix-hairpin-helix signature motif; other site 398767000906 substrate binding pocket [chemical binding]; other site 398767000907 active site 398767000908 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 398767000909 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767000910 putative NAD(P) binding site [chemical binding]; other site 398767000911 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 398767000912 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398767000913 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 398767000914 putative NAD(P) binding site [chemical binding]; other site 398767000915 active site 398767000916 Predicted membrane protein [Function unknown]; Region: COG1238 398767000917 Predicted transcriptional regulator [Transcription]; Region: COG2378 398767000918 HTH domain; Region: HTH_11; pfam08279 398767000919 WYL domain; Region: WYL; pfam13280 398767000920 Uncharacterized conserved protein [Function unknown]; Region: COG1565 398767000921 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 398767000922 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398767000923 active site 398767000924 motif I; other site 398767000925 motif II; other site 398767000926 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 398767000927 dimerization interface [polypeptide binding]; other site 398767000928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767000929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767000930 dimer interface [polypeptide binding]; other site 398767000931 putative CheW interface [polypeptide binding]; other site 398767000932 Hemerythrin; Region: Hemerythrin; cd12107 398767000933 Fe binding site [ion binding]; other site 398767000934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767000935 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 398767000936 dimer interface [polypeptide binding]; other site 398767000937 phosphorylation site [posttranslational modification] 398767000938 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 398767000939 ATP binding site [chemical binding]; other site 398767000940 Mg2+ binding site [ion binding]; other site 398767000941 G-X-G motif; other site 398767000942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767000943 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 398767000944 active site 398767000945 phosphorylation site [posttranslational modification] 398767000946 intermolecular recognition site; other site 398767000947 dimerization interface [polypeptide binding]; other site 398767000948 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 398767000949 glycogen synthase; Provisional; Region: glgA; PRK00654 398767000950 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 398767000951 ADP-binding pocket [chemical binding]; other site 398767000952 homodimer interface [polypeptide binding]; other site 398767000953 Transglycosylase; Region: Transgly; pfam00912 398767000954 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398767000955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398767000956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767000957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767000958 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 398767000959 macrolide transporter subunit MacA; Provisional; Region: PRK11578 398767000960 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767000961 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767000962 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 398767000963 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767000964 Walker A/P-loop; other site 398767000965 ATP binding site [chemical binding]; other site 398767000966 Q-loop/lid; other site 398767000967 ABC transporter signature motif; other site 398767000968 Walker B; other site 398767000969 D-loop; other site 398767000970 H-loop/switch region; other site 398767000971 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767000972 FtsX-like permease family; Region: FtsX; pfam02687 398767000973 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398767000974 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 398767000975 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 398767000976 prenyltransferase; Reviewed; Region: ubiA; PRK12886 398767000977 UbiA prenyltransferase family; Region: UbiA; pfam01040 398767000978 aromatic acid decarboxylase; Validated; Region: PRK05920 398767000979 Flavoprotein; Region: Flavoprotein; pfam02441 398767000980 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 398767000981 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767000982 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398767000983 DNA repair protein RadA; Provisional; Region: PRK11823 398767000984 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 398767000985 Walker A motif/ATP binding site; other site 398767000986 ATP binding site [chemical binding]; other site 398767000987 Walker B motif; other site 398767000988 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398767000989 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 398767000990 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767000991 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767000992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767000993 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 398767000994 dimer interface [polypeptide binding]; other site 398767000995 phosphorylation site [posttranslational modification] 398767000996 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 398767000997 ATP binding site [chemical binding]; other site 398767000998 Mg2+ binding site [ion binding]; other site 398767000999 G-X-G motif; other site 398767001000 PilZ domain; Region: PilZ; pfam07238 398767001001 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398767001002 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398767001003 active site 398767001004 HIGH motif; other site 398767001005 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398767001006 KMSKS motif; other site 398767001007 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 398767001008 tRNA binding surface [nucleotide binding]; other site 398767001009 anticodon binding site; other site 398767001010 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767001011 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767001012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767001013 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 398767001014 dimer interface [polypeptide binding]; other site 398767001015 phosphorylation site [posttranslational modification] 398767001016 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 398767001017 ATP binding site [chemical binding]; other site 398767001018 Mg2+ binding site [ion binding]; other site 398767001019 G-X-G motif; other site 398767001020 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001021 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 398767001022 active site 398767001023 phosphorylation site [posttranslational modification] 398767001024 intermolecular recognition site; other site 398767001025 dimerization interface [polypeptide binding]; other site 398767001026 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 398767001027 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 398767001028 active site 398767001029 Substrate binding site; other site 398767001030 Mg++ binding site; other site 398767001031 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 398767001032 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398767001033 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 398767001034 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 398767001035 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 398767001036 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 398767001037 putative active site [active] 398767001038 catalytic site [active] 398767001039 ADP-glucose phosphorylase; Region: PLN02643 398767001040 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 398767001041 dimer interface [polypeptide binding]; other site 398767001042 active site 398767001043 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 398767001044 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 398767001045 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 398767001046 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767001047 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 398767001048 DivIVA protein; Region: DivIVA; pfam05103 398767001049 DivIVA domain; Region: DivI1A_domain; TIGR03544 398767001050 V-type ATP synthase subunit E; Provisional; Region: PRK01558 398767001051 YGGT family; Region: YGGT; pfam02325 398767001052 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398767001053 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 398767001054 active site 398767001055 dimerization interface [polypeptide binding]; other site 398767001056 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398767001057 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 398767001058 dimer interface [polypeptide binding]; other site 398767001059 active site 398767001060 CoA binding pocket [chemical binding]; other site 398767001061 ANTAR domain; Region: ANTAR; pfam03861 398767001062 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 398767001063 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 398767001064 ADP-ribose binding site [chemical binding]; other site 398767001065 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 398767001066 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767001067 FeS/SAM binding site; other site 398767001068 putative acetyltransferase; Provisional; Region: PRK03624 398767001069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767001070 Coenzyme A binding pocket [chemical binding]; other site 398767001071 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 398767001072 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 398767001073 active site 398767001074 catalytic residues [active] 398767001075 metal binding site [ion binding]; metal-binding site 398767001076 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 398767001077 ArsC family; Region: ArsC; pfam03960 398767001078 putative catalytic residues [active] 398767001079 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767001080 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398767001081 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398767001082 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398767001083 PhnA protein; Region: PhnA; pfam03831 398767001084 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398767001085 ATP-grasp domain; Region: ATP-grasp; pfam02222 398767001086 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398767001087 Peptidase family M23; Region: Peptidase_M23; pfam01551 398767001088 Predicted ATPase [General function prediction only]; Region: COG3910 398767001089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 398767001090 Walker A/P-loop; other site 398767001091 ATP binding site [chemical binding]; other site 398767001092 Q-loop/lid; other site 398767001093 ABC transporter signature motif; other site 398767001094 Walker B; other site 398767001095 D-loop; other site 398767001096 H-loop/switch region; other site 398767001097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398767001098 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398767001099 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398767001100 Transposase domain (DUF772); Region: DUF772; pfam05598 398767001101 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767001102 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767001103 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767001104 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 398767001105 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 398767001106 Ca2+ binding site [ion binding]; other site 398767001107 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 398767001108 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398767001109 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 398767001110 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 398767001111 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 398767001112 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 398767001113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767001114 Walker A/P-loop; other site 398767001115 ATP binding site [chemical binding]; other site 398767001116 Q-loop/lid; other site 398767001117 ABC transporter signature motif; other site 398767001118 Walker B; other site 398767001119 D-loop; other site 398767001120 H-loop/switch region; other site 398767001121 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 398767001122 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 398767001123 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 398767001124 molybdenum-pterin binding domain; Region: Mop; TIGR00638 398767001125 molybdenum transport protein ModD; Provisional; Region: PRK06096 398767001126 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 398767001127 dimerization interface [polypeptide binding]; other site 398767001128 active site 398767001129 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398767001130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398767001131 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398767001132 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398767001133 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398767001134 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 398767001135 dimer interface [polypeptide binding]; other site 398767001136 conserved gate region; other site 398767001137 putative PBP binding loops; other site 398767001138 ABC-ATPase subunit interface; other site 398767001139 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767001140 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 398767001141 Walker A/P-loop; other site 398767001142 ATP binding site [chemical binding]; other site 398767001143 Q-loop/lid; other site 398767001144 ABC transporter signature motif; other site 398767001145 Walker B; other site 398767001146 D-loop; other site 398767001147 H-loop/switch region; other site 398767001148 TOBE domain; Region: TOBE; pfam03459 398767001149 Ion channel; Region: Ion_trans_2; pfam07885 398767001150 TrkA-N domain; Region: TrkA_N; pfam02254 398767001151 Staphylococcal nuclease homologues; Region: SNc; smart00318 398767001152 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 398767001153 Catalytic site; other site 398767001154 hypothetical protein; Provisional; Region: PRK07550 398767001155 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 398767001156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767001157 homodimer interface [polypeptide binding]; other site 398767001158 catalytic residue [active] 398767001159 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398767001160 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 398767001161 G1 box; other site 398767001162 GTP/Mg2+ binding site [chemical binding]; other site 398767001163 Switch I region; other site 398767001164 G2 box; other site 398767001165 G3 box; other site 398767001166 Switch II region; other site 398767001167 G4 box; other site 398767001168 G5 box; other site 398767001169 putative GTP cyclohydrolase; Provisional; Region: PRK13674 398767001170 futalosine nucleosidase; Region: fut_nucase; TIGR03664 398767001171 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398767001172 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 398767001173 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398767001174 catalytic residue [active] 398767001175 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398767001176 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 398767001177 dimerization interface [polypeptide binding]; other site 398767001178 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767001179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767001180 dimer interface [polypeptide binding]; other site 398767001181 putative CheW interface [polypeptide binding]; other site 398767001182 Maf-like protein; Region: Maf; pfam02545 398767001183 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 398767001184 active site 398767001185 dimer interface [polypeptide binding]; other site 398767001186 FAD binding domain; Region: FAD_binding_4; pfam01565 398767001187 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 398767001188 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001189 PAS domain; Region: PAS_9; pfam13426 398767001190 putative active site [active] 398767001191 heme pocket [chemical binding]; other site 398767001192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767001193 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 398767001194 ATP binding site [chemical binding]; other site 398767001195 Mg2+ binding site [ion binding]; other site 398767001196 G-X-G motif; other site 398767001197 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 398767001198 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398767001199 putative active site [active] 398767001200 metal binding site [ion binding]; metal-binding site 398767001201 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 398767001202 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 398767001203 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 398767001204 Putative Fe-S cluster; Region: FeS; cl17515 398767001205 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398767001206 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 398767001207 Walker A motif; other site 398767001208 ATP binding site [chemical binding]; other site 398767001209 Walker B motif; other site 398767001210 arginine finger; other site 398767001211 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767001212 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 398767001213 ribonuclease G; Provisional; Region: PRK11712 398767001214 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 398767001215 homodimer interface [polypeptide binding]; other site 398767001216 oligonucleotide binding site [chemical binding]; other site 398767001217 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 398767001218 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 398767001219 B12 binding site [chemical binding]; other site 398767001220 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 398767001221 FeS/SAM binding site; other site 398767001222 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 398767001223 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 398767001224 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398767001225 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398767001226 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398767001227 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 398767001228 iron-sulfur cluster [ion binding]; other site 398767001229 [2Fe-2S] cluster binding site [ion binding]; other site 398767001230 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398767001231 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398767001232 putative active site [active] 398767001233 catalytic site [active] 398767001234 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 398767001235 putative active site [active] 398767001236 catalytic site [active] 398767001237 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398767001238 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398767001239 dimer interface [polypeptide binding]; other site 398767001240 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398767001241 catalytic triad [active] 398767001242 peroxidatic and resolving cysteines [active] 398767001243 DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 398767001244 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 398767001245 active site 398767001246 catalytic site [active] 398767001247 substrate binding site [chemical binding]; other site 398767001248 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 398767001249 active site 398767001250 metal-binding site 398767001251 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398767001252 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398767001253 substrate binding site; other site 398767001254 tetramer interface; other site 398767001255 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767001256 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 398767001257 putative NAD(P) binding site [chemical binding]; other site 398767001258 active site 398767001259 putative substrate binding site [chemical binding]; other site 398767001260 threonine dehydratase; Provisional; Region: PRK08198 398767001261 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 398767001262 tetramer interface [polypeptide binding]; other site 398767001263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767001264 catalytic residue [active] 398767001265 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 398767001266 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 398767001267 Part of AAA domain; Region: AAA_19; pfam13245 398767001268 Family description; Region: UvrD_C_2; pfam13538 398767001269 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 398767001270 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 398767001271 RNA binding surface [nucleotide binding]; other site 398767001272 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398767001273 active site 398767001274 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 398767001275 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398767001276 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 398767001277 protein binding site [polypeptide binding]; other site 398767001278 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 398767001279 sequence-specific DNA binding site [nucleotide binding]; other site 398767001280 salt bridge; other site 398767001281 Cupin domain; Region: Cupin_2; pfam07883 398767001282 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 398767001283 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 398767001284 conserved cys residue [active] 398767001285 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 398767001286 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398767001287 putative NAD(P) binding site [chemical binding]; other site 398767001288 putative active site [active] 398767001289 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398767001290 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 398767001291 Walker A motif; other site 398767001292 ATP binding site [chemical binding]; other site 398767001293 Walker B motif; other site 398767001294 arginine finger; other site 398767001295 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398767001296 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398767001297 Permease; Region: Permease; pfam02405 398767001298 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398767001299 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398767001300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767001301 Walker A/P-loop; other site 398767001302 ATP binding site [chemical binding]; other site 398767001303 Q-loop/lid; other site 398767001304 ABC transporter signature motif; other site 398767001305 Walker B; other site 398767001306 D-loop; other site 398767001307 H-loop/switch region; other site 398767001308 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398767001309 mce related protein; Region: MCE; pfam02470 398767001310 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398767001311 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398767001312 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398767001313 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398767001314 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398767001315 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398767001316 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 398767001317 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 398767001318 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 398767001319 active site 398767001320 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398767001321 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; cd00494 398767001322 domain interfaces; other site 398767001323 active site 398767001324 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398767001325 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398767001326 tRNA; other site 398767001327 putative tRNA binding site [nucleotide binding]; other site 398767001328 putative NADP binding site [chemical binding]; other site 398767001329 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398767001330 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 398767001331 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 398767001332 catalytic residues [active] 398767001333 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 398767001334 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398767001335 catalytic residues [active] 398767001336 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398767001337 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 398767001338 active site 398767001339 tetramer interface; other site 398767001340 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 398767001341 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398767001342 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398767001343 homodimer interface [polypeptide binding]; other site 398767001344 NADP binding site [chemical binding]; other site 398767001345 substrate binding site [chemical binding]; other site 398767001346 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 398767001347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 398767001348 Smr domain; Region: Smr; pfam01713 398767001349 Protein of unknown function (DUF401); Region: DUF401; cl00830 398767001350 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767001351 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 398767001352 active site 398767001353 phosphorylation site [posttranslational modification] 398767001354 intermolecular recognition site; other site 398767001355 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 398767001356 TPR motif; other site 398767001357 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398767001358 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 398767001359 active site 398767001360 Zn binding site [ion binding]; other site 398767001361 SprA-related family; Region: SprA-related; pfam12118 398767001362 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 398767001363 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 398767001364 HSP70 interaction site [polypeptide binding]; other site 398767001365 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398767001366 substrate binding site [polypeptide binding]; other site 398767001367 dimer interface [polypeptide binding]; other site 398767001368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398767001369 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767001370 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 398767001371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398767001372 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398767001373 hypothetical protein; Reviewed; Region: PRK00024 398767001374 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398767001375 MPN+ (JAMM) motif; other site 398767001376 Zinc-binding site [ion binding]; other site 398767001377 Bacitracin resistance protein BacA; Region: BacA; pfam02673 398767001378 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 398767001379 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 398767001380 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398767001381 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 398767001382 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 398767001383 active site 398767001384 catalytic residues [active] 398767001385 metal binding site [ion binding]; metal-binding site 398767001386 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 398767001387 AMMECR1; Region: AMMECR1; pfam01871 398767001388 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 398767001389 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398767001390 catalytic residues [active] 398767001391 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 398767001392 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 398767001393 ligand binding site [chemical binding]; other site 398767001394 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 398767001395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767001396 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398767001397 dimer interface [polypeptide binding]; other site 398767001398 phosphorylation site [posttranslational modification] 398767001399 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 398767001400 ATP binding site [chemical binding]; other site 398767001401 Mg2+ binding site [ion binding]; other site 398767001402 G-X-G motif; other site 398767001403 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 398767001404 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398767001405 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398767001406 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398767001407 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767001408 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398767001409 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767001410 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398767001411 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 398767001412 EamA-like transporter family; Region: EamA; pfam00892 398767001413 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398767001414 EamA-like transporter family; Region: EamA; pfam00892 398767001415 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767001416 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767001417 Walker A/P-loop; other site 398767001418 ATP binding site [chemical binding]; other site 398767001419 Q-loop/lid; other site 398767001420 ABC transporter signature motif; other site 398767001421 Walker B; other site 398767001422 D-loop; other site 398767001423 H-loop/switch region; other site 398767001424 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767001425 FtsX-like permease family; Region: FtsX; pfam02687 398767001426 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 398767001427 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 398767001428 ResB-like family; Region: ResB; pfam05140 398767001429 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398767001430 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398767001431 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 398767001432 Predicted membrane protein [Function unknown]; Region: COG2119 398767001433 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398767001434 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398767001435 LemA family; Region: LemA; pfam04011 398767001436 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 398767001437 M48 family peptidase; Provisional; Region: PRK03001 398767001438 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 398767001439 active site clefts [active] 398767001440 zinc binding site [ion binding]; other site 398767001441 dimer interface [polypeptide binding]; other site 398767001442 AIR carboxylase; Region: AIRC; pfam00731 398767001443 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767001444 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 398767001445 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001446 PAS fold; Region: PAS_3; pfam08447 398767001447 putative active site [active] 398767001448 heme pocket [chemical binding]; other site 398767001449 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001450 PAS domain; Region: PAS_9; pfam13426 398767001451 putative active site [active] 398767001452 heme pocket [chemical binding]; other site 398767001453 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 398767001454 dimer interface [polypeptide binding]; other site 398767001455 phosphorylation site [posttranslational modification] 398767001456 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 398767001457 ATP binding site [chemical binding]; other site 398767001458 Mg2+ binding site [ion binding]; other site 398767001459 G-X-G motif; other site 398767001460 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001461 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 398767001462 active site 398767001463 phosphorylation site [posttranslational modification] 398767001464 intermolecular recognition site; other site 398767001465 dimerization interface [polypeptide binding]; other site 398767001466 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398767001467 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 398767001468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001469 putative active site [active] 398767001470 heme pocket [chemical binding]; other site 398767001471 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 398767001472 dimer interface [polypeptide binding]; other site 398767001473 phosphorylation site [posttranslational modification] 398767001474 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 398767001475 ATP binding site [chemical binding]; other site 398767001476 Mg2+ binding site [ion binding]; other site 398767001477 G-X-G motif; other site 398767001478 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001479 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 398767001480 active site 398767001481 phosphorylation site [posttranslational modification] 398767001482 intermolecular recognition site; other site 398767001483 dimerization interface [polypeptide binding]; other site 398767001484 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767001485 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 398767001486 substrate binding pocket [chemical binding]; other site 398767001487 membrane-bound complex binding site; other site 398767001488 hinge residues; other site 398767001489 PAS domain S-box; Region: sensory_box; TIGR00229 398767001490 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001491 putative active site [active] 398767001492 heme pocket [chemical binding]; other site 398767001493 PAS domain S-box; Region: sensory_box; TIGR00229 398767001494 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001495 putative active site [active] 398767001496 heme pocket [chemical binding]; other site 398767001497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767001498 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 398767001499 dimer interface [polypeptide binding]; other site 398767001500 phosphorylation site [posttranslational modification] 398767001501 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 398767001502 ATP binding site [chemical binding]; other site 398767001503 Mg2+ binding site [ion binding]; other site 398767001504 G-X-G motif; other site 398767001505 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767001506 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 398767001507 active site 398767001508 phosphorylation site [posttranslational modification] 398767001509 intermolecular recognition site; other site 398767001510 dimerization interface [polypeptide binding]; other site 398767001511 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398767001512 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 398767001513 ligand binding site [chemical binding]; other site 398767001514 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 398767001515 dimer interface [polypeptide binding]; other site 398767001516 phosphorylation site [posttranslational modification] 398767001517 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 398767001518 ATP binding site [chemical binding]; other site 398767001519 Mg2+ binding site [ion binding]; other site 398767001520 G-X-G motif; other site 398767001521 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001522 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 398767001523 active site 398767001524 phosphorylation site [posttranslational modification] 398767001525 intermolecular recognition site; other site 398767001526 dimerization interface [polypeptide binding]; other site 398767001527 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 398767001528 PAS domain; Region: PAS; smart00091 398767001529 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767001530 putative active site [active] 398767001531 heme pocket [chemical binding]; other site 398767001532 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 398767001533 dimer interface [polypeptide binding]; other site 398767001534 phosphorylation site [posttranslational modification] 398767001535 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 398767001536 ATP binding site [chemical binding]; other site 398767001537 Mg2+ binding site [ion binding]; other site 398767001538 G-X-G motif; other site 398767001539 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767001540 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 398767001541 active site 398767001542 phosphorylation site [posttranslational modification] 398767001543 intermolecular recognition site; other site 398767001544 dimerization interface [polypeptide binding]; other site 398767001545 PAS domain S-box; Region: sensory_box; TIGR00229 398767001546 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001547 putative active site [active] 398767001548 heme pocket [chemical binding]; other site 398767001549 PAS fold; Region: PAS_3; pfam08447 398767001550 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001551 putative active site [active] 398767001552 heme pocket [chemical binding]; other site 398767001553 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767001554 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001555 putative active site [active] 398767001556 heme pocket [chemical binding]; other site 398767001557 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 398767001558 dimer interface [polypeptide binding]; other site 398767001559 phosphorylation site [posttranslational modification] 398767001560 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 398767001561 ATP binding site [chemical binding]; other site 398767001562 Mg2+ binding site [ion binding]; other site 398767001563 G-X-G motif; other site 398767001564 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001565 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 398767001566 active site 398767001567 phosphorylation site [posttranslational modification] 398767001568 intermolecular recognition site; other site 398767001569 dimerization interface [polypeptide binding]; other site 398767001570 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398767001571 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398767001572 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398767001573 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; cl03075 398767001574 PAS domain; Region: PAS_10; pfam13596 398767001575 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001576 putative active site [active] 398767001577 heme pocket [chemical binding]; other site 398767001578 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001579 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767001580 putative active site [active] 398767001581 heme pocket [chemical binding]; other site 398767001582 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 398767001583 dimer interface [polypeptide binding]; other site 398767001584 phosphorylation site [posttranslational modification] 398767001585 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 398767001586 ATP binding site [chemical binding]; other site 398767001587 Mg2+ binding site [ion binding]; other site 398767001588 G-X-G motif; other site 398767001589 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001590 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 398767001591 active site 398767001592 phosphorylation site [posttranslational modification] 398767001593 intermolecular recognition site; other site 398767001594 dimerization interface [polypeptide binding]; other site 398767001595 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398767001596 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 398767001597 ATP binding site [chemical binding]; other site 398767001598 Mg2+ binding site [ion binding]; other site 398767001599 G-X-G motif; other site 398767001600 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001601 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 398767001602 active site 398767001603 phosphorylation site [posttranslational modification] 398767001604 intermolecular recognition site; other site 398767001605 dimerization interface [polypeptide binding]; other site 398767001606 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398767001607 4Fe-4S binding domain; Region: Fer4; cl02805 398767001608 Cysteine-rich domain; Region: CCG; pfam02754 398767001609 Cysteine-rich domain; Region: CCG; pfam02754 398767001610 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767001611 4Fe-4S binding domain; Region: Fer4; pfam00037 398767001612 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398767001613 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 398767001614 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398767001615 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 398767001616 Ligand binding site [chemical binding]; other site 398767001617 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398767001618 glutamate dehydrogenase; Provisional; Region: PRK09414 398767001619 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398767001620 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 398767001621 NAD(P) binding site [chemical binding]; other site 398767001622 aspartate kinase; Reviewed; Region: PRK06635 398767001623 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 398767001624 putative nucleotide binding site [chemical binding]; other site 398767001625 putative catalytic residues [active] 398767001626 putative Mg ion binding site [ion binding]; other site 398767001627 putative aspartate binding site [chemical binding]; other site 398767001628 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 398767001629 putative allosteric regulatory site; other site 398767001630 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 398767001631 putative allosteric regulatory residue; other site 398767001632 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 398767001633 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 398767001634 FeS/SAM binding site; other site 398767001635 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398767001636 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398767001637 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767001638 N-terminal plug; other site 398767001639 ligand-binding site [chemical binding]; other site 398767001640 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767001641 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398767001642 dimerization interface [polypeptide binding]; other site 398767001643 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 398767001644 dimer interface [polypeptide binding]; other site 398767001645 phosphorylation site [posttranslational modification] 398767001646 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 398767001647 ATP binding site [chemical binding]; other site 398767001648 Mg2+ binding site [ion binding]; other site 398767001649 G-X-G motif; other site 398767001650 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001651 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 398767001652 active site 398767001653 phosphorylation site [posttranslational modification] 398767001654 intermolecular recognition site; other site 398767001655 dimerization interface [polypeptide binding]; other site 398767001656 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398767001657 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398767001658 GIY-YIG motif/motif A; other site 398767001659 active site 398767001660 catalytic site [active] 398767001661 putative DNA binding site [nucleotide binding]; other site 398767001662 metal binding site [ion binding]; metal-binding site 398767001663 UvrB/uvrC motif; Region: UVR; pfam02151 398767001664 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398767001665 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398767001666 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398767001667 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398767001668 Domain of unknown function DUF11; Region: DUF11; pfam01345 398767001669 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767001670 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398767001671 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398767001672 HIGH motif; other site 398767001673 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398767001674 active site 398767001675 KMSKS motif; other site 398767001676 hybrid cluster protein; Provisional; Region: PRK05290 398767001677 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 398767001678 ACS interaction site; other site 398767001679 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 398767001680 hybrid metal cluster; other site 398767001681 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 398767001682 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398767001683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767001684 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 398767001685 active site 398767001686 phosphorylation site [posttranslational modification] 398767001687 intermolecular recognition site; other site 398767001688 dimerization interface [polypeptide binding]; other site 398767001689 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 398767001690 DNA binding site [nucleotide binding] 398767001691 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 398767001692 dimerization interface [polypeptide binding]; other site 398767001693 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767001694 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001695 putative active site [active] 398767001696 heme pocket [chemical binding]; other site 398767001697 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 398767001698 dimer interface [polypeptide binding]; other site 398767001699 phosphorylation site [posttranslational modification] 398767001700 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 398767001701 ATP binding site [chemical binding]; other site 398767001702 Mg2+ binding site [ion binding]; other site 398767001703 G-X-G motif; other site 398767001704 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 398767001705 catalytic core [active] 398767001706 CHAD domain; Region: CHAD; pfam05235 398767001707 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 398767001708 Cell division protein FtsA; Region: FtsA; cl17206 398767001709 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398767001710 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 398767001711 PAS domain S-box; Region: sensory_box; TIGR00229 398767001712 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001713 putative active site [active] 398767001714 heme pocket [chemical binding]; other site 398767001715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767001716 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 398767001717 dimer interface [polypeptide binding]; other site 398767001718 phosphorylation site [posttranslational modification] 398767001719 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 398767001720 ATP binding site [chemical binding]; other site 398767001721 G-X-G motif; other site 398767001722 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 398767001723 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398767001724 active site 398767001725 dimer interface [polypeptide binding]; other site 398767001726 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 398767001727 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398767001728 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398767001729 active site 398767001730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767001731 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 398767001732 substrate binding pocket [chemical binding]; other site 398767001733 membrane-bound complex binding site; other site 398767001734 hinge residues; other site 398767001735 PAS fold; Region: PAS_4; pfam08448 398767001736 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001737 putative active site [active] 398767001738 heme pocket [chemical binding]; other site 398767001739 PAS domain S-box; Region: sensory_box; TIGR00229 398767001740 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001741 putative active site [active] 398767001742 heme pocket [chemical binding]; other site 398767001743 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 398767001744 dimer interface [polypeptide binding]; other site 398767001745 phosphorylation site [posttranslational modification] 398767001746 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 398767001747 ATP binding site [chemical binding]; other site 398767001748 Mg2+ binding site [ion binding]; other site 398767001749 G-X-G motif; other site 398767001750 Response regulator receiver domain; Region: Response_reg; pfam00072 398767001751 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 398767001752 active site 398767001753 phosphorylation site [posttranslational modification] 398767001754 intermolecular recognition site; other site 398767001755 dimerization interface [polypeptide binding]; other site 398767001756 GAF domain; Region: GAF_2; pfam13185 398767001757 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767001758 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767001759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767001760 metal binding site [ion binding]; metal-binding site 398767001761 active site 398767001762 I-site; other site 398767001763 HTH domain; Region: HTH_11; pfam08279 398767001764 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001765 PAS domain; Region: PAS_9; pfam13426 398767001766 putative active site [active] 398767001767 heme pocket [chemical binding]; other site 398767001768 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767001769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767001770 metal binding site [ion binding]; metal-binding site 398767001771 active site 398767001772 I-site; other site 398767001773 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 398767001774 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 398767001775 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 398767001776 active site 398767001777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767001778 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 398767001779 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 398767001780 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 398767001781 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 398767001782 non-specific DNA binding site [nucleotide binding]; other site 398767001783 salt bridge; other site 398767001784 sequence-specific DNA binding site [nucleotide binding]; other site 398767001785 FRG domain; Region: FRG; pfam08867 398767001786 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 398767001787 active site 398767001788 dimer interfaces [polypeptide binding]; other site 398767001789 catalytic residues [active] 398767001790 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398767001791 active site 398767001792 ATP binding site [chemical binding]; other site 398767001793 substrate binding site [chemical binding]; other site 398767001794 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398767001795 activation loop (A-loop); other site 398767001796 PBP superfamily domain; Region: PBP_like_2; cl17296 398767001797 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398767001798 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767001799 ligand binding site [chemical binding]; other site 398767001800 PAS domain S-box; Region: sensory_box; TIGR00229 398767001801 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767001802 putative active site [active] 398767001803 heme pocket [chemical binding]; other site 398767001804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767001805 active site 398767001806 I-site; other site 398767001807 metal binding site [ion binding]; metal-binding site 398767001808 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 398767001809 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 398767001810 FOG: CBS domain [General function prediction only]; Region: COG0517 398767001811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767001812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767001813 metal binding site [ion binding]; metal-binding site 398767001814 active site 398767001815 I-site; other site 398767001816 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 398767001817 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767001818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767001819 dimer interface [polypeptide binding]; other site 398767001820 putative CheW interface [polypeptide binding]; other site 398767001821 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 398767001822 GH3 auxin-responsive promoter; Region: GH3; pfam03321 398767001823 PBP superfamily domain; Region: PBP_like_2; cl17296 398767001824 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398767001825 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 398767001826 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 398767001827 conserved gate region; other site 398767001828 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 398767001829 dimer interface [polypeptide binding]; other site 398767001830 conserved gate region; other site 398767001831 putative PBP binding loops; other site 398767001832 ABC-ATPase subunit interface; other site 398767001833 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 398767001834 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 398767001835 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 398767001836 dimer interface [polypeptide binding]; other site 398767001837 conserved gate region; other site 398767001838 putative PBP binding loops; other site 398767001839 ABC-ATPase subunit interface; other site 398767001840 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 398767001841 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398767001842 Walker A/P-loop; other site 398767001843 ATP binding site [chemical binding]; other site 398767001844 Q-loop/lid; other site 398767001845 ABC transporter signature motif; other site 398767001846 Walker B; other site 398767001847 D-loop; other site 398767001848 H-loop/switch region; other site 398767001849 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 398767001850 PhoU domain; Region: PhoU; pfam01895 398767001851 PhoU domain; Region: PhoU; pfam01895 398767001852 CoA binding domain; Region: CoA_binding_2; pfam13380 398767001853 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 398767001854 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 398767001855 FeS/SAM binding site; other site 398767001856 TMAO/DMSO reductase; Reviewed; Region: PRK05363 398767001857 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398767001858 Moco binding site; other site 398767001859 metal coordination site [ion binding]; other site 398767001860 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398767001861 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 398767001862 ligand binding site [chemical binding]; other site 398767001863 flexible hinge region; other site 398767001864 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 398767001865 non-specific DNA interactions [nucleotide binding]; other site 398767001866 DNA binding site [nucleotide binding] 398767001867 sequence specific DNA binding site [nucleotide binding]; other site 398767001868 putative cAMP binding site [chemical binding]; other site 398767001869 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 398767001870 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 398767001871 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 398767001872 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 398767001873 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 398767001874 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 398767001875 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 398767001876 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 398767001877 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 398767001878 ATP binding site [chemical binding]; other site 398767001879 putative Mg++ binding site [ion binding]; other site 398767001880 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398767001881 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767001882 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 398767001883 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767001884 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767001885 Divergent AAA domain; Region: AAA_4; pfam04326 398767001886 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 398767001887 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398767001888 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 398767001889 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 398767001890 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 398767001891 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 398767001892 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 398767001893 Interdomain contacts; other site 398767001894 Cytokine receptor motif; other site 398767001895 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 398767001896 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 398767001897 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 398767001898 Interdomain contacts; other site 398767001899 Cytokine receptor motif; other site 398767001900 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 398767001901 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398767001902 putative active site [active] 398767001903 Zn binding site [ion binding]; other site 398767001904 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 398767001905 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398767001906 putative active site [active] 398767001907 Zn binding site [ion binding]; other site 398767001908 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398767001909 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398767001910 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398767001911 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 398767001912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 398767001913 Uncharacterized conserved protein [Function unknown]; Region: COG2308 398767001914 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 398767001915 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 398767001916 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 398767001917 MoFe protein beta/alpha subunit interactions; other site 398767001918 Beta subunit P cluster binding residues; other site 398767001919 MoFe protein beta subunit/Fe protein contacts; other site 398767001920 MoFe protein dimer/ dimer interactions; other site 398767001921 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 398767001922 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 398767001923 MoFe protein alpha/beta subunit interactions; other site 398767001924 Alpha subunit P cluster binding residues; other site 398767001925 FeMoco binding residues [chemical binding]; other site 398767001926 MoFe protein alpha subunit/Fe protein contacts; other site 398767001927 MoFe protein dimer/ dimer interactions; other site 398767001928 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 398767001929 nitrogenase iron protein; Region: nifH; TIGR01287 398767001930 Nucleotide-binding sites [chemical binding]; other site 398767001931 Walker A motif; other site 398767001932 Switch I region of nucleotide binding site; other site 398767001933 Fe4S4 binding sites [ion binding]; other site 398767001934 Switch II region of nucleotide binding site; other site 398767001935 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 398767001936 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 398767001937 putative active site [active] 398767001938 putative catalytic site [active] 398767001939 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 398767001940 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 398767001941 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 398767001942 Flagellin N-methylase; Region: FliB; cl00497 398767001943 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 398767001944 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 398767001945 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 398767001946 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 398767001947 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 398767001948 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 398767001949 catalytic loop [active] 398767001950 iron binding site [ion binding]; other site 398767001951 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398767001952 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767001953 molybdopterin cofactor binding site; other site 398767001954 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 398767001955 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 398767001956 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 398767001957 B12 binding site [chemical binding]; other site 398767001958 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 398767001959 FeS/SAM binding site; other site 398767001960 cell division protein FtsZ; Validated; Region: PRK09330 398767001961 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 398767001962 nucleotide binding site [chemical binding]; other site 398767001963 SulA interaction site; other site 398767001964 cell division protein FtsA; Region: ftsA; TIGR01174 398767001965 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398767001966 nucleotide binding site [chemical binding]; other site 398767001967 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 398767001968 Cell division protein FtsA; Region: FtsA; pfam14450 398767001969 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398767001970 Cell division protein FtsQ; Region: FtsQ; pfam03799 398767001971 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 398767001972 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398767001973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398767001974 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 398767001975 FAD binding domain; Region: FAD_binding_4; pfam01565 398767001976 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398767001977 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398767001978 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398767001979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398767001980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398767001981 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398767001982 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 398767001983 active site 398767001984 homodimer interface [polypeptide binding]; other site 398767001985 cell division protein FtsW; Region: ftsW; TIGR02614 398767001986 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 398767001987 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398767001988 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398767001989 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398767001990 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 398767001991 Mg++ binding site [ion binding]; other site 398767001992 putative catalytic motif [active] 398767001993 putative substrate binding site [chemical binding]; other site 398767001994 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 398767001995 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398767001996 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398767001997 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398767001998 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398767001999 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398767002000 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398767002001 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398767002002 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398767002003 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398767002004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398767002005 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 398767002006 Cell division protein FtsL; Region: FtsL; cl11433 398767002007 MraW methylase family; Region: Methyltransf_5; cl17771 398767002008 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 398767002009 cell division protein MraZ; Reviewed; Region: PRK00326 398767002010 MraZ protein; Region: MraZ; pfam02381 398767002011 MraZ protein; Region: MraZ; pfam02381 398767002012 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767002013 GAF domain; Region: GAF; pfam01590 398767002014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767002015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767002016 metal binding site [ion binding]; metal-binding site 398767002017 active site 398767002018 I-site; other site 398767002019 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 398767002020 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 398767002021 Putative zinc ribbon domain; Region: DUF164; pfam02591 398767002022 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398767002023 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 398767002024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 398767002025 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 398767002026 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398767002027 elongation factor P; Provisional; Region: PRK14578 398767002028 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398767002029 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 398767002030 RNA binding site [nucleotide binding]; other site 398767002031 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 398767002032 RNA binding site [nucleotide binding]; other site 398767002033 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 398767002034 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398767002035 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398767002036 Ligand Binding Site [chemical binding]; other site 398767002037 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398767002038 Ligand Binding Site [chemical binding]; other site 398767002039 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 398767002040 dimer interface [polypeptide binding]; other site 398767002041 active site 398767002042 Schiff base residues; other site 398767002043 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398767002044 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398767002045 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767002046 ligand binding site [chemical binding]; other site 398767002047 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 398767002048 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 398767002049 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 398767002050 homodimer interface [polypeptide binding]; other site 398767002051 Walker A motif; other site 398767002052 ATP binding site [chemical binding]; other site 398767002053 hydroxycobalamin binding site [chemical binding]; other site 398767002054 Walker B motif; other site 398767002055 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 398767002056 YtxH-like protein; Region: YtxH; pfam12732 398767002057 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767002058 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 398767002059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767002060 catalytic residue [active] 398767002061 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767002062 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 398767002063 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767002064 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 398767002065 binding surface 398767002066 TPR motif; other site 398767002067 TPR repeat; Region: TPR_11; pfam13414 398767002068 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 398767002069 active site 398767002070 phosphorylation site [posttranslational modification] 398767002071 intermolecular recognition site; other site 398767002072 dimerization interface [polypeptide binding]; other site 398767002073 SurA N-terminal domain; Region: SurA_N; pfam09312 398767002074 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398767002075 SurA N-terminal domain; Region: SurA_N_3; cl07813 398767002076 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398767002077 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 398767002078 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 398767002079 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 398767002080 ATP binding site [chemical binding]; other site 398767002081 putative Mg++ binding site [ion binding]; other site 398767002082 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 398767002083 nucleotide binding region [chemical binding]; other site 398767002084 ATP-binding site [chemical binding]; other site 398767002085 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 398767002086 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 398767002087 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398767002088 Substrate binding site; other site 398767002089 Mg++ binding site; other site 398767002090 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 398767002091 active site 398767002092 substrate binding site [chemical binding]; other site 398767002093 CoA binding site [chemical binding]; other site 398767002094 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002095 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 398767002096 active site 398767002097 phosphorylation site [posttranslational modification] 398767002098 intermolecular recognition site; other site 398767002099 dimerization interface [polypeptide binding]; other site 398767002100 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002101 PAS fold; Region: PAS_3; pfam08447 398767002102 putative active site [active] 398767002103 heme pocket [chemical binding]; other site 398767002104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767002105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767002106 metal binding site [ion binding]; metal-binding site 398767002107 active site 398767002108 I-site; other site 398767002109 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 398767002110 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398767002111 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398767002112 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398767002113 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398767002114 Predicted permeases [General function prediction only]; Region: COG0679 398767002115 Membrane transport protein; Region: Mem_trans; cl09117 398767002116 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767002117 Cache domain; Region: Cache_1; pfam02743 398767002118 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398767002119 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 398767002120 dimerization interface [polypeptide binding]; other site 398767002121 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398767002122 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398767002123 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 398767002124 active site 398767002125 CARDB; Region: CARDB; pfam07705 398767002126 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 398767002127 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 398767002128 dimer interface [polypeptide binding]; other site 398767002129 active site 398767002130 metal binding site [ion binding]; metal-binding site 398767002131 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398767002132 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398767002133 Walker A/P-loop; other site 398767002134 ATP binding site [chemical binding]; other site 398767002135 Q-loop/lid; other site 398767002136 ABC transporter signature motif; other site 398767002137 Walker B; other site 398767002138 D-loop; other site 398767002139 H-loop/switch region; other site 398767002140 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002141 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 398767002142 membrane-bound complex binding site; other site 398767002143 hinge residues; other site 398767002144 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002145 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 398767002146 substrate binding pocket [chemical binding]; other site 398767002147 membrane-bound complex binding site; other site 398767002148 hinge residues; other site 398767002149 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 398767002150 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002151 substrate binding pocket [chemical binding]; other site 398767002152 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398767002153 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 398767002154 dimer interface [polypeptide binding]; other site 398767002155 conserved gate region; other site 398767002156 putative PBP binding loops; other site 398767002157 ABC-ATPase subunit interface; other site 398767002158 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398767002159 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 398767002160 ligand binding site [chemical binding]; other site 398767002161 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398767002162 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 398767002163 ligand binding site [chemical binding]; other site 398767002164 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767002165 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398767002166 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 398767002167 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 398767002168 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398767002169 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 398767002170 Phytochelatin synthase; Region: Phytochelatin; pfam05023 398767002171 CVNH domain; Region: CVNH; pfam08881 398767002172 Protein of unknown function (DUF819); Region: DUF819; cl02317 398767002173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 398767002174 isovaleryl-CoA dehydrogenase; Provisional; Region: PTZ00461 398767002175 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398767002176 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 398767002177 Walker A motif; other site 398767002178 ATP binding site [chemical binding]; other site 398767002179 Walker B motif; other site 398767002180 arginine finger; other site 398767002181 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767002182 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002183 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 398767002184 membrane-bound complex binding site; other site 398767002185 hinge residues; other site 398767002186 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 398767002187 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002188 substrate binding pocket [chemical binding]; other site 398767002189 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398767002190 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 398767002191 dimer interface [polypeptide binding]; other site 398767002192 conserved gate region; other site 398767002193 putative PBP binding loops; other site 398767002194 ABC-ATPase subunit interface; other site 398767002195 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002196 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 398767002197 membrane-bound complex binding site; other site 398767002198 hinge residues; other site 398767002199 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 398767002200 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767002201 substrate binding pocket [chemical binding]; other site 398767002202 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398767002203 active site 398767002204 Zn binding site [ion binding]; other site 398767002205 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 398767002206 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767002207 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767002208 FtsX-like permease family; Region: FtsX; pfam02687 398767002209 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767002210 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767002211 Walker A/P-loop; other site 398767002212 ATP binding site [chemical binding]; other site 398767002213 Q-loop/lid; other site 398767002214 ABC transporter signature motif; other site 398767002215 Walker B; other site 398767002216 D-loop; other site 398767002217 H-loop/switch region; other site 398767002218 PAS fold; Region: PAS; pfam00989 398767002219 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002220 putative active site [active] 398767002221 heme pocket [chemical binding]; other site 398767002222 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767002223 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 398767002224 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767002225 Outer membrane efflux protein; Region: OEP; pfam02321 398767002226 Outer membrane efflux protein; Region: OEP; pfam02321 398767002227 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398767002228 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 398767002229 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 398767002230 anti sigma factor interaction site; other site 398767002231 regulatory phosphorylation site [posttranslational modification]; other site 398767002232 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767002233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767002234 Zn2+ binding site [ion binding]; other site 398767002235 Mg2+ binding site [ion binding]; other site 398767002236 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 398767002237 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 398767002238 dimerization interface [polypeptide binding]; other site 398767002239 PAS domain S-box; Region: sensory_box; TIGR00229 398767002240 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 398767002241 Transglycosylase; Region: Transgly; pfam00912 398767002242 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398767002243 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767002244 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398767002245 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 398767002246 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 398767002247 homodimer interface [polypeptide binding]; other site 398767002248 oligonucleotide binding site [chemical binding]; other site 398767002249 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398767002250 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 398767002251 dimer interface [polypeptide binding]; other site 398767002252 putative anticodon binding site; other site 398767002253 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 398767002254 motif 1; other site 398767002255 active site 398767002256 motif 2; other site 398767002257 motif 3; other site 398767002258 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 398767002259 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767002260 FtsX-like permease family; Region: FtsX; pfam02687 398767002261 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767002262 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767002263 Walker A/P-loop; other site 398767002264 ATP binding site [chemical binding]; other site 398767002265 Q-loop/lid; other site 398767002266 ABC transporter signature motif; other site 398767002267 Walker B; other site 398767002268 D-loop; other site 398767002269 H-loop/switch region; other site 398767002270 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398767002271 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398767002272 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398767002273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398767002274 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398767002275 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398767002276 Surface antigen; Region: Bac_surface_Ag; pfam01103 398767002277 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 398767002278 periplasmic chaperone; Provisional; Region: PRK10780 398767002279 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 398767002280 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 398767002281 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 398767002282 trimer interface [polypeptide binding]; other site 398767002283 active site 398767002284 UDP-GlcNAc binding site [chemical binding]; other site 398767002285 lipid binding site [chemical binding]; lipid-binding site 398767002286 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 398767002287 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 398767002288 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 398767002289 active site 398767002290 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398767002291 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398767002292 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398767002293 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 398767002294 inhibitor-cofactor binding pocket; inhibition site 398767002295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767002296 catalytic residue [active] 398767002297 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 398767002298 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 398767002299 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398767002300 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398767002301 putative acyl-acceptor binding pocket; other site 398767002302 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 398767002303 active site 398767002304 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398767002305 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 398767002306 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 398767002307 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 398767002308 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 398767002309 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767002310 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767002311 putative active site [active] 398767002312 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398767002313 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398767002314 NADP-binding site; other site 398767002315 homotetramer interface [polypeptide binding]; other site 398767002316 substrate binding site [chemical binding]; other site 398767002317 homodimer interface [polypeptide binding]; other site 398767002318 active site 398767002319 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 398767002320 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398767002321 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398767002322 Walker A/P-loop; other site 398767002323 ATP binding site [chemical binding]; other site 398767002324 Q-loop/lid; other site 398767002325 ABC transporter signature motif; other site 398767002326 Walker B; other site 398767002327 D-loop; other site 398767002328 H-loop/switch region; other site 398767002329 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767002330 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 398767002331 putative metal binding site; other site 398767002332 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 398767002333 GDP-Fucose binding site [chemical binding]; other site 398767002334 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398767002335 catalytic site [active] 398767002336 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 398767002337 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767002338 Probable Catalytic site; other site 398767002339 metal-binding site 398767002340 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767002341 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767002342 putative active site [active] 398767002343 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767002344 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 398767002345 metal-binding site 398767002346 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 398767002347 active site 398767002348 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 398767002349 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 398767002350 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 398767002351 substrate binding site; other site 398767002352 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 398767002353 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 398767002354 NAD binding site [chemical binding]; other site 398767002355 homotetramer interface [polypeptide binding]; other site 398767002356 homodimer interface [polypeptide binding]; other site 398767002357 substrate binding site [chemical binding]; other site 398767002358 active site 398767002359 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 398767002360 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 398767002361 inhibitor-cofactor binding pocket; inhibition site 398767002362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767002363 catalytic residue [active] 398767002364 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767002365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767002366 NAD(P) binding site [chemical binding]; other site 398767002367 active site 398767002368 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 398767002369 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398767002370 PYR/PP interface [polypeptide binding]; other site 398767002371 dimer interface [polypeptide binding]; other site 398767002372 TPP binding site [chemical binding]; other site 398767002373 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398767002374 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 398767002375 TPP-binding site [chemical binding]; other site 398767002376 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 398767002377 active site 398767002378 catalytic residues [active] 398767002379 metal binding site [ion binding]; metal-binding site 398767002380 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398767002381 classical (c) SDRs; Region: SDR_c; cd05233 398767002382 NAD(P) binding site [chemical binding]; other site 398767002383 active site 398767002384 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 398767002385 active site 398767002386 NAD binding site [chemical binding]; other site 398767002387 metal binding site [ion binding]; metal-binding site 398767002388 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 398767002389 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 398767002390 inhibitor-cofactor binding pocket; inhibition site 398767002391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767002392 catalytic residue [active] 398767002393 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 398767002394 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 398767002395 Substrate binding site; other site 398767002396 Mg++ binding site; other site 398767002397 metal-binding site 398767002398 Mg++ binding site; other site 398767002399 metal-binding site 398767002400 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 398767002401 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398767002402 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767002403 extended (e) SDRs; Region: SDR_e; cd08946 398767002404 NAD(P) binding site [chemical binding]; other site 398767002405 active site 398767002406 substrate binding site [chemical binding]; other site 398767002407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767002408 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 398767002409 TPP-binding site [chemical binding]; other site 398767002410 dimer interface [polypeptide binding]; other site 398767002411 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398767002412 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 398767002413 PYR/PP interface [polypeptide binding]; other site 398767002414 dimer interface [polypeptide binding]; other site 398767002415 TPP binding site [chemical binding]; other site 398767002416 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398767002417 B12 binding domain; Region: B12-binding; pfam02310 398767002418 B12 binding site [chemical binding]; other site 398767002419 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767002420 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 398767002421 FeS/SAM binding site; other site 398767002422 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 398767002423 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 398767002424 inhibitor-cofactor binding pocket; inhibition site 398767002425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767002426 catalytic residue [active] 398767002427 AAA domain; Region: AAA_14; pfam13173 398767002428 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 398767002429 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767002430 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767002431 putative active site [active] 398767002432 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767002433 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767002434 putative active site [active] 398767002435 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 398767002436 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 398767002437 putative ATP binding site [chemical binding]; other site 398767002438 putative substrate interface [chemical binding]; other site 398767002439 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767002440 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767002441 metal binding site [ion binding]; metal-binding site 398767002442 active site 398767002443 I-site; other site 398767002444 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 398767002445 diiron binding motif [ion binding]; other site 398767002446 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767002447 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002448 putative active site [active] 398767002449 heme pocket [chemical binding]; other site 398767002450 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 398767002451 ATP binding site [chemical binding]; other site 398767002452 Mg2+ binding site [ion binding]; other site 398767002453 G-X-G motif; other site 398767002454 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002455 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 398767002456 active site 398767002457 phosphorylation site [posttranslational modification] 398767002458 intermolecular recognition site; other site 398767002459 dimerization interface [polypeptide binding]; other site 398767002460 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398767002461 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 398767002462 glutaminase active site [active] 398767002463 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 398767002464 dimer interface [polypeptide binding]; other site 398767002465 active site 398767002466 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 398767002467 dimer interface [polypeptide binding]; other site 398767002468 active site 398767002469 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 398767002470 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 398767002471 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 398767002472 Peptidase family M48; Region: Peptidase_M48; cl12018 398767002473 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 398767002474 Uncharacterized conserved protein [Function unknown]; Region: COG1615 398767002475 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398767002476 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398767002477 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 398767002478 hinge; other site 398767002479 active site 398767002480 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 398767002481 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 398767002482 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398767002483 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 398767002484 histidinol dehydrogenase; Region: hisD; TIGR00069 398767002485 NAD binding site [chemical binding]; other site 398767002486 dimerization interface [polypeptide binding]; other site 398767002487 product binding site; other site 398767002488 substrate binding site [chemical binding]; other site 398767002489 zinc binding site [ion binding]; other site 398767002490 catalytic residues [active] 398767002491 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 398767002492 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 398767002493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767002494 homodimer interface [polypeptide binding]; other site 398767002495 catalytic residue [active] 398767002496 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398767002497 putative active site pocket [active] 398767002498 4-fold oligomerization interface [polypeptide binding]; other site 398767002499 metal binding residues [ion binding]; metal-binding site 398767002500 3-fold/trimer interface [polypeptide binding]; other site 398767002501 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398767002502 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398767002503 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 398767002504 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 398767002505 Uncharacterized conserved protein [Function unknown]; Region: COG1633 398767002506 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 398767002507 diiron binding motif [ion binding]; other site 398767002508 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398767002509 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 398767002510 catalytic residues [active] 398767002511 catalytic nucleophile [active] 398767002512 Recombinase; Region: Recombinase; pfam07508 398767002513 ParB-like nuclease domain; Region: ParB; smart00470 398767002514 RepB plasmid partitioning protein; Region: RepB; pfam07506 398767002515 RepB plasmid partitioning protein; Region: RepB; pfam07506 398767002516 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398767002517 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 398767002518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767002519 catalytic residue [active] 398767002520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398767002521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767002522 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 398767002523 dimerization interface [polypeptide binding]; other site 398767002524 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398767002525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767002526 Coenzyme A binding pocket [chemical binding]; other site 398767002527 Transposase domain (DUF772); Region: DUF772; pfam05598 398767002528 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767002529 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767002530 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767002531 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 398767002532 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 398767002533 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 398767002534 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398767002535 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398767002536 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 398767002537 motif II; other site 398767002538 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398767002539 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 398767002540 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 398767002541 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 398767002542 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 398767002543 ATP binding site [chemical binding]; other site 398767002544 putative Mg++ binding site [ion binding]; other site 398767002545 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 398767002546 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767002547 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767002548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398767002549 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767002550 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398767002551 HsdM N-terminal domain; Region: HsdM_N; pfam12161 398767002552 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767002553 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398767002554 HsdM N-terminal domain; Region: HsdM_N; pfam12161 398767002555 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767002556 Fic family protein [Function unknown]; Region: COG3177 398767002557 Fic/DOC family; Region: Fic; pfam02661 398767002558 Integrase; Region: Integrase_1; pfam12835 398767002559 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 398767002560 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767002561 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 398767002562 non-specific DNA binding site [nucleotide binding]; other site 398767002563 salt bridge; other site 398767002564 sequence-specific DNA binding site [nucleotide binding]; other site 398767002565 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398767002566 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 398767002567 catalytic residues [active] 398767002568 catalytic nucleophile [active] 398767002569 Recombinase; Region: Recombinase; pfam07508 398767002570 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 398767002571 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767002572 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767002573 heme-binding residues [chemical binding]; other site 398767002574 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767002575 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 398767002576 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 398767002577 Cysteine-rich domain; Region: CCG; pfam02754 398767002578 Cysteine-rich domain; Region: CCG; pfam02754 398767002579 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 398767002580 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002581 active site 398767002582 phosphorylation site [posttranslational modification] 398767002583 intermolecular recognition site; other site 398767002584 dimerization interface [polypeptide binding]; other site 398767002585 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 398767002586 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 398767002587 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 398767002588 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 398767002589 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 398767002590 GxxExxY protein; Region: GxxExxY; TIGR04256 398767002591 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 398767002592 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 398767002593 FAD binding pocket [chemical binding]; other site 398767002594 FAD binding motif [chemical binding]; other site 398767002595 phosphate binding motif [ion binding]; other site 398767002596 beta-alpha-beta structure motif; other site 398767002597 NAD binding pocket [chemical binding]; other site 398767002598 Iron coordination center [ion binding]; other site 398767002599 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398767002600 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002601 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 398767002602 active site 398767002603 dimerization interface [polypeptide binding]; other site 398767002604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767002605 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 398767002606 dimer interface [polypeptide binding]; other site 398767002607 phosphorylation site [posttranslational modification] 398767002608 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 398767002609 ATP binding site [chemical binding]; other site 398767002610 Mg2+ binding site [ion binding]; other site 398767002611 G-X-G motif; other site 398767002612 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398767002613 substrate binding site; other site 398767002614 dimer interface; other site 398767002615 selenocysteine synthase; Provisional; Region: PRK04311 398767002616 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 398767002617 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 398767002618 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767002619 catalytic residue [active] 398767002620 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398767002621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398767002622 DNA-binding site [nucleotide binding]; DNA binding site 398767002623 FCD domain; Region: FCD; pfam07729 398767002624 Ion channel; Region: Ion_trans_2; pfam07885 398767002625 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398767002626 TrkA-N domain; Region: TrkA_N; pfam02254 398767002627 TrkA-C domain; Region: TrkA_C; pfam02080 398767002628 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398767002629 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 398767002630 Metal-binding active site; metal-binding site 398767002631 AP (apurinic/apyrimidinic) site pocket; other site 398767002632 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 398767002633 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398767002634 NAD binding site [chemical binding]; other site 398767002635 homodimer interface [polypeptide binding]; other site 398767002636 active site 398767002637 substrate binding site [chemical binding]; other site 398767002638 DHH family; Region: DHH; pfam01368 398767002639 FOG: CBS domain [General function prediction only]; Region: COG0517 398767002640 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 398767002641 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398767002642 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 398767002643 active site 398767002644 NTP binding site [chemical binding]; other site 398767002645 metal binding triad [ion binding]; metal-binding site 398767002646 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002647 putative substrate translocation pore; other site 398767002648 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767002649 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 398767002650 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398767002651 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 398767002652 dimerization interface [polypeptide binding]; other site 398767002653 active site 398767002654 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767002655 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767002656 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 398767002657 dimerization interface [polypeptide binding]; other site 398767002658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767002659 dimer interface [polypeptide binding]; other site 398767002660 putative CheW interface [polypeptide binding]; other site 398767002661 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398767002662 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767002663 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 398767002664 Walker A motif; other site 398767002665 ATP binding site [chemical binding]; other site 398767002666 Walker B motif; other site 398767002667 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767002668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767002669 Integrase core domain; Region: rve; pfam00665 398767002670 Activator of aromatic catabolism; Region: XylR_N; pfam06505 398767002671 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398767002672 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398767002673 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 398767002674 Walker A motif; other site 398767002675 ATP binding site [chemical binding]; other site 398767002676 Walker B motif; other site 398767002677 arginine finger; other site 398767002678 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767002679 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767002680 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 398767002681 dimerization interface [polypeptide binding]; other site 398767002682 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767002683 dimer interface [polypeptide binding]; other site 398767002684 putative CheW interface [polypeptide binding]; other site 398767002685 Activator of aromatic catabolism; Region: XylR_N; pfam06505 398767002686 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398767002687 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398767002688 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 398767002689 Walker A motif; other site 398767002690 ATP binding site [chemical binding]; other site 398767002691 Walker B motif; other site 398767002692 arginine finger; other site 398767002693 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767002694 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398767002695 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 398767002696 FeS/SAM binding site; other site 398767002697 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398767002698 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398767002699 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398767002700 dimer interface [polypeptide binding]; other site 398767002701 putative functional site; other site 398767002702 putative MPT binding site; other site 398767002703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002704 putative substrate translocation pore; other site 398767002705 D-galactonate transporter; Region: 2A0114; TIGR00893 398767002706 Initiator Replication protein; Region: Rep_3; pfam01051 398767002707 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767002708 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 398767002709 S-adenosylmethionine binding site [chemical binding]; other site 398767002710 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 398767002711 amphipathic channel; other site 398767002712 Asn-Pro-Ala signature motifs; other site 398767002713 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 398767002714 putative [Fe4-S4] binding site [ion binding]; other site 398767002715 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398767002716 putative molybdopterin cofactor binding site [chemical binding]; other site 398767002717 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 398767002718 putative molybdopterin cofactor binding site; other site 398767002719 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398767002720 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 398767002721 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398767002722 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 398767002723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767002725 putative substrate translocation pore; other site 398767002726 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767002727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767002728 Integrase core domain; Region: rve; pfam00665 398767002729 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767002730 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 398767002731 Walker A motif; other site 398767002732 ATP binding site [chemical binding]; other site 398767002733 Walker B motif; other site 398767002734 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 398767002735 active site residues [active] 398767002736 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398767002737 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398767002738 GTP binding site; other site 398767002739 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 398767002740 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 398767002741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398767002742 Pseudomonas putida vanillin dehydrogenase-like; Region: ALDH_VaniDH_like; cd07150 398767002743 NAD(P) binding site [chemical binding]; other site 398767002744 catalytic residues [active] 398767002745 MOSC domain; Region: MOSC; pfam03473 398767002746 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 398767002747 Walker A motif; other site 398767002748 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 398767002749 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 398767002750 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 398767002751 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 398767002752 Activator of aromatic catabolism; Region: XylR_N; pfam06505 398767002753 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398767002754 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 398767002755 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398767002756 Walker A motif; other site 398767002757 ATP binding site [chemical binding]; other site 398767002758 Walker B motif; other site 398767002759 arginine finger; other site 398767002760 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767002761 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 398767002762 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 398767002763 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767002764 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767002765 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 398767002766 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398767002767 putative hydrolase; Provisional; Region: PRK02113 398767002768 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398767002769 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 398767002770 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 398767002771 FeS/SAM binding site; other site 398767002772 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767002773 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 398767002774 S-adenosylmethionine binding site [chemical binding]; other site 398767002775 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 398767002776 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 398767002777 MPT binding site; other site 398767002778 trimer interface [polypeptide binding]; other site 398767002779 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 398767002780 trimer interface [polypeptide binding]; other site 398767002781 dimer interface [polypeptide binding]; other site 398767002782 putative active site [active] 398767002783 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398767002784 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 398767002785 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398767002786 putative [Fe4-S4] binding site [ion binding]; other site 398767002787 putative molybdopterin cofactor binding site [chemical binding]; other site 398767002788 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767002789 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 398767002790 putative molybdopterin cofactor binding site; other site 398767002791 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 398767002792 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767002793 FeS/SAM binding site; other site 398767002794 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767002795 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767002796 dimer interface [polypeptide binding]; other site 398767002797 putative CheW interface [polypeptide binding]; other site 398767002798 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398767002799 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398767002800 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398767002801 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 398767002802 putative [Fe4-S4] binding site [ion binding]; other site 398767002803 putative molybdopterin cofactor binding site [chemical binding]; other site 398767002804 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767002805 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 398767002806 putative molybdopterin cofactor binding site; other site 398767002807 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398767002808 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002809 putative substrate translocation pore; other site 398767002810 benzoate transport; Region: 2A0115; TIGR00895 398767002811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002812 putative substrate translocation pore; other site 398767002813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767002814 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767002815 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767002816 Family description; Region: VCBS; pfam13517 398767002817 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 398767002818 L-aspartate oxidase; Provisional; Region: PRK06175 398767002819 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398767002820 Activator of aromatic catabolism; Region: XylR_N; pfam06505 398767002821 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398767002822 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 398767002823 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398767002824 Walker A motif; other site 398767002825 ATP binding site [chemical binding]; other site 398767002826 Walker B motif; other site 398767002827 arginine finger; other site 398767002828 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767002829 Predicted oxidoreductase [General function prediction only]; Region: COG3573 398767002830 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398767002831 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 398767002832 active site 398767002833 HIGH motif; other site 398767002834 nucleotide binding site [chemical binding]; other site 398767002835 active site 398767002836 KMSKS motif; other site 398767002837 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 398767002838 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; cl00125 398767002839 active site residue [active] 398767002840 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 398767002841 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 398767002842 intersubunit interface [polypeptide binding]; other site 398767002843 active site 398767002844 zinc binding site [ion binding]; other site 398767002845 Na+ binding site [ion binding]; other site 398767002846 PilZ domain; Region: PilZ; pfam07238 398767002847 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767002848 GAF domain; Region: GAF; pfam01590 398767002849 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767002850 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767002851 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767002852 dimer interface [polypeptide binding]; other site 398767002853 putative CheW interface [polypeptide binding]; other site 398767002854 Predicted membrane protein [Function unknown]; Region: COG2855 398767002855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767002856 transcriptional regulator, ArgP family; Region: argP; TIGR03298 398767002857 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 398767002858 putative dimerization interface [polypeptide binding]; other site 398767002859 camphor resistance protein CrcB; Provisional; Region: PRK14222 398767002860 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 398767002861 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 398767002862 oligomerization interface [polypeptide binding]; other site 398767002863 active site 398767002864 metal binding site [ion binding]; metal-binding site 398767002865 pantoate--beta-alanine ligase; Region: panC; TIGR00018 398767002866 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398767002867 active site 398767002868 ATP-binding site [chemical binding]; other site 398767002869 pantoate-binding site; other site 398767002870 HXXH motif; other site 398767002871 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 398767002872 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767002873 catalytic residue [active] 398767002874 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767002875 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002876 putative active site [active] 398767002877 heme pocket [chemical binding]; other site 398767002878 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767002879 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002880 putative active site [active] 398767002881 heme pocket [chemical binding]; other site 398767002882 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002883 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767002884 putative active site [active] 398767002885 heme pocket [chemical binding]; other site 398767002886 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767002887 putative active site [active] 398767002888 heme pocket [chemical binding]; other site 398767002889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767002890 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 398767002891 dimer interface [polypeptide binding]; other site 398767002892 phosphorylation site [posttranslational modification] 398767002893 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 398767002894 ATP binding site [chemical binding]; other site 398767002895 Mg2+ binding site [ion binding]; other site 398767002896 G-X-G motif; other site 398767002897 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002898 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 398767002899 active site 398767002900 phosphorylation site [posttranslational modification] 398767002901 intermolecular recognition site; other site 398767002902 dimerization interface [polypeptide binding]; other site 398767002903 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002904 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 398767002905 active site 398767002906 phosphorylation site [posttranslational modification] 398767002907 intermolecular recognition site; other site 398767002908 dimerization interface [polypeptide binding]; other site 398767002909 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 398767002910 chlorohydrolase; Provisional; Region: PRK08418 398767002911 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 398767002912 active site 398767002913 Response regulator receiver domain; Region: Response_reg; pfam00072 398767002914 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 398767002915 active site 398767002916 phosphorylation site [posttranslational modification] 398767002917 intermolecular recognition site; other site 398767002918 dimerization interface [polypeptide binding]; other site 398767002919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767002920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767002921 metal binding site [ion binding]; metal-binding site 398767002922 active site 398767002923 I-site; other site 398767002924 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767002925 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 398767002926 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767002927 catalytic residue [active] 398767002928 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398767002929 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398767002930 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398767002931 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767002932 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767002933 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767002934 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398767002935 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 398767002936 Walker A motif; other site 398767002937 ATP binding site [chemical binding]; other site 398767002938 Walker B motif; other site 398767002939 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398767002940 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 398767002941 Predicted transcriptional regulator [Transcription]; Region: COG2932 398767002942 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 398767002943 Catalytic site [active] 398767002944 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 398767002945 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 398767002946 putative ribose interaction site [chemical binding]; other site 398767002947 putative ADP binding site [chemical binding]; other site 398767002948 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 398767002949 active site 398767002950 nucleotide binding site [chemical binding]; other site 398767002951 HIGH motif; other site 398767002952 KMSKS motif; other site 398767002953 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 398767002954 dimer interface [polypeptide binding]; other site 398767002955 active site 398767002956 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767002957 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 398767002958 active site 398767002959 rod shape-determining protein MreB; Provisional; Region: PRK13927 398767002960 MreB and similar proteins; Region: MreB_like; cd10225 398767002961 nucleotide binding site [chemical binding]; other site 398767002962 Mg binding site [ion binding]; other site 398767002963 putative protofilament interaction site [polypeptide binding]; other site 398767002964 RodZ interaction site [polypeptide binding]; other site 398767002965 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398767002966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398767002967 active site 398767002968 HIGH motif; other site 398767002969 nucleotide binding site [chemical binding]; other site 398767002970 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398767002971 active site 398767002972 KMSKS motif; other site 398767002973 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398767002974 tRNA binding surface [nucleotide binding]; other site 398767002975 anticodon binding site; other site 398767002976 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398767002977 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398767002978 lipoprotein signal peptidase; Provisional; Region: PRK14787 398767002979 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398767002980 endonuclease III; Region: ENDO3c; smart00478 398767002981 minor groove reading motif; other site 398767002982 helix-hairpin-helix signature motif; other site 398767002983 substrate binding pocket [chemical binding]; other site 398767002984 active site 398767002985 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 398767002986 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398767002987 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 398767002988 substrate binding site [chemical binding]; other site 398767002989 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 398767002990 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 398767002991 Protein of unknown function (DUF512); Region: DUF512; pfam04459 398767002992 bacterial Hfq-like; Region: Hfq; cd01716 398767002993 hexamer interface [polypeptide binding]; other site 398767002994 Sm1 motif; other site 398767002995 RNA binding site [nucleotide binding]; other site 398767002996 Sm2 motif; other site 398767002997 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398767002998 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398767002999 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 398767003000 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 398767003001 ATP binding site [chemical binding]; other site 398767003002 Mg2+ binding site [ion binding]; other site 398767003003 G-X-G motif; other site 398767003004 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 398767003005 ATP binding site [chemical binding]; other site 398767003006 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 398767003007 RNA methyltransferase, RsmE family; Region: TIGR00046 398767003008 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 398767003009 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 398767003010 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 398767003011 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 398767003012 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767003013 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 398767003014 active site 398767003015 phosphorylation site [posttranslational modification] 398767003016 intermolecular recognition site; other site 398767003017 dimerization interface [polypeptide binding]; other site 398767003018 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 398767003019 DNA binding site [nucleotide binding] 398767003020 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398767003021 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398767003022 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 398767003023 protein binding site [polypeptide binding]; other site 398767003024 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 398767003025 protein binding site [polypeptide binding]; other site 398767003026 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767003027 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003028 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 398767003029 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 398767003030 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398767003031 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 398767003032 active site 398767003033 purine riboside binding site [chemical binding]; other site 398767003034 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398767003035 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 398767003036 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398767003037 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 398767003038 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 398767003039 chaperone protein DnaJ; Provisional; Region: PRK14283 398767003040 reverse gyrase; Region: rgy; TIGR01054 398767003041 Winged helix-turn helix; Region: HTH_29; pfam13551 398767003042 Helix-turn-helix domain; Region: HTH_28; pfam13518 398767003043 Integrase core domain; Region: rve; pfam00665 398767003044 Integrase core domain; Region: rve_3; pfam13683 398767003045 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 398767003046 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398767003047 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 398767003048 Catalytic site [active] 398767003049 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 398767003050 dimer interface [polypeptide binding]; other site 398767003051 GTPase CgtA; Reviewed; Region: obgE; PRK12299 398767003052 GTP1/OBG; Region: GTP1_OBG; pfam01018 398767003053 Obg GTPase; Region: Obg; cd01898 398767003054 G1 box; other site 398767003055 GTP/Mg2+ binding site [chemical binding]; other site 398767003056 Switch I region; other site 398767003057 G2 box; other site 398767003058 G3 box; other site 398767003059 Switch II region; other site 398767003060 G4 box; other site 398767003061 G5 box; other site 398767003062 gamma-glutamyl kinase; Provisional; Region: PRK05429 398767003063 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 398767003064 nucleotide binding site [chemical binding]; other site 398767003065 homotetrameric interface [polypeptide binding]; other site 398767003066 putative phosphate binding site [ion binding]; other site 398767003067 putative allosteric binding site; other site 398767003068 PUA domain; Region: PUA; pfam01472 398767003069 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 398767003070 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398767003071 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398767003072 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 398767003073 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767003074 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398767003075 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 398767003076 DNA binding residues [nucleotide binding] 398767003077 DNA primase; Validated; Region: dnaG; PRK05667 398767003078 CHC2 zinc finger; Region: zf-CHC2; pfam01807 398767003079 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398767003080 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 398767003081 active site 398767003082 metal binding site [ion binding]; metal-binding site 398767003083 interdomain interaction site; other site 398767003084 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398767003085 Colicin V production protein; Region: Colicin_V; pfam02674 398767003086 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398767003087 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 398767003088 metal binding site [ion binding]; metal-binding site 398767003089 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 398767003090 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398767003091 substrate binding site [chemical binding]; other site 398767003092 glutamase interaction surface [polypeptide binding]; other site 398767003093 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 398767003094 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398767003095 catalytic residues [active] 398767003096 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 398767003097 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398767003098 putative active site [active] 398767003099 oxyanion strand; other site 398767003100 catalytic triad [active] 398767003101 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 398767003102 dimerization interface [polypeptide binding]; other site 398767003103 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767003104 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003105 dimer interface [polypeptide binding]; other site 398767003106 putative CheW interface [polypeptide binding]; other site 398767003107 Hemerythrin; Region: Hemerythrin; cd12107 398767003108 Fe binding site [ion binding]; other site 398767003109 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398767003110 DALR anticodon binding domain; Region: DALR_1; pfam05746 398767003111 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 398767003112 dimer interface [polypeptide binding]; other site 398767003113 motif 1; other site 398767003114 active site 398767003115 motif 2; other site 398767003116 motif 3; other site 398767003117 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398767003118 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 398767003119 dimer interface [polypeptide binding]; other site 398767003120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767003121 catalytic residue [active] 398767003122 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398767003123 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 398767003124 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 398767003125 RNA binding site [nucleotide binding]; other site 398767003126 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 398767003127 multimer interface [polypeptide binding]; other site 398767003128 Walker A motif; other site 398767003129 ATP binding site [chemical binding]; other site 398767003130 Walker B motif; other site 398767003131 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 398767003132 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 398767003133 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 398767003134 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398767003135 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398767003136 RF-1 domain; Region: RF-1; pfam00472 398767003137 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398767003138 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 398767003139 S-adenosylmethionine binding site [chemical binding]; other site 398767003140 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767003141 active site 398767003142 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398767003143 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398767003144 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398767003145 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398767003146 PAS domain S-box; Region: sensory_box; TIGR00229 398767003147 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767003148 putative active site [active] 398767003149 heme pocket [chemical binding]; other site 398767003150 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 398767003151 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398767003152 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 398767003153 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 398767003154 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 398767003155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767003156 Walker A/P-loop; other site 398767003157 ATP binding site [chemical binding]; other site 398767003158 Q-loop/lid; other site 398767003159 ABC transporter signature motif; other site 398767003160 Walker B; other site 398767003161 H-loop/switch region; other site 398767003162 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 398767003163 HDOD domain; Region: HDOD; pfam08668 398767003164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767003165 Zn2+ binding site [ion binding]; other site 398767003166 Mg2+ binding site [ion binding]; other site 398767003167 PilZ domain; Region: PilZ; pfam07238 398767003168 Nitrate and nitrite sensing; Region: NIT; pfam08376 398767003169 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 398767003170 dimerization interface [polypeptide binding]; other site 398767003171 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767003172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003173 dimer interface [polypeptide binding]; other site 398767003174 putative CheW interface [polypeptide binding]; other site 398767003175 Cytochrome c552; Region: Cytochrom_C552; pfam02335 398767003176 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 398767003177 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 398767003178 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 398767003179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767003180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767003181 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767003182 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767003183 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767003184 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767003185 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398767003186 FtsX-like permease family; Region: FtsX; pfam02687 398767003187 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767003188 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767003189 Walker A/P-loop; other site 398767003190 ATP binding site [chemical binding]; other site 398767003191 Q-loop/lid; other site 398767003192 ABC transporter signature motif; other site 398767003193 Walker B; other site 398767003194 D-loop; other site 398767003195 H-loop/switch region; other site 398767003196 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 398767003197 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767003198 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 398767003199 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398767003200 Uncharacterized conserved protein [Function unknown]; Region: COG1633 398767003201 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 398767003202 diiron binding motif [ion binding]; other site 398767003203 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398767003204 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 398767003205 catalytic triad [active] 398767003206 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767003207 putative active site [active] 398767003208 heme pocket [chemical binding]; other site 398767003209 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398767003210 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 398767003211 Walker A motif; other site 398767003212 ATP binding site [chemical binding]; other site 398767003213 Walker B motif; other site 398767003214 arginine finger; other site 398767003215 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767003216 NapD protein; Region: NapD; cl01163 398767003217 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 398767003218 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398767003219 [4Fe-4S] binding site [ion binding]; other site 398767003220 molybdopterin cofactor binding site; other site 398767003221 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 398767003222 molybdopterin cofactor binding site; other site 398767003223 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003224 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 398767003225 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767003226 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767003227 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003228 Cytochrome c552; Region: Cytochrom_C552; pfam02335 398767003229 PAS domain S-box; Region: sensory_box; TIGR00229 398767003230 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767003231 putative active site [active] 398767003232 heme pocket [chemical binding]; other site 398767003233 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767003234 PAS domain; Region: PAS_9; pfam13426 398767003235 putative active site [active] 398767003236 heme pocket [chemical binding]; other site 398767003237 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767003238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767003239 metal binding site [ion binding]; metal-binding site 398767003240 active site 398767003241 I-site; other site 398767003242 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 398767003243 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398767003244 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398767003245 catalytic triad [active] 398767003246 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398767003247 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 398767003248 NodB motif; other site 398767003249 putative active site [active] 398767003250 putative catalytic site [active] 398767003251 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398767003252 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 398767003253 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767003254 catalytic residue [active] 398767003255 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398767003256 Part of AAA domain; Region: AAA_19; pfam13245 398767003257 Family description; Region: UvrD_C_2; pfam13538 398767003258 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 398767003259 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398767003260 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 398767003261 Active Sites [active] 398767003262 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 398767003263 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 398767003264 CysD dimerization site [polypeptide binding]; other site 398767003265 G1 box; other site 398767003266 putative GEF interaction site [polypeptide binding]; other site 398767003267 GTP/Mg2+ binding site [chemical binding]; other site 398767003268 Switch I region; other site 398767003269 G2 box; other site 398767003270 G3 box; other site 398767003271 Switch II region; other site 398767003272 G4 box; other site 398767003273 G5 box; other site 398767003274 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 398767003275 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 398767003276 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 398767003277 ligand-binding site [chemical binding]; other site 398767003278 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398767003279 DNA polymerase IV; Reviewed; Region: PRK03103 398767003280 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398767003281 active site 398767003282 DNA binding site [nucleotide binding] 398767003283 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 398767003284 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398767003285 Class II fumarases; Region: Fumarase_classII; cd01362 398767003286 active site 398767003287 tetramer interface [polypeptide binding]; other site 398767003288 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 398767003289 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398767003290 EAL domain; Region: EAL; pfam00563 398767003291 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 398767003292 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 398767003293 TPP-binding site [chemical binding]; other site 398767003294 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 398767003295 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 398767003296 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 398767003297 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 398767003298 dimer interface [polypeptide binding]; other site 398767003299 PYR/PP interface [polypeptide binding]; other site 398767003300 TPP binding site [chemical binding]; other site 398767003301 substrate binding site [chemical binding]; other site 398767003302 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 398767003303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767003304 active site 398767003305 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 398767003306 putative chaperone; Provisional; Region: PRK11678 398767003307 nucleotide binding site [chemical binding]; other site 398767003308 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398767003309 SBD interface [polypeptide binding]; other site 398767003310 Caspase domain; Region: Peptidase_C14; pfam00656 398767003311 MltA-interacting protein MipA; Region: MipA; cl01504 398767003312 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398767003313 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 398767003314 active site 398767003315 phosphorylation site [posttranslational modification] 398767003316 intermolecular recognition site; other site 398767003317 dimerization interface [polypeptide binding]; other site 398767003318 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 398767003319 DNA binding site [nucleotide binding] 398767003320 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 398767003321 dimerization interface [polypeptide binding]; other site 398767003322 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 398767003323 dimer interface [polypeptide binding]; other site 398767003324 phosphorylation site [posttranslational modification] 398767003325 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 398767003326 ATP binding site [chemical binding]; other site 398767003327 Mg2+ binding site [ion binding]; other site 398767003328 G-X-G motif; other site 398767003329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767003330 active site 398767003331 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398767003332 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 398767003333 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767003334 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398767003335 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 398767003336 DNA binding residues [nucleotide binding] 398767003337 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 398767003338 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 398767003339 S-adenosylmethionine binding site [chemical binding]; other site 398767003340 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 398767003341 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 398767003342 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 398767003343 NAD(P) binding site [chemical binding]; other site 398767003344 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 398767003345 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398767003346 putative RNA binding site [nucleotide binding]; other site 398767003347 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 398767003348 S-adenosylmethionine binding site [chemical binding]; other site 398767003349 conserved hypothetical protein; Region: TIGR02231 398767003350 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 398767003351 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 398767003352 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 398767003353 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 398767003354 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 398767003355 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 398767003356 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767003357 Walker B motif; other site 398767003358 arginine finger; other site 398767003359 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398767003360 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398767003361 putative acyl-acceptor binding pocket; other site 398767003362 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767003363 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 398767003364 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767003365 catalytic residue [active] 398767003366 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 398767003367 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398767003368 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 398767003369 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 398767003370 active site 398767003371 Protein of unknown function (DUF502); Region: DUF502; cl01107 398767003372 Double zinc ribbon; Region: DZR; pfam12773 398767003373 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 398767003374 HNH endonuclease; Region: HNH_2; pfam13391 398767003375 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398767003376 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767003377 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 398767003378 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767003379 putative substrate translocation pore; other site 398767003380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398767003381 putative acyl-acceptor binding pocket; other site 398767003382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398767003383 acyl-activating enzyme (AAE) consensus motif; other site 398767003384 active site 398767003385 AMP binding site [chemical binding]; other site 398767003386 CoA binding site [chemical binding]; other site 398767003387 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 398767003388 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 398767003389 FeS/SAM binding site; other site 398767003390 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398767003391 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398767003392 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 398767003393 RNA binding surface [nucleotide binding]; other site 398767003394 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398767003395 active site 398767003396 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 398767003397 active site 398767003398 oxalacetate binding site [chemical binding]; other site 398767003399 citrylCoA binding site [chemical binding]; other site 398767003400 coenzyme A binding site [chemical binding]; other site 398767003401 catalytic triad [active] 398767003402 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 398767003403 active site 398767003404 oxalacetate binding site [chemical binding]; other site 398767003405 citrylCoA binding site [chemical binding]; other site 398767003406 coenzyme A binding site [chemical binding]; other site 398767003407 catalytic triad [active] 398767003408 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 398767003409 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398767003410 PYR/PP interface [polypeptide binding]; other site 398767003411 dimer interface [polypeptide binding]; other site 398767003412 TPP binding site [chemical binding]; other site 398767003413 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398767003414 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 398767003415 TPP-binding site [chemical binding]; other site 398767003416 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 398767003417 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767003418 N-terminal plug; other site 398767003419 ligand-binding site [chemical binding]; other site 398767003420 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767003421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767003422 HAMP domain; Region: HAMP; pfam00672 398767003423 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 398767003424 dimer interface [polypeptide binding]; other site 398767003425 phosphorylation site [posttranslational modification] 398767003426 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 398767003427 ATP binding site [chemical binding]; other site 398767003428 Mg2+ binding site [ion binding]; other site 398767003429 G-X-G motif; other site 398767003430 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767003431 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 398767003432 active site 398767003433 phosphorylation site [posttranslational modification] 398767003434 intermolecular recognition site; other site 398767003435 dimerization interface [polypeptide binding]; other site 398767003436 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 398767003437 active site 398767003438 phosphorylation site [posttranslational modification] 398767003439 intermolecular recognition site; other site 398767003440 dimerization interface [polypeptide binding]; other site 398767003441 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 398767003442 dimer interface [polypeptide binding]; other site 398767003443 phosphorylation site [posttranslational modification] 398767003444 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 398767003445 ATP binding site [chemical binding]; other site 398767003446 Mg2+ binding site [ion binding]; other site 398767003447 G-X-G motif; other site 398767003448 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 398767003449 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 398767003450 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 398767003451 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 398767003452 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 398767003453 dimerization interface [polypeptide binding]; other site 398767003454 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767003455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003456 dimer interface [polypeptide binding]; other site 398767003457 putative CheW interface [polypeptide binding]; other site 398767003458 Helix-turn-helix domain; Region: HTH_17; pfam12728 398767003459 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 398767003460 sequence-specific DNA binding site [nucleotide binding]; other site 398767003461 salt bridge; other site 398767003462 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 398767003463 non-specific DNA binding site [nucleotide binding]; other site 398767003464 salt bridge; other site 398767003465 sequence-specific DNA binding site [nucleotide binding]; other site 398767003466 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 398767003467 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398767003468 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398767003469 catalytic residues [active] 398767003470 catalytic nucleophile [active] 398767003471 Presynaptic Site I dimer interface [polypeptide binding]; other site 398767003472 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398767003473 Synaptic Flat tetramer interface [polypeptide binding]; other site 398767003474 Synaptic Site I dimer interface [polypeptide binding]; other site 398767003475 DNA binding site [nucleotide binding] 398767003476 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 398767003477 DNA-binding interface [nucleotide binding]; DNA binding site 398767003478 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 398767003479 non-specific DNA binding site [nucleotide binding]; other site 398767003480 salt bridge; other site 398767003481 sequence-specific DNA binding site [nucleotide binding]; other site 398767003482 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 398767003483 integrase; Provisional; Region: PRK09692 398767003484 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 398767003485 active site 398767003486 Int/Topo IB signature motif; other site 398767003487 Sporulation related domain; Region: SPOR; pfam05036 398767003488 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 398767003489 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 398767003490 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398767003491 active site 398767003492 HIGH motif; other site 398767003493 KMSK motif region; other site 398767003494 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398767003495 tRNA binding surface [nucleotide binding]; other site 398767003496 anticodon binding site; other site 398767003497 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 398767003498 Septum formation initiator; Region: DivIC; pfam04977 398767003499 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767003500 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 398767003501 NAD binding site [chemical binding]; other site 398767003502 putative substrate binding site 2 [chemical binding]; other site 398767003503 putative substrate binding site 1 [chemical binding]; other site 398767003504 active site 398767003505 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 398767003506 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398767003507 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398767003508 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398767003509 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 398767003510 Predicted methyltransferases [General function prediction only]; Region: COG0313 398767003511 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 398767003512 putative SAM binding site [chemical binding]; other site 398767003513 putative homodimer interface [polypeptide binding]; other site 398767003514 AMIN domain; Region: AMIN; pfam11741 398767003515 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398767003516 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 398767003517 active site 398767003518 metal binding site [ion binding]; metal-binding site 398767003519 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398767003520 MutS domain I; Region: MutS_I; pfam01624 398767003521 MutS domain II; Region: MutS_II; pfam05188 398767003522 MutS domain III; Region: MutS_III; pfam05192 398767003523 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 398767003524 Walker A/P-loop; other site 398767003525 ATP binding site [chemical binding]; other site 398767003526 Q-loop/lid; other site 398767003527 ABC transporter signature motif; other site 398767003528 Walker B; other site 398767003529 D-loop; other site 398767003530 H-loop/switch region; other site 398767003531 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767003532 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003533 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767003534 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003535 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398767003536 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767003537 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398767003538 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398767003539 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767003540 molybdopterin cofactor binding site; other site 398767003541 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767003542 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 398767003543 putative molybdopterin cofactor binding site; other site 398767003544 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767003545 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767003546 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 398767003547 active site 398767003548 phosphorylation site [posttranslational modification] 398767003549 intermolecular recognition site; other site 398767003550 dimerization interface [polypeptide binding]; other site 398767003551 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 398767003552 Walker A motif; other site 398767003553 ATP binding site [chemical binding]; other site 398767003554 Walker B motif; other site 398767003555 arginine finger; other site 398767003556 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767003557 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767003558 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 398767003559 dimerization interface [polypeptide binding]; other site 398767003560 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 398767003561 dimer interface [polypeptide binding]; other site 398767003562 phosphorylation site [posttranslational modification] 398767003563 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 398767003564 ATP binding site [chemical binding]; other site 398767003565 Mg2+ binding site [ion binding]; other site 398767003566 G-X-G motif; other site 398767003567 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767003568 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 398767003569 substrate binding pocket [chemical binding]; other site 398767003570 membrane-bound complex binding site; other site 398767003571 hinge residues; other site 398767003572 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 398767003573 dimerization interface [polypeptide binding]; other site 398767003574 putative DNA binding site [nucleotide binding]; other site 398767003575 putative Zn2+ binding site [ion binding]; other site 398767003576 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398767003577 arsenical-resistance protein; Region: acr3; TIGR00832 398767003578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767003579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767003580 metal binding site [ion binding]; metal-binding site 398767003581 active site 398767003582 I-site; other site 398767003583 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 398767003584 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398767003585 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398767003586 GTP binding site; other site 398767003587 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 398767003588 Walker A motif; other site 398767003589 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398767003590 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 398767003591 FeS/SAM binding site; other site 398767003592 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398767003593 MOSC domain; Region: MOSC; pfam03473 398767003594 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 398767003595 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398767003596 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 398767003597 active site residue [active] 398767003598 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 398767003599 active site residue [active] 398767003600 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398767003601 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398767003602 thiosulfate reductase PhsA; Provisional; Region: PRK15488 398767003603 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 398767003604 putative [Fe4-S4] binding site [ion binding]; other site 398767003605 putative molybdopterin cofactor binding site [chemical binding]; other site 398767003606 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 398767003607 putative molybdopterin cofactor binding site; other site 398767003608 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767003609 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 398767003610 active site 398767003611 phosphorylation site [posttranslational modification] 398767003612 intermolecular recognition site; other site 398767003613 dimerization interface [polypeptide binding]; other site 398767003614 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 398767003615 Walker A motif; other site 398767003616 ATP binding site [chemical binding]; other site 398767003617 Walker B motif; other site 398767003618 arginine finger; other site 398767003619 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767003620 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767003621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767003622 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767003623 putative active site [active] 398767003624 heme pocket [chemical binding]; other site 398767003625 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 398767003626 dimer interface [polypeptide binding]; other site 398767003627 phosphorylation site [posttranslational modification] 398767003628 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 398767003629 ATP binding site [chemical binding]; other site 398767003630 Mg2+ binding site [ion binding]; other site 398767003631 G-X-G motif; other site 398767003632 Uncharacterized conserved protein [Function unknown]; Region: COG1262 398767003633 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398767003634 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 398767003635 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398767003636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398767003637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767003638 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398767003639 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767003640 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767003641 Predicted permeases [General function prediction only]; Region: COG0701 398767003642 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 398767003643 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 398767003644 Ferredoxin [Energy production and conversion]; Region: COG1146 398767003645 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767003646 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398767003647 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 398767003648 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 398767003649 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398767003650 catalytic residues [active] 398767003651 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398767003652 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398767003653 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 398767003654 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 398767003655 active site residue [active] 398767003656 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 398767003657 dimerization interface [polypeptide binding]; other site 398767003658 putative DNA binding site [nucleotide binding]; other site 398767003659 putative Zn2+ binding site [ion binding]; other site 398767003660 Cation efflux family; Region: Cation_efflux; cl00316 398767003661 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398767003662 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398767003663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398767003664 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398767003665 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398767003666 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398767003667 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398767003668 Cytochrome c; Region: Cytochrom_C; cl11414 398767003669 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398767003670 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398767003671 interchain domain interface [polypeptide binding]; other site 398767003672 heme bL binding site [chemical binding]; other site 398767003673 intrachain domain interface; other site 398767003674 heme bH binding site [chemical binding]; other site 398767003675 Qo binding site; other site 398767003676 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 398767003677 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 398767003678 iron-sulfur cluster [ion binding]; other site 398767003679 [2Fe-2S] cluster binding site [ion binding]; other site 398767003680 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767003681 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398767003682 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; cl00125 398767003683 active site residue [active] 398767003684 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; cl00125 398767003685 active site residue [active] 398767003686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398767003687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767003688 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398767003689 dimerization interface [polypeptide binding]; other site 398767003690 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 398767003691 Ligand Binding Site [chemical binding]; other site 398767003692 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 398767003693 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398767003694 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398767003695 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 398767003696 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398767003697 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 398767003698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767003699 catalytic residue [active] 398767003700 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 398767003701 active site 398767003702 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398767003703 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 398767003704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767003705 catalytic residue [active] 398767003706 homoserine dehydrogenase; Provisional; Region: PRK06349 398767003707 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398767003708 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398767003709 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 398767003710 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 398767003711 putative RNA binding site [nucleotide binding]; other site 398767003712 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 398767003713 homopentamer interface [polypeptide binding]; other site 398767003714 active site 398767003715 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 398767003716 nitrogenase iron protein; Region: nifH; TIGR01287 398767003717 Nucleotide-binding sites [chemical binding]; other site 398767003718 Walker A motif; other site 398767003719 Switch I region of nucleotide binding site; other site 398767003720 Fe4S4 binding sites [ion binding]; other site 398767003721 Switch II region of nucleotide binding site; other site 398767003722 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 398767003723 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398767003724 MG2 domain; Region: A2M_N; pfam01835 398767003725 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 398767003726 Alpha-2-macroglobulin family; Region: A2M; pfam00207 398767003727 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 398767003728 surface patch; other site 398767003729 thioester region; other site 398767003730 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 398767003731 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 398767003732 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 398767003733 non-specific DNA binding site [nucleotide binding]; other site 398767003734 salt bridge; other site 398767003735 sequence-specific DNA binding site [nucleotide binding]; other site 398767003736 PIN domain; Region: PIN_3; pfam13470 398767003737 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 398767003738 AMMECR1; Region: AMMECR1; cl00911 398767003739 VanW like protein; Region: VanW; pfam04294 398767003740 G5 domain; Region: G5; pfam07501 398767003741 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 398767003742 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 398767003743 FeS/SAM binding site; other site 398767003744 HemN C-terminal domain; Region: HemN_C; pfam06969 398767003745 Cytochrome c; Region: Cytochrom_C; pfam00034 398767003746 LexA repressor; Validated; Region: PRK00215 398767003747 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 398767003748 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 398767003749 Catalytic site [active] 398767003750 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398767003751 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398767003752 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398767003753 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 398767003754 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767003755 FeS/SAM binding site; other site 398767003756 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 398767003757 OstA-like protein; Region: OstA; cl00844 398767003758 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398767003759 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 398767003760 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398767003761 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 398767003762 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398767003763 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 398767003764 substrate binding site [chemical binding]; other site 398767003765 active site 398767003766 catalytic residues [active] 398767003767 heterodimer interface [polypeptide binding]; other site 398767003768 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767003769 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 398767003770 dimerization interface [polypeptide binding]; other site 398767003771 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767003772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003773 dimer interface [polypeptide binding]; other site 398767003774 putative CheW interface [polypeptide binding]; other site 398767003775 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 398767003776 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767003777 catalytic residue [active] 398767003778 Rrf2 family protein; Region: rrf2_super; TIGR00738 398767003779 Transcriptional regulator; Region: Rrf2; pfam02082 398767003780 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 398767003781 ribonuclease R; Region: RNase_R; TIGR02063 398767003782 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 398767003783 RNA binding site [nucleotide binding]; other site 398767003784 RNB domain; Region: RNB; pfam00773 398767003785 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 398767003786 RNA binding site [nucleotide binding]; other site 398767003787 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 398767003788 hypothetical protein; Validated; Region: PRK00110 398767003789 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398767003790 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 398767003791 active site 398767003792 putative DNA-binding cleft [nucleotide binding]; other site 398767003793 dimer interface [polypeptide binding]; other site 398767003794 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398767003795 RuvA N terminal domain; Region: RuvA_N; pfam01330 398767003796 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 398767003797 Repair protein; Region: Repair_PSII; pfam04536 398767003798 LemA family; Region: LemA; pfam04011 398767003799 Uncharacterized conserved protein [Function unknown]; Region: COG4095 398767003800 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 398767003801 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 398767003802 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 398767003803 TPR motif; other site 398767003804 binding surface 398767003805 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 398767003806 TPR motif; other site 398767003807 binding surface 398767003808 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 398767003809 binding surface 398767003810 TPR motif; other site 398767003811 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767003812 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 398767003813 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398767003814 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398767003815 putative NAD(P) binding site [chemical binding]; other site 398767003816 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398767003817 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 398767003818 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398767003819 nucleotide binding site [chemical binding]; other site 398767003820 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398767003821 S-layer homology domain; Region: SLH; pfam00395 398767003822 outer membrane protein A; Reviewed; Region: PRK10808 398767003823 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 398767003824 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398767003825 Multicopper oxidase; Region: Cu-oxidase; pfam00394 398767003826 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398767003827 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 398767003828 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 398767003829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767003830 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 398767003831 DNA binding residues [nucleotide binding] 398767003832 Predicted integral membrane protein (DUF2275); Region: DUF2275; pfam10039 398767003833 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 398767003834 GspL periplasmic domain; Region: GspL_C; cl14909 398767003835 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 398767003836 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 398767003837 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 398767003838 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398767003839 type II secretion system protein F; Region: GspF; TIGR02120 398767003840 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767003841 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767003842 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767003843 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398767003844 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 398767003845 Walker A motif; other site 398767003846 ATP binding site [chemical binding]; other site 398767003847 Walker B motif; other site 398767003848 type II secretion system protein D; Region: type_II_gspD; TIGR02517 398767003849 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767003850 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767003851 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767003852 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398767003853 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 398767003854 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 398767003855 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 398767003856 protein binding site [polypeptide binding]; other site 398767003857 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 398767003858 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 398767003859 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 398767003860 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767003861 HAMP domain; Region: HAMP; pfam00672 398767003862 dimerization interface [polypeptide binding]; other site 398767003863 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767003864 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003865 dimer interface [polypeptide binding]; other site 398767003866 putative CheW interface [polypeptide binding]; other site 398767003867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767003868 dimer interface [polypeptide binding]; other site 398767003869 putative CheW interface [polypeptide binding]; other site 398767003870 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 398767003871 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398767003872 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 398767003873 dimerization interface [polypeptide binding]; other site 398767003874 active site 398767003875 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 398767003876 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767003877 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 398767003878 Walker A motif; other site 398767003879 ATP binding site [chemical binding]; other site 398767003880 Walker B motif; other site 398767003881 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767003882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767003883 Integrase core domain; Region: rve; pfam00665 398767003884 SnoaL-like domain; Region: SnoaL_4; pfam13577 398767003885 hypothetical protein; Validated; Region: PRK07121 398767003886 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 398767003887 Cytochrome c; Region: Cytochrom_C; cl11414 398767003888 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767003889 GAF domain; Region: GAF_3; pfam13492 398767003890 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398767003891 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 398767003892 Walker A motif; other site 398767003893 ATP binding site [chemical binding]; other site 398767003894 Walker B motif; other site 398767003895 arginine finger; other site 398767003896 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 398767003897 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 398767003898 active site 398767003899 catalytic triad [active] 398767003900 oxyanion hole [active] 398767003901 switch loop; other site 398767003902 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767003903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767003904 metal binding site [ion binding]; metal-binding site 398767003905 active site 398767003906 I-site; other site 398767003907 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 398767003908 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 398767003909 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398767003910 Serine hydrolase; Region: Ser_hydrolase; cl17834 398767003911 PAS fold; Region: PAS; pfam00989 398767003912 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398767003913 EamA-like transporter family; Region: EamA; pfam00892 398767003914 EamA-like transporter family; Region: EamA; pfam00892 398767003915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767003916 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 398767003917 dimer interface [polypeptide binding]; other site 398767003918 phosphorylation site [posttranslational modification] 398767003919 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 398767003920 ATP binding site [chemical binding]; other site 398767003921 Mg2+ binding site [ion binding]; other site 398767003922 G-X-G motif; other site 398767003923 CheD chemotactic sensory transduction; Region: CheD; cl00810 398767003924 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 398767003925 HDOD domain; Region: HDOD; pfam08668 398767003926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767003927 Zn2+ binding site [ion binding]; other site 398767003928 Mg2+ binding site [ion binding]; other site 398767003929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767003930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767003931 metal binding site [ion binding]; metal-binding site 398767003932 active site 398767003933 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 398767003934 Interdomain contacts; other site 398767003935 Cytokine receptor motif; other site 398767003936 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767003937 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767003938 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767003939 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767003940 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 398767003941 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 398767003942 dimerization interface [polypeptide binding]; other site 398767003943 active site 398767003944 Biotin operon repressor [Transcription]; Region: BirA; COG1654 398767003945 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 398767003946 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 398767003947 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398767003948 pantothenate kinase; Reviewed; Region: PRK13321 398767003949 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 398767003950 elongation factor G; Reviewed; Region: PRK12740 398767003951 G1 box; other site 398767003952 putative GEF interaction site [polypeptide binding]; other site 398767003953 GTP/Mg2+ binding site [chemical binding]; other site 398767003954 Switch I region; other site 398767003955 G2 box; other site 398767003956 G3 box; other site 398767003957 Switch II region; other site 398767003958 G4 box; other site 398767003959 G5 box; other site 398767003960 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 398767003961 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 398767003962 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 398767003963 Sporulation related domain; Region: SPOR; cl10051 398767003964 MgtC family; Region: MgtC; pfam02308 398767003965 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 398767003966 Phospholipid methyltransferase; Region: PEMT; cl17370 398767003967 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 398767003968 BON domain; Region: BON; pfam04972 398767003969 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 398767003970 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398767003971 active site 398767003972 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398767003973 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398767003974 endonuclease III; Region: ENDO3c; smart00478 398767003975 minor groove reading motif; other site 398767003976 helix-hairpin-helix signature motif; other site 398767003977 substrate binding pocket [chemical binding]; other site 398767003978 active site 398767003979 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398767003980 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398767003981 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 398767003982 acetyl-CoA acetyltransferase; Provisional; Region: PRK12578 398767003983 active site 398767003984 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398767003985 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 398767003986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767003987 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 398767003988 DNA binding residues [nucleotide binding] 398767003989 elongation factor Tu; Reviewed; Region: PRK00049 398767003990 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398767003991 G1 box; other site 398767003992 GEF interaction site [polypeptide binding]; other site 398767003993 GTP/Mg2+ binding site [chemical binding]; other site 398767003994 Switch I region; other site 398767003995 G2 box; other site 398767003996 G3 box; other site 398767003997 Switch II region; other site 398767003998 G4 box; other site 398767003999 G5 box; other site 398767004000 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 398767004001 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 398767004002 Antibiotic Binding Site [chemical binding]; other site 398767004003 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 398767004004 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 398767004005 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398767004006 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398767004007 putative homodimer interface [polypeptide binding]; other site 398767004008 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398767004009 heterodimer interface [polypeptide binding]; other site 398767004010 homodimer interface [polypeptide binding]; other site 398767004011 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398767004012 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 398767004013 23S rRNA interface [nucleotide binding]; other site 398767004014 L7/L12 interface [polypeptide binding]; other site 398767004015 putative thiostrepton binding site; other site 398767004016 L25 interface [polypeptide binding]; other site 398767004017 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 398767004018 mRNA/rRNA interface [nucleotide binding]; other site 398767004019 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 398767004020 23S rRNA interface [nucleotide binding]; other site 398767004021 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398767004022 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 398767004023 L11 interface [polypeptide binding]; other site 398767004024 putative EF-Tu interaction site [polypeptide binding]; other site 398767004025 putative EF-G interaction site [polypeptide binding]; other site 398767004026 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 398767004027 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 398767004028 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 398767004029 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 398767004030 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 398767004031 RPB3 interaction site [polypeptide binding]; other site 398767004032 RPB1 interaction site [polypeptide binding]; other site 398767004033 RPB11 interaction site [polypeptide binding]; other site 398767004034 RPB10 interaction site [polypeptide binding]; other site 398767004035 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398767004036 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 398767004037 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 398767004038 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398767004039 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398767004040 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 398767004041 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398767004042 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 398767004043 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398767004044 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398767004045 DNA binding site [nucleotide binding] 398767004046 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398767004047 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 398767004048 S17 interaction site [polypeptide binding]; other site 398767004049 S8 interaction site; other site 398767004050 16S rRNA interaction site [nucleotide binding]; other site 398767004051 streptomycin interaction site [chemical binding]; other site 398767004052 23S rRNA interaction site [nucleotide binding]; other site 398767004053 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398767004054 30S ribosomal protein S7; Validated; Region: PRK05302 398767004055 elongation factor G; Reviewed; Region: PRK00007 398767004056 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398767004057 G1 box; other site 398767004058 putative GEF interaction site [polypeptide binding]; other site 398767004059 GTP/Mg2+ binding site [chemical binding]; other site 398767004060 Switch I region; other site 398767004061 G2 box; other site 398767004062 G3 box; other site 398767004063 Switch II region; other site 398767004064 G4 box; other site 398767004065 G5 box; other site 398767004066 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 398767004067 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 398767004068 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 398767004069 elongation factor Tu; Reviewed; Region: PRK00049 398767004070 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398767004071 G1 box; other site 398767004072 GEF interaction site [polypeptide binding]; other site 398767004073 GTP/Mg2+ binding site [chemical binding]; other site 398767004074 Switch I region; other site 398767004075 G2 box; other site 398767004076 G3 box; other site 398767004077 Switch II region; other site 398767004078 G4 box; other site 398767004079 G5 box; other site 398767004080 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 398767004081 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 398767004082 Antibiotic Binding Site [chemical binding]; other site 398767004083 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 398767004084 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 398767004085 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 398767004086 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 398767004087 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398767004088 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398767004089 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398767004090 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 398767004091 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 398767004092 protein-rRNA interface [nucleotide binding]; other site 398767004093 putative translocon binding site; other site 398767004094 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398767004095 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 398767004096 G-X-X-G motif; other site 398767004097 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398767004098 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 398767004099 23S rRNA interface [nucleotide binding]; other site 398767004100 5S rRNA interface [nucleotide binding]; other site 398767004101 putative antibiotic binding site [chemical binding]; other site 398767004102 L25 interface [polypeptide binding]; other site 398767004103 L27 interface [polypeptide binding]; other site 398767004104 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 398767004105 23S rRNA interface [nucleotide binding]; other site 398767004106 putative translocon interaction site; other site 398767004107 signal recognition particle (SRP54) interaction site; other site 398767004108 L23 interface [polypeptide binding]; other site 398767004109 trigger factor interaction site; other site 398767004110 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 398767004111 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 398767004112 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398767004113 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 398767004114 RNA binding site [nucleotide binding]; other site 398767004115 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398767004116 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398767004117 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398767004118 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 398767004119 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 398767004120 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398767004121 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398767004122 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398767004123 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 398767004124 5S rRNA interface [nucleotide binding]; other site 398767004125 L27 interface [polypeptide binding]; other site 398767004126 23S rRNA interface [nucleotide binding]; other site 398767004127 L5 interface [polypeptide binding]; other site 398767004128 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398767004129 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398767004130 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398767004131 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 398767004132 23S rRNA binding site [nucleotide binding]; other site 398767004133 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 398767004134 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398767004135 SecY translocase; Region: SecY; pfam00344 398767004136 adenylate kinase; Reviewed; Region: adk; PRK00279 398767004137 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 398767004138 AMP-binding site [chemical binding]; other site 398767004139 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398767004140 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 398767004141 active site 398767004142 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 398767004143 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398767004144 30S ribosomal protein S13; Region: bact_S13; TIGR03631 398767004145 30S ribosomal protein S11; Validated; Region: PRK05309 398767004146 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398767004147 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398767004148 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 398767004149 RNA binding surface [nucleotide binding]; other site 398767004150 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398767004151 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398767004152 alphaNTD homodimer interface [polypeptide binding]; other site 398767004153 alphaNTD - beta interaction site [polypeptide binding]; other site 398767004154 alphaNTD - beta' interaction site [polypeptide binding]; other site 398767004155 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398767004156 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 398767004157 Protein of unknown function (DUF327); Region: DUF327; pfam03885 398767004158 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398767004159 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 398767004160 dimerization interface [polypeptide binding]; other site 398767004161 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004162 putative active site [active] 398767004163 heme pocket [chemical binding]; other site 398767004164 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 398767004165 dimer interface [polypeptide binding]; other site 398767004166 phosphorylation site [posttranslational modification] 398767004167 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 398767004168 ATP binding site [chemical binding]; other site 398767004169 Mg2+ binding site [ion binding]; other site 398767004170 G-X-G motif; other site 398767004171 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767004172 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 398767004173 active site 398767004174 phosphorylation site [posttranslational modification] 398767004175 intermolecular recognition site; other site 398767004176 dimerization interface [polypeptide binding]; other site 398767004177 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 398767004178 Walker A motif; other site 398767004179 ATP binding site [chemical binding]; other site 398767004180 Walker B motif; other site 398767004181 arginine finger; other site 398767004182 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767004183 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 398767004184 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398767004185 substrate binding site [chemical binding]; other site 398767004186 oxyanion hole (OAH) forming residues; other site 398767004187 trimer interface [polypeptide binding]; other site 398767004188 Saccharomyces cerevisiae (Sc) citrate synthase (CS)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS...; Region: ScCS-like; cd06103 398767004189 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 398767004190 dimer interface [polypeptide binding]; other site 398767004191 active site 398767004192 coenzyme A binding site [chemical binding]; other site 398767004193 citrylCoA binding site [chemical binding]; other site 398767004194 oxalacetate/citrate binding site [chemical binding]; other site 398767004195 catalytic triad [active] 398767004196 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398767004197 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398767004198 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 398767004199 active site 398767004200 Methyltransferase domain; Region: Methyltransf_18; pfam12847 398767004201 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 398767004202 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 398767004203 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 398767004204 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 398767004205 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398767004206 DNA binding residues [nucleotide binding] 398767004207 B12 binding domain; Region: B12-binding_2; pfam02607 398767004208 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 398767004209 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 398767004210 putative hydrophobic ligand binding site [chemical binding]; other site 398767004211 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 398767004212 ABC1 family; Region: ABC1; cl17513 398767004213 AMP-binding domain protein; Validated; Region: PRK08315 398767004214 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398767004215 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398767004216 acyl-activating enzyme (AAE) consensus motif; other site 398767004217 putative AMP binding site [chemical binding]; other site 398767004218 putative active site [active] 398767004219 putative CoA binding site [chemical binding]; other site 398767004220 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 398767004221 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767004222 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398767004223 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767004224 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398767004225 Protein export membrane protein; Region: SecD_SecF; cl14618 398767004226 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398767004227 FOG: CBS domain [General function prediction only]; Region: COG0517 398767004228 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 398767004229 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767004230 metal binding triad; other site 398767004231 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 398767004232 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398767004233 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398767004234 Bacterial transcriptional regulator; Region: IclR; pfam01614 398767004235 Protein of unknown function, DUF485; Region: DUF485; pfam04341 398767004236 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398767004237 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398767004238 Na binding site [ion binding]; other site 398767004239 Protein of unknown function, DUF485; Region: DUF485; pfam04341 398767004240 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398767004241 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398767004242 Na binding site [ion binding]; other site 398767004243 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767004244 metal binding triad; other site 398767004245 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 398767004246 Homeodomain-like domain; Region: HTH_23; cl17451 398767004247 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398767004248 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 398767004249 catalytic residues [active] 398767004250 catalytic nucleophile [active] 398767004251 Recombinase; Region: Recombinase; pfam07508 398767004252 ParB-like nuclease domain; Region: ParB; smart00470 398767004253 RepB plasmid partitioning protein; Region: RepB; pfam07506 398767004254 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 398767004255 ParB-like nuclease domain; Region: ParB; smart00470 398767004256 RepB plasmid partitioning protein; Region: RepB; pfam07506 398767004257 AAA domain; Region: AAA_22; pfam13401 398767004258 AAA domain; Region: AAA_30; pfam13604 398767004259 Family description; Region: UvrD_C_2; pfam13538 398767004260 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398767004261 Dynamin family; Region: Dynamin_N; pfam00350 398767004262 G1 box; other site 398767004263 GTP/Mg2+ binding site [chemical binding]; other site 398767004264 G2 box; other site 398767004265 Switch I region; other site 398767004266 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398767004267 G3 box; other site 398767004268 Switch II region; other site 398767004269 GTP/Mg2+ binding site [chemical binding]; other site 398767004270 G4 box; other site 398767004271 G5 box; other site 398767004272 Protein of unknown function (DUF445); Region: DUF445; pfam04286 398767004273 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 398767004274 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398767004275 Nucleoid-associated protein [General function prediction only]; Region: COG3081 398767004276 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 398767004277 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767004278 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 398767004279 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767004280 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 398767004281 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767004282 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 398767004283 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 398767004284 ATP binding site [chemical binding]; other site 398767004285 putative Mg++ binding site [ion binding]; other site 398767004286 nucleotide binding region [chemical binding]; other site 398767004287 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 398767004288 ATP-binding site [chemical binding]; other site 398767004289 Predicted transcriptional regulator [Transcription]; Region: COG5340 398767004290 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 398767004291 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767004292 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 398767004293 putative active site [active] 398767004294 putative metal binding site [ion binding]; other site 398767004295 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 398767004296 Integrase; Region: Integrase_1; pfam12835 398767004297 Helix-turn-helix domain; Region: HTH_36; pfam13730 398767004298 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 398767004299 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 398767004300 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 398767004301 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 398767004302 active site 398767004303 DNA binding site [nucleotide binding] 398767004304 Int/Topo IB signature motif; other site 398767004305 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 398767004306 active site 398767004307 Int/Topo IB signature motif; other site 398767004308 DNA binding site [nucleotide binding] 398767004309 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398767004310 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 398767004311 active site 398767004312 catalytic residues [active] 398767004313 DNA binding site [nucleotide binding] 398767004314 Int/Topo IB signature motif; other site 398767004315 HTH-like domain; Region: HTH_21; pfam13276 398767004316 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 398767004317 Integrase core domain; Region: rve; pfam00665 398767004318 Integrase core domain; Region: rve_3; pfam13683 398767004319 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398767004320 DNA-binding interface [nucleotide binding]; DNA binding site 398767004321 Winged helix-turn helix; Region: HTH_29; pfam13551 398767004322 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767004323 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 398767004324 Walker A motif; other site 398767004325 ATP binding site [chemical binding]; other site 398767004326 Walker B motif; other site 398767004327 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767004328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767004329 Integrase core domain; Region: rve; pfam00665 398767004330 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 398767004331 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 398767004332 dimer interface [polypeptide binding]; other site 398767004333 active site 398767004334 metal binding site [ion binding]; metal-binding site 398767004335 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 398767004336 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398767004337 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 398767004338 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398767004339 active site 398767004340 catalytic tetrad [active] 398767004341 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767004342 GAF domain; Region: GAF_3; pfam13492 398767004343 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398767004344 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 398767004345 Walker A motif; other site 398767004346 ATP binding site [chemical binding]; other site 398767004347 Walker B motif; other site 398767004348 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 398767004349 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767004350 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398767004351 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 398767004352 putative [Fe4-S4] binding site [ion binding]; other site 398767004353 putative molybdopterin cofactor binding site [chemical binding]; other site 398767004354 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767004355 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 398767004356 putative molybdopterin cofactor binding site; other site 398767004357 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 398767004358 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398767004359 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398767004360 catalytic residues [active] 398767004361 catalytic nucleophile [active] 398767004362 Presynaptic Site I dimer interface [polypeptide binding]; other site 398767004363 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398767004364 Synaptic Flat tetramer interface [polypeptide binding]; other site 398767004365 Synaptic Site I dimer interface [polypeptide binding]; other site 398767004366 DNA binding site [nucleotide binding] 398767004367 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398767004368 DNA-binding interface [nucleotide binding]; DNA binding site 398767004369 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398767004370 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398767004371 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767004372 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767004373 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398767004374 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767004375 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767004376 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767004377 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398767004378 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 398767004379 Walker A motif; other site 398767004380 ATP binding site [chemical binding]; other site 398767004381 Walker B motif; other site 398767004382 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398767004383 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398767004384 RHS Repeat; Region: RHS_repeat; cl11982 398767004385 RHS Repeat; Region: RHS_repeat; pfam05593 398767004386 RHS Repeat; Region: RHS_repeat; pfam05593 398767004387 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398767004388 RHS Repeat; Region: RHS_repeat; cl11982 398767004389 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 398767004390 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 398767004391 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398767004392 IPT/TIG domain; Region: TIG; pfam01833 398767004393 M6 family metalloprotease domain; Region: M6dom_TIGR03296 398767004394 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 398767004395 M6 family metalloprotease domain; Region: M6dom_TIGR03296 398767004396 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 398767004397 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398767004398 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398767004399 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398767004400 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398767004401 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398767004402 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398767004403 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767004404 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398767004405 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 398767004406 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 398767004407 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 398767004408 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767004409 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767004410 MG2 domain; Region: A2M_N; pfam01835 398767004411 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 398767004412 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 398767004413 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767004414 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767004415 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 398767004416 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398767004417 Secretin and TonB N terminus short domain; Region: STN; smart00965 398767004418 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767004419 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398767004420 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 398767004421 dockerin binding interface; other site 398767004422 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767004423 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767004424 Walker A/P-loop; other site 398767004425 ATP binding site [chemical binding]; other site 398767004426 Q-loop/lid; other site 398767004427 ABC transporter signature motif; other site 398767004428 Walker B; other site 398767004429 D-loop; other site 398767004430 H-loop/switch region; other site 398767004431 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 398767004432 FtsX-like permease family; Region: FtsX; pfam02687 398767004433 NosL; Region: NosL; pfam05573 398767004434 NosL; Region: NosL; cl01769 398767004435 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 398767004436 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767004437 N-terminal plug; other site 398767004438 ligand-binding site [chemical binding]; other site 398767004439 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767004440 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004441 putative active site [active] 398767004442 heme pocket [chemical binding]; other site 398767004443 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004444 putative active site [active] 398767004445 heme pocket [chemical binding]; other site 398767004446 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 398767004447 dimer interface [polypeptide binding]; other site 398767004448 phosphorylation site [posttranslational modification] 398767004449 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 398767004450 ATP binding site [chemical binding]; other site 398767004451 Mg2+ binding site [ion binding]; other site 398767004452 G-X-G motif; other site 398767004453 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767004454 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 398767004455 active site 398767004456 phosphorylation site [posttranslational modification] 398767004457 intermolecular recognition site; other site 398767004458 dimerization interface [polypeptide binding]; other site 398767004459 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 398767004460 Walker A motif; other site 398767004461 ATP binding site [chemical binding]; other site 398767004462 Walker B motif; other site 398767004463 arginine finger; other site 398767004464 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767004465 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004466 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 398767004467 active site 398767004468 phosphorylation site [posttranslational modification] 398767004469 intermolecular recognition site; other site 398767004470 dimerization interface [polypeptide binding]; other site 398767004471 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398767004472 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767004473 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 398767004474 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 398767004475 Cu(I) binding site [ion binding]; other site 398767004476 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 398767004477 ligand binding site [chemical binding]; other site 398767004478 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 398767004479 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398767004480 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 398767004481 Interdomain contacts; other site 398767004482 Cytokine receptor motif; other site 398767004483 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 398767004484 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398767004485 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398767004486 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 398767004487 inhibitor-cofactor binding pocket; inhibition site 398767004488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767004489 catalytic residue [active] 398767004490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767004491 NAD(P) binding site [chemical binding]; other site 398767004492 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398767004493 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398767004494 NADP-binding site; other site 398767004495 homotetramer interface [polypeptide binding]; other site 398767004496 substrate binding site [chemical binding]; other site 398767004497 homodimer interface [polypeptide binding]; other site 398767004498 active site 398767004499 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398767004500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767004501 Coenzyme A binding pocket [chemical binding]; other site 398767004502 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004503 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 398767004504 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004505 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 398767004506 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 398767004507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004508 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398767004509 MULE transposase domain; Region: MULE; pfam10551 398767004510 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 398767004511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004512 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 398767004513 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 398767004514 trimer interface [polypeptide binding]; other site 398767004515 active site 398767004516 substrate binding site [chemical binding]; other site 398767004517 CoA binding site [chemical binding]; other site 398767004518 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 398767004519 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 398767004520 active site 398767004521 dimer interface [polypeptide binding]; other site 398767004522 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 398767004523 Ligand Binding Site [chemical binding]; other site 398767004524 Molecular Tunnel; other site 398767004525 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 398767004526 trimer interface [polypeptide binding]; other site 398767004527 active site 398767004528 substrate binding site [chemical binding]; other site 398767004529 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 398767004530 CoA binding site [chemical binding]; other site 398767004531 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398767004532 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398767004533 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 398767004534 active site 398767004535 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 398767004536 homodimer interface [polypeptide binding]; other site 398767004537 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398767004538 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 398767004539 inhibitor-cofactor binding pocket; inhibition site 398767004540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767004541 catalytic residue [active] 398767004542 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 398767004543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767004544 NAD(P) binding site [chemical binding]; other site 398767004545 active site 398767004546 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398767004547 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 398767004548 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398767004549 putative trimer interface [polypeptide binding]; other site 398767004550 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 398767004551 putative CoA binding site [chemical binding]; other site 398767004552 putative trimer interface [polypeptide binding]; other site 398767004553 putative active site [active] 398767004554 putative substrate binding site [chemical binding]; other site 398767004555 putative CoA binding site [chemical binding]; other site 398767004556 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398767004557 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398767004558 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398767004559 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 398767004560 Chain length determinant protein; Region: Wzz; pfam02706 398767004561 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398767004562 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398767004563 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 398767004564 glutaminase active site [active] 398767004565 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 398767004566 dimer interface [polypeptide binding]; other site 398767004567 active site 398767004568 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 398767004569 dimer interface [polypeptide binding]; other site 398767004570 active site 398767004571 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 398767004572 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398767004573 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398767004574 NAD(P) binding site [chemical binding]; other site 398767004575 homodimer interface [polypeptide binding]; other site 398767004576 substrate binding site [chemical binding]; other site 398767004577 active site 398767004578 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 398767004579 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398767004580 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 398767004581 SLBB domain; Region: SLBB; pfam10531 398767004582 SLBB domain; Region: SLBB; pfam10531 398767004583 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398767004584 SLBB domain; Region: SLBB; pfam10531 398767004585 SLBB domain; Region: SLBB; pfam10531 398767004586 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 398767004587 PAP2_like_5 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_5; cd03394 398767004588 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398767004589 active site 398767004590 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767004591 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 398767004592 S-adenosylmethionine binding site [chemical binding]; other site 398767004593 Sulfatase; Region: Sulfatase; cl17466 398767004594 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767004595 active site 398767004596 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 398767004597 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 398767004598 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 398767004599 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398767004600 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767004601 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 398767004602 Walker A/P-loop; other site 398767004603 ATP binding site [chemical binding]; other site 398767004604 Q-loop/lid; other site 398767004605 ABC transporter signature motif; other site 398767004606 Walker B; other site 398767004607 D-loop; other site 398767004608 H-loop/switch region; other site 398767004609 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767004610 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 398767004611 Probable Catalytic site; other site 398767004612 metal-binding site 398767004613 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767004614 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767004615 Probable Catalytic site; other site 398767004616 metal-binding site 398767004617 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004618 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 398767004619 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767004620 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 398767004621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 398767004622 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 398767004623 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767004624 active site 398767004625 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767004626 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767004627 Probable Catalytic site; other site 398767004628 metal-binding site 398767004629 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398767004630 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 398767004631 transmembrane helices; other site 398767004632 TrkA-C domain; Region: TrkA_C; pfam02080 398767004633 TrkA-C domain; Region: TrkA_C; pfam02080 398767004634 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 398767004635 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398767004636 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 398767004637 Active Sites [active] 398767004638 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 398767004639 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 398767004640 CysD dimerization site [polypeptide binding]; other site 398767004641 G1 box; other site 398767004642 putative GEF interaction site [polypeptide binding]; other site 398767004643 GTP/Mg2+ binding site [chemical binding]; other site 398767004644 Switch I region; other site 398767004645 G2 box; other site 398767004646 G3 box; other site 398767004647 Switch II region; other site 398767004648 G4 box; other site 398767004649 G5 box; other site 398767004650 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 398767004651 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 398767004652 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 398767004653 ligand-binding site [chemical binding]; other site 398767004654 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398767004655 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 398767004656 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 398767004657 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767004658 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 398767004659 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 398767004660 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 398767004661 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398767004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767004663 NAD(P) binding site [chemical binding]; other site 398767004664 active site 398767004665 Sulfatase; Region: Sulfatase; cl17466 398767004666 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 398767004667 putative active site [active] 398767004668 putative substrate binding site [chemical binding]; other site 398767004669 putative cosubstrate binding site; other site 398767004670 catalytic site [active] 398767004671 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398767004672 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 398767004673 substrate-cofactor binding pocket; other site 398767004674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767004675 catalytic residue [active] 398767004676 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 398767004677 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398767004678 active site 398767004679 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 398767004680 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 398767004681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767004682 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 398767004683 Enoylreductase; Region: PKS_ER; smart00829 398767004684 NAD(P) binding site [chemical binding]; other site 398767004685 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 398767004686 KR domain; Region: KR; pfam08659 398767004687 putative NADP binding site [chemical binding]; other site 398767004688 active site 398767004689 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 398767004690 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 398767004691 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 398767004692 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 398767004693 ligand binding site; other site 398767004694 oligomer interface; other site 398767004695 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 398767004696 dimer interface [polypeptide binding]; other site 398767004697 N-terminal domain interface [polypeptide binding]; other site 398767004698 sulfate 1 binding site; other site 398767004699 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 398767004700 Ca2+ binding site [ion binding]; other site 398767004701 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398767004702 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 398767004703 active site 398767004704 phosphorylation site [posttranslational modification] 398767004705 intermolecular recognition site; other site 398767004706 dimerization interface [polypeptide binding]; other site 398767004707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767004708 Zn2+ binding site [ion binding]; other site 398767004709 Mg2+ binding site [ion binding]; other site 398767004710 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398767004711 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398767004712 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 398767004713 dimer interface [polypeptide binding]; other site 398767004714 phosphorylation site [posttranslational modification] 398767004715 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 398767004716 ATP binding site [chemical binding]; other site 398767004717 Mg2+ binding site [ion binding]; other site 398767004718 G-X-G motif; other site 398767004719 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767004720 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 398767004721 active site 398767004722 phosphorylation site [posttranslational modification] 398767004723 intermolecular recognition site; other site 398767004724 dimerization interface [polypeptide binding]; other site 398767004725 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004726 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 398767004727 active site 398767004728 phosphorylation site [posttranslational modification] 398767004729 intermolecular recognition site; other site 398767004730 dimerization interface [polypeptide binding]; other site 398767004731 Hpt domain; Region: Hpt; pfam01627 398767004732 putative binding surface; other site 398767004733 active site 398767004734 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767004735 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004736 putative active site [active] 398767004737 heme pocket [chemical binding]; other site 398767004738 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 398767004739 dimer interface [polypeptide binding]; other site 398767004740 phosphorylation site [posttranslational modification] 398767004741 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 398767004742 ATP binding site [chemical binding]; other site 398767004743 Mg2+ binding site [ion binding]; other site 398767004744 G-X-G motif; other site 398767004745 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004746 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 398767004747 active site 398767004748 phosphorylation site [posttranslational modification] 398767004749 intermolecular recognition site; other site 398767004750 dimerization interface [polypeptide binding]; other site 398767004751 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 398767004752 Cache domain; Region: Cache_1; pfam02743 398767004753 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 398767004754 dimerization interface [polypeptide binding]; other site 398767004755 PAS domain S-box; Region: sensory_box; TIGR00229 398767004756 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004757 putative active site [active] 398767004758 heme pocket [chemical binding]; other site 398767004759 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767004760 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004761 putative active site [active] 398767004762 heme pocket [chemical binding]; other site 398767004763 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 398767004764 dimer interface [polypeptide binding]; other site 398767004765 phosphorylation site [posttranslational modification] 398767004766 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 398767004767 ATP binding site [chemical binding]; other site 398767004768 Mg2+ binding site [ion binding]; other site 398767004769 G-X-G motif; other site 398767004770 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004771 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 398767004772 active site 398767004773 phosphorylation site [posttranslational modification] 398767004774 intermolecular recognition site; other site 398767004775 dimerization interface [polypeptide binding]; other site 398767004776 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 398767004777 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398767004778 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 398767004779 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398767004780 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767004781 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767004782 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 398767004783 nickel binding site [ion binding]; other site 398767004784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767004785 dimer interface [polypeptide binding]; other site 398767004786 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767004787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767004788 dimer interface [polypeptide binding]; other site 398767004789 putative CheW interface [polypeptide binding]; other site 398767004790 putative CheW interface [polypeptide binding]; other site 398767004791 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004792 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 398767004793 active site 398767004794 phosphorylation site [posttranslational modification] 398767004795 intermolecular recognition site; other site 398767004796 dimerization interface [polypeptide binding]; other site 398767004797 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398767004798 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398767004799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398767004800 Histidine kinase; Region: HisKA_3; pfam07730 398767004801 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 398767004802 ATP binding site [chemical binding]; other site 398767004803 Mg2+ binding site [ion binding]; other site 398767004804 G-X-G motif; other site 398767004805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398767004806 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 398767004807 active site 398767004808 phosphorylation site [posttranslational modification] 398767004809 intermolecular recognition site; other site 398767004810 dimerization interface [polypeptide binding]; other site 398767004811 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 398767004812 DNA binding residues [nucleotide binding] 398767004813 dimerization interface [polypeptide binding]; other site 398767004814 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 398767004815 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004816 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 398767004817 active site 398767004818 phosphorylation site [posttranslational modification] 398767004819 intermolecular recognition site; other site 398767004820 dimerization interface [polypeptide binding]; other site 398767004821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398767004822 Histidine kinase; Region: HisKA_3; pfam07730 398767004823 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 398767004824 ATP binding site [chemical binding]; other site 398767004825 Mg2+ binding site [ion binding]; other site 398767004826 G-X-G motif; other site 398767004827 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398767004828 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 398767004829 active site 398767004830 phosphorylation site [posttranslational modification] 398767004831 intermolecular recognition site; other site 398767004832 dimerization interface [polypeptide binding]; other site 398767004833 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 398767004834 DNA binding residues [nucleotide binding] 398767004835 dimerization interface [polypeptide binding]; other site 398767004836 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767004837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 398767004838 active site 398767004839 phosphorylation site [posttranslational modification] 398767004840 intermolecular recognition site; other site 398767004841 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 398767004842 dimer interface [polypeptide binding]; other site 398767004843 phosphorylation site [posttranslational modification] 398767004844 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 398767004845 ATP binding site [chemical binding]; other site 398767004846 Mg2+ binding site [ion binding]; other site 398767004847 G-X-G motif; other site 398767004848 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004849 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 398767004850 active site 398767004851 phosphorylation site [posttranslational modification] 398767004852 intermolecular recognition site; other site 398767004853 dimerization interface [polypeptide binding]; other site 398767004854 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 398767004855 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004856 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 398767004857 active site 398767004858 phosphorylation site [posttranslational modification] 398767004859 intermolecular recognition site; other site 398767004860 dimerization interface [polypeptide binding]; other site 398767004861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767004862 Zn2+ binding site [ion binding]; other site 398767004863 Mg2+ binding site [ion binding]; other site 398767004864 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004865 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 398767004866 active site 398767004867 phosphorylation site [posttranslational modification] 398767004868 intermolecular recognition site; other site 398767004869 dimerization interface [polypeptide binding]; other site 398767004870 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398767004871 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 398767004872 active site 398767004873 phosphorylation site [posttranslational modification] 398767004874 intermolecular recognition site; other site 398767004875 dimerization interface [polypeptide binding]; other site 398767004876 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 398767004877 DNA binding residues [nucleotide binding] 398767004878 dimerization interface [polypeptide binding]; other site 398767004879 PAS domain; Region: PAS_9; pfam13426 398767004880 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004881 putative active site [active] 398767004882 heme pocket [chemical binding]; other site 398767004883 GAF domain; Region: GAF_2; pfam13185 398767004884 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767004885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767004886 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 398767004887 dimer interface [polypeptide binding]; other site 398767004888 phosphorylation site [posttranslational modification] 398767004889 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 398767004890 ATP binding site [chemical binding]; other site 398767004891 Mg2+ binding site [ion binding]; other site 398767004892 G-X-G motif; other site 398767004893 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004894 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 398767004895 active site 398767004896 phosphorylation site [posttranslational modification] 398767004897 intermolecular recognition site; other site 398767004898 dimerization interface [polypeptide binding]; other site 398767004899 Response regulator receiver domain; Region: Response_reg; pfam00072 398767004900 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 398767004901 active site 398767004902 phosphorylation site [posttranslational modification] 398767004903 intermolecular recognition site; other site 398767004904 dimerization interface [polypeptide binding]; other site 398767004905 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767004906 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 398767004907 dimerization interface [polypeptide binding]; other site 398767004908 PAS fold; Region: PAS_4; pfam08448 398767004909 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767004910 putative active site [active] 398767004911 heme pocket [chemical binding]; other site 398767004912 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767004913 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 398767004914 dimer interface [polypeptide binding]; other site 398767004915 phosphorylation site [posttranslational modification] 398767004916 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 398767004917 ATP binding site [chemical binding]; other site 398767004918 Mg2+ binding site [ion binding]; other site 398767004919 G-X-G motif; other site 398767004920 Sulphur transport; Region: Sulf_transp; pfam04143 398767004921 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 398767004922 CPxP motif; other site 398767004923 PAS fold; Region: PAS_4; pfam08448 398767004924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767004925 metal binding site [ion binding]; metal-binding site 398767004926 active site 398767004927 I-site; other site 398767004928 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 398767004929 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 398767004930 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 398767004931 catalytic residues [active] 398767004932 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 398767004933 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 398767004934 active site 398767004935 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 398767004936 PIN domain; Region: PIN; pfam01850 398767004937 putative active site [active] 398767004938 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 398767004939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767004940 Zn2+ binding site [ion binding]; other site 398767004941 Mg2+ binding site [ion binding]; other site 398767004942 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398767004943 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 398767004944 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398767004945 5'-nucleotidase; Provisional; Region: PRK03826 398767004946 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 398767004947 Flagellin N-methylase; Region: FliB; cl00497 398767004948 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 398767004949 CHASE2 domain; Region: CHASE2; pfam05226 398767004950 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398767004951 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398767004952 active site 398767004953 ATP binding site [chemical binding]; other site 398767004954 substrate binding site [chemical binding]; other site 398767004955 activation loop (A-loop); other site 398767004956 Protein phosphatase 2C; Region: PP2C; pfam00481 398767004957 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 398767004958 active site 398767004959 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 398767004960 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 398767004961 phosphopeptide binding site; other site 398767004962 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 398767004963 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398767004964 Tetramer interface [polypeptide binding]; other site 398767004965 active site 398767004966 FMN-binding site [chemical binding]; other site 398767004967 shikimate kinase; Reviewed; Region: aroK; PRK00131 398767004968 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 398767004969 ADP binding site [chemical binding]; other site 398767004970 magnesium binding site [ion binding]; other site 398767004971 putative shikimate binding site; other site 398767004972 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398767004973 dimer interface [polypeptide binding]; other site 398767004974 active site 398767004975 metal binding site [ion binding]; metal-binding site 398767004976 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767004977 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 398767004978 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767004979 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 398767004980 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398767004981 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 398767004982 trimer interface [polypeptide binding]; other site 398767004983 active site 398767004984 dimer interface [polypeptide binding]; other site 398767004985 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398767004986 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398767004987 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 398767004988 active site 398767004989 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398767004990 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 398767004991 carboxyltransferase (CT) interaction site; other site 398767004992 biotinylation site [posttranslational modification]; other site 398767004993 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398767004994 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398767004995 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398767004996 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398767004997 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 398767004998 lipoyl attachment site [posttranslational modification]; other site 398767004999 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398767005000 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 398767005001 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767005002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767005003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767005004 metal binding site [ion binding]; metal-binding site 398767005005 active site 398767005006 I-site; other site 398767005007 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 398767005008 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 398767005009 nudix motif; other site 398767005010 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398767005011 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 398767005012 active site 398767005013 substrate binding site [chemical binding]; other site 398767005014 metal binding site [ion binding]; metal-binding site 398767005015 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 398767005016 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398767005017 trimerization site [polypeptide binding]; other site 398767005018 active site 398767005019 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398767005020 NifU-like domain; Region: NifU; cl00484 398767005021 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398767005022 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398767005023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767005024 catalytic residue [active] 398767005025 FOG: WD40 repeat [General function prediction only]; Region: COG2319 398767005026 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 398767005027 structural tetrad; other site 398767005028 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 398767005029 Caspase domain; Region: Peptidase_C14; pfam00656 398767005030 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 398767005031 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398767005032 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398767005033 E3 interaction surface; other site 398767005034 lipoyl attachment site [posttranslational modification]; other site 398767005035 e3 binding domain; Region: E3_binding; pfam02817 398767005036 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398767005037 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 398767005038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398767005039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398767005040 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398767005041 aconitate hydratase; Validated; Region: PRK07229 398767005042 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 398767005043 substrate binding site [chemical binding]; other site 398767005044 ligand binding site [chemical binding]; other site 398767005045 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 398767005046 substrate binding site [chemical binding]; other site 398767005047 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 398767005048 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 398767005049 domain interfaces; other site 398767005050 active site 398767005051 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398767005052 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398767005053 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 398767005054 motif II; other site 398767005055 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 398767005056 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398767005057 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398767005058 Phosphoglycerate kinase; Region: PGK; pfam00162 398767005059 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 398767005060 substrate binding site [chemical binding]; other site 398767005061 hinge regions; other site 398767005062 ADP binding site [chemical binding]; other site 398767005063 catalytic site [active] 398767005064 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 398767005065 triosephosphate isomerase; Provisional; Region: PRK14565 398767005066 substrate binding site [chemical binding]; other site 398767005067 dimer interface [polypeptide binding]; other site 398767005068 catalytic triad [active] 398767005069 Preprotein translocase SecG subunit; Region: SecG; pfam03840 398767005070 GTP-binding protein LepA; Provisional; Region: PRK05433 398767005071 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398767005072 G1 box; other site 398767005073 putative GEF interaction site [polypeptide binding]; other site 398767005074 GTP/Mg2+ binding site [chemical binding]; other site 398767005075 Switch I region; other site 398767005076 G2 box; other site 398767005077 G3 box; other site 398767005078 Switch II region; other site 398767005079 G4 box; other site 398767005080 G5 box; other site 398767005081 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 398767005082 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 398767005083 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398767005084 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398767005085 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 398767005086 Catalytic site [active] 398767005087 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398767005088 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 398767005089 dimer interface [polypeptide binding]; other site 398767005090 anticodon binding site; other site 398767005091 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 398767005092 homodimer interface [polypeptide binding]; other site 398767005093 motif 1; other site 398767005094 active site 398767005095 motif 2; other site 398767005096 GAD domain; Region: GAD; pfam02938 398767005097 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 398767005098 motif 3; other site 398767005099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767005100 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 398767005101 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 398767005102 malate dehydrogenase; Reviewed; Region: PRK06223 398767005103 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 398767005104 NAD(P) binding site [chemical binding]; other site 398767005105 dimer interface [polypeptide binding]; other site 398767005106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398767005107 substrate binding site [chemical binding]; other site 398767005108 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767005109 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398767005110 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 398767005111 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 398767005112 dimer interface [polypeptide binding]; other site 398767005113 PYR/PP interface [polypeptide binding]; other site 398767005114 TPP binding site [chemical binding]; other site 398767005115 substrate binding site [chemical binding]; other site 398767005116 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 398767005117 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 398767005118 TPP-binding site [chemical binding]; other site 398767005119 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 398767005120 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 398767005121 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398767005122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767005123 NAD(P) binding site [chemical binding]; other site 398767005124 active site 398767005125 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398767005126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767005127 putative substrate translocation pore; other site 398767005128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767005129 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398767005130 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767005131 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767005132 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398767005133 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398767005134 MarR family; Region: MarR; pfam01047 398767005135 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398767005136 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 398767005137 TPP-binding site [chemical binding]; other site 398767005138 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 398767005139 dimer interface [polypeptide binding]; other site 398767005140 PYR/PP interface [polypeptide binding]; other site 398767005141 TPP binding site [chemical binding]; other site 398767005142 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 398767005143 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767005144 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 398767005145 Walker A motif; other site 398767005146 ATP binding site [chemical binding]; other site 398767005147 Walker B motif; other site 398767005148 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 398767005149 non-specific DNA binding site [nucleotide binding]; other site 398767005150 salt bridge; other site 398767005151 sequence-specific DNA binding site [nucleotide binding]; other site 398767005152 Competence protein A; Region: Competence_A; pfam11104 398767005153 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 398767005154 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 398767005155 Pilus assembly protein, PilO; Region: PilO; pfam04350 398767005156 Pilus assembly protein, PilP; Region: PilP; pfam04351 398767005157 AMIN domain; Region: AMIN; pfam11741 398767005158 AMIN domain; Region: AMIN; pfam11741 398767005159 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398767005160 Secretin and TonB N terminus short domain; Region: STN; smart00965 398767005161 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398767005162 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398767005163 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 398767005164 Chorismate mutase type II; Region: CM_2; pfam01817 398767005165 L-aspartate oxidase; Provisional; Region: PRK09077 398767005166 L-aspartate oxidase; Provisional; Region: PRK06175 398767005167 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398767005168 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398767005169 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398767005170 active site 398767005171 Riboflavin kinase; Region: Flavokinase; smart00904 398767005172 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 398767005173 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 398767005174 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398767005175 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398767005176 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398767005177 NAD(P) binding site [chemical binding]; other site 398767005178 shikimate binding site; other site 398767005179 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 398767005180 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767005181 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 398767005182 Walker A motif; other site 398767005183 ATP binding site [chemical binding]; other site 398767005184 Walker B motif; other site 398767005185 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398767005186 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 398767005187 Walker A motif; other site 398767005188 ATP binding site [chemical binding]; other site 398767005189 Walker B motif; other site 398767005190 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398767005191 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767005192 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398767005193 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398767005194 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767005195 PAS domain; Region: PAS; smart00091 398767005196 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 398767005197 dimer interface [polypeptide binding]; other site 398767005198 phosphorylation site [posttranslational modification] 398767005199 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 398767005200 ATP binding site [chemical binding]; other site 398767005201 Mg2+ binding site [ion binding]; other site 398767005202 G-X-G motif; other site 398767005203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767005204 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 398767005205 active site 398767005206 phosphorylation site [posttranslational modification] 398767005207 intermolecular recognition site; other site 398767005208 dimerization interface [polypeptide binding]; other site 398767005209 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 398767005210 Walker A motif; other site 398767005211 ATP binding site [chemical binding]; other site 398767005212 Walker B motif; other site 398767005213 arginine finger; other site 398767005214 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767005215 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 398767005216 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398767005217 NAD binding site [chemical binding]; other site 398767005218 substrate binding site [chemical binding]; other site 398767005219 homodimer interface [polypeptide binding]; other site 398767005220 active site 398767005221 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398767005222 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398767005223 NADP binding site [chemical binding]; other site 398767005224 active site 398767005225 putative substrate binding site [chemical binding]; other site 398767005226 Cupin domain; Region: Cupin_2; cl17218 398767005227 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 398767005228 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398767005229 Substrate binding site; other site 398767005230 Cupin domain; Region: Cupin_2; cl17218 398767005231 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398767005232 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 398767005233 substrate-cofactor binding pocket; other site 398767005234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767005235 catalytic residue [active] 398767005236 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398767005237 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398767005238 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 398767005239 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 398767005240 S-adenosylmethionine binding site [chemical binding]; other site 398767005241 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 398767005242 dimerization interface [polypeptide binding]; other site 398767005243 putative DNA binding site [nucleotide binding]; other site 398767005244 putative Zn2+ binding site [ion binding]; other site 398767005245 ribosome maturation protein RimP; Reviewed; Region: PRK00092 398767005246 Sm and related proteins; Region: Sm_like; cl00259 398767005247 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 398767005248 putative oligomer interface [polypeptide binding]; other site 398767005249 putative RNA binding site [nucleotide binding]; other site 398767005250 NusA N-terminal domain; Region: NusA_N; pfam08529 398767005251 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 398767005252 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 398767005253 RNA binding site [nucleotide binding]; other site 398767005254 homodimer interface [polypeptide binding]; other site 398767005255 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 398767005256 G-X-X-G motif; other site 398767005257 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 398767005258 G-X-X-G motif; other site 398767005259 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 398767005260 putative RNA binding cleft [nucleotide binding]; other site 398767005261 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 398767005262 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398767005263 translation initiation factor IF-2; Region: IF-2; TIGR00487 398767005264 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398767005265 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398767005266 G1 box; other site 398767005267 putative GEF interaction site [polypeptide binding]; other site 398767005268 GTP/Mg2+ binding site [chemical binding]; other site 398767005269 Switch I region; other site 398767005270 G2 box; other site 398767005271 G3 box; other site 398767005272 Switch II region; other site 398767005273 G4 box; other site 398767005274 G5 box; other site 398767005275 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 398767005276 Translation-initiation factor 2; Region: IF-2; pfam11987 398767005277 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 398767005278 ribosome-binding factor A; Provisional; Region: PRK13815 398767005279 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 398767005280 DHH family; Region: DHH; pfam01368 398767005281 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 398767005282 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398767005283 RNA binding site [nucleotide binding]; other site 398767005284 active site 398767005285 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 398767005286 16S/18S rRNA binding site [nucleotide binding]; other site 398767005287 S13e-L30e interaction site [polypeptide binding]; other site 398767005288 25S rRNA binding site [nucleotide binding]; other site 398767005289 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398767005290 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398767005291 RNase E interface [polypeptide binding]; other site 398767005292 trimer interface [polypeptide binding]; other site 398767005293 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398767005294 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398767005295 RNase E interface [polypeptide binding]; other site 398767005296 trimer interface [polypeptide binding]; other site 398767005297 active site 398767005298 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 398767005299 putative nucleic acid binding region [nucleotide binding]; other site 398767005300 G-X-X-G motif; other site 398767005301 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 398767005302 RNA binding site [nucleotide binding]; other site 398767005303 domain interface; other site 398767005304 arginine decarboxylase; Provisional; Region: PRK05354 398767005305 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 398767005306 active site 398767005307 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398767005308 catalytic residues [active] 398767005309 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 398767005310 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 398767005311 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 398767005312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 398767005313 dimer interface [polypeptide binding]; other site 398767005314 active site 398767005315 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398767005316 catalytic residues [active] 398767005317 substrate binding site [chemical binding]; other site 398767005318 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 398767005319 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 398767005320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398767005321 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398767005322 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398767005323 Transposase domain (DUF772); Region: DUF772; pfam05598 398767005324 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767005325 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767005326 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767005327 Predicted transcriptional regulator [Transcription]; Region: COG3905 398767005328 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 398767005329 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005330 PAS domain; Region: PAS_9; pfam13426 398767005331 putative active site [active] 398767005332 heme pocket [chemical binding]; other site 398767005333 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 398767005334 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398767005335 Walker A motif; other site 398767005336 ATP binding site [chemical binding]; other site 398767005337 Walker B motif; other site 398767005338 arginine finger; other site 398767005339 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398767005340 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767005341 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 398767005342 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 398767005343 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 398767005344 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 398767005345 P loop nucleotide binding; other site 398767005346 switch II; other site 398767005347 Ferredoxin [Energy production and conversion]; Region: COG1146 398767005348 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 398767005349 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 398767005350 switch II; other site 398767005351 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398767005352 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 398767005353 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 398767005354 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 398767005355 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398767005356 tetramerization interface [polypeptide binding]; other site 398767005357 NAD(P) binding site [chemical binding]; other site 398767005358 catalytic residues [active] 398767005359 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 398767005360 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767005361 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 398767005362 active site 398767005363 phosphorylation site [posttranslational modification] 398767005364 intermolecular recognition site; other site 398767005365 dimerization interface [polypeptide binding]; other site 398767005366 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 398767005367 Walker A motif; other site 398767005368 ATP binding site [chemical binding]; other site 398767005369 Walker B motif; other site 398767005370 arginine finger; other site 398767005371 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767005372 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 398767005373 dimerization interface [polypeptide binding]; other site 398767005374 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 398767005375 dimer interface [polypeptide binding]; other site 398767005376 phosphorylation site [posttranslational modification] 398767005377 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 398767005378 ATP binding site [chemical binding]; other site 398767005379 Mg2+ binding site [ion binding]; other site 398767005380 G-X-G motif; other site 398767005381 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398767005382 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398767005383 dimer interface [polypeptide binding]; other site 398767005384 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398767005385 catalytic triad [active] 398767005386 peroxidatic and resolving cysteines [active] 398767005387 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 398767005388 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 398767005389 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767005390 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767005391 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767005392 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767005393 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 398767005394 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 398767005395 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 398767005396 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398767005397 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767005398 heme-binding residues [chemical binding]; other site 398767005399 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005400 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 398767005401 active site 398767005402 phosphorylation site [posttranslational modification] 398767005403 intermolecular recognition site; other site 398767005404 dimerization interface [polypeptide binding]; other site 398767005405 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398767005406 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398767005407 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398767005408 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767005409 cheY-homologous receiver domain; Region: REC; smart00448 398767005410 active site 398767005411 phosphorylation site [posttranslational modification] 398767005412 intermolecular recognition site; other site 398767005413 dimerization interface [polypeptide binding]; other site 398767005414 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767005415 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005416 putative active site [active] 398767005417 heme pocket [chemical binding]; other site 398767005418 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 398767005419 dimer interface [polypeptide binding]; other site 398767005420 phosphorylation site [posttranslational modification] 398767005421 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 398767005422 ATP binding site [chemical binding]; other site 398767005423 Mg2+ binding site [ion binding]; other site 398767005424 G-X-G motif; other site 398767005425 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767005426 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767005427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398767005428 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398767005429 putative active site [active] 398767005430 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 398767005431 PA/protease or protease-like domain interface [polypeptide binding]; other site 398767005432 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398767005433 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 398767005434 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 398767005435 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 398767005436 dimerization interface [polypeptide binding]; other site 398767005437 PAS fold; Region: PAS_4; pfam08448 398767005438 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398767005439 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767005440 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005441 putative active site [active] 398767005442 heme pocket [chemical binding]; other site 398767005443 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 398767005444 dimer interface [polypeptide binding]; other site 398767005445 phosphorylation site [posttranslational modification] 398767005446 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 398767005447 ATP binding site [chemical binding]; other site 398767005448 Mg2+ binding site [ion binding]; other site 398767005449 G-X-G motif; other site 398767005450 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005451 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 398767005452 active site 398767005453 phosphorylation site [posttranslational modification] 398767005454 intermolecular recognition site; other site 398767005455 dimerization interface [polypeptide binding]; other site 398767005456 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398767005457 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398767005458 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398767005459 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 398767005460 S-adenosylmethionine binding site [chemical binding]; other site 398767005461 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 398767005462 dimerization interface [polypeptide binding]; other site 398767005463 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767005464 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005465 putative active site [active] 398767005466 heme pocket [chemical binding]; other site 398767005467 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 398767005468 dimer interface [polypeptide binding]; other site 398767005469 phosphorylation site [posttranslational modification] 398767005470 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 398767005471 ATP binding site [chemical binding]; other site 398767005472 Mg2+ binding site [ion binding]; other site 398767005473 G-X-G motif; other site 398767005474 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767005475 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 398767005476 active site 398767005477 phosphorylation site [posttranslational modification] 398767005478 intermolecular recognition site; other site 398767005479 dimerization interface [polypeptide binding]; other site 398767005480 CTP synthetase; Validated; Region: pyrG; PRK05380 398767005481 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 398767005482 Catalytic site [active] 398767005483 active site 398767005484 UTP binding site [chemical binding]; other site 398767005485 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398767005486 active site 398767005487 putative oxyanion hole; other site 398767005488 catalytic triad [active] 398767005489 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 398767005490 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398767005491 Ligand binding site; other site 398767005492 oligomer interface; other site 398767005493 EAL domain; Region: EAL; pfam00563 398767005494 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398767005495 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 398767005496 active site 398767005497 phosphorylation site [posttranslational modification] 398767005498 intermolecular recognition site; other site 398767005499 dimerization interface [polypeptide binding]; other site 398767005500 CheB methylesterase; Region: CheB_methylest; pfam01339 398767005501 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398767005502 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 398767005503 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 398767005504 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005505 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 398767005506 active site 398767005507 phosphorylation site [posttranslational modification] 398767005508 intermolecular recognition site; other site 398767005509 dimerization interface [polypeptide binding]; other site 398767005510 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767005511 dimer interface [polypeptide binding]; other site 398767005512 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398767005513 putative CheW interface [polypeptide binding]; other site 398767005514 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 398767005515 putative CheA interaction surface; other site 398767005516 CHASE3 domain; Region: CHASE3; cl05000 398767005517 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767005518 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 398767005519 dimerization interface [polypeptide binding]; other site 398767005520 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767005521 dimer interface [polypeptide binding]; other site 398767005522 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398767005523 putative CheW interface [polypeptide binding]; other site 398767005524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767005525 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398767005526 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398767005527 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 398767005528 putative binding surface; other site 398767005529 active site 398767005530 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398767005531 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 398767005532 ATP binding site [chemical binding]; other site 398767005533 Mg2+ binding site [ion binding]; other site 398767005534 G-X-G motif; other site 398767005535 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 398767005536 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767005537 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 398767005538 active site 398767005539 phosphorylation site [posttranslational modification] 398767005540 intermolecular recognition site; other site 398767005541 dimerization interface [polypeptide binding]; other site 398767005542 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 398767005543 anti sigma factor interaction site; other site 398767005544 regulatory phosphorylation site [posttranslational modification]; other site 398767005545 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767005546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767005547 dimer interface [polypeptide binding]; other site 398767005548 putative CheW interface [polypeptide binding]; other site 398767005549 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 398767005550 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005551 active site 398767005552 phosphorylation site [posttranslational modification] 398767005553 intermolecular recognition site; other site 398767005554 dimerization interface [polypeptide binding]; other site 398767005555 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005556 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 398767005557 active site 398767005558 phosphorylation site [posttranslational modification] 398767005559 intermolecular recognition site; other site 398767005560 dimerization interface [polypeptide binding]; other site 398767005561 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 398767005562 dimer interface [polypeptide binding]; other site 398767005563 phosphorylation site [posttranslational modification] 398767005564 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 398767005565 ATP binding site [chemical binding]; other site 398767005566 Mg2+ binding site [ion binding]; other site 398767005567 G-X-G motif; other site 398767005568 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005569 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 398767005570 active site 398767005571 phosphorylation site [posttranslational modification] 398767005572 intermolecular recognition site; other site 398767005573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767005574 dimerization interface [polypeptide binding]; other site 398767005575 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 398767005576 dimer interface [polypeptide binding]; other site 398767005577 phosphorylation site [posttranslational modification] 398767005578 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 398767005579 ATP binding site [chemical binding]; other site 398767005580 Mg2+ binding site [ion binding]; other site 398767005581 G-X-G motif; other site 398767005582 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005583 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 398767005584 active site 398767005585 phosphorylation site [posttranslational modification] 398767005586 intermolecular recognition site; other site 398767005587 dimerization interface [polypeptide binding]; other site 398767005588 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005589 PAS domain; Region: PAS_9; pfam13426 398767005590 putative active site [active] 398767005591 heme pocket [chemical binding]; other site 398767005592 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398767005593 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 398767005594 Walker A motif; other site 398767005595 ATP binding site [chemical binding]; other site 398767005596 Walker B motif; other site 398767005597 arginine finger; other site 398767005598 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767005599 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 398767005600 catalytic motif [active] 398767005601 Zn binding site [ion binding]; other site 398767005602 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398767005603 ATP cone domain; Region: ATP-cone; pfam03477 398767005604 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 398767005605 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 398767005606 catalytic motif [active] 398767005607 Zn binding site [ion binding]; other site 398767005608 RibD C-terminal domain; Region: RibD_C; cl17279 398767005609 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 398767005610 Lumazine binding domain; Region: Lum_binding; pfam00677 398767005611 Lumazine binding domain; Region: Lum_binding; pfam00677 398767005612 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 398767005613 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398767005614 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 398767005615 dimerization interface [polypeptide binding]; other site 398767005616 active site 398767005617 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 398767005618 Ligand Binding Site [chemical binding]; other site 398767005619 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767005620 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767005621 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 398767005622 propionate/acetate kinase; Provisional; Region: PRK12379 398767005623 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767005624 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 398767005625 TPR motif; other site 398767005626 binding surface 398767005627 TPR repeat; Region: TPR_11; pfam13414 398767005628 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 398767005629 binding surface 398767005630 TPR motif; other site 398767005631 TPR repeat; Region: TPR_11; pfam13414 398767005632 TPR repeat; Region: TPR_11; pfam13414 398767005633 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 398767005634 binding surface 398767005635 TPR motif; other site 398767005636 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767005637 GAF domain; Region: GAF; pfam01590 398767005638 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398767005639 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398767005640 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398767005641 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398767005642 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767005643 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 398767005644 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398767005645 Competence protein; Region: Competence; pfam03772 398767005646 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398767005647 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767005648 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005649 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 398767005650 active site 398767005651 phosphorylation site [posttranslational modification] 398767005652 intermolecular recognition site; other site 398767005653 dimerization interface [polypeptide binding]; other site 398767005654 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767005655 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767005656 metal binding site [ion binding]; metal-binding site 398767005657 active site 398767005658 I-site; other site 398767005659 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398767005660 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 398767005661 dimer interface [polypeptide binding]; other site 398767005662 motif 1; other site 398767005663 active site 398767005664 motif 2; other site 398767005665 motif 3; other site 398767005666 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 398767005667 anticodon binding site; other site 398767005668 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398767005669 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398767005670 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398767005671 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398767005672 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767005673 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767005674 PilZ domain; Region: PilZ; pfam07238 398767005675 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 398767005676 aspartate aminotransferase; Provisional; Region: PRK05764 398767005677 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 398767005678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767005679 homodimer interface [polypeptide binding]; other site 398767005680 catalytic residue [active] 398767005681 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398767005682 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398767005683 active site 398767005684 (T/H)XGH motif; other site 398767005685 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 398767005686 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 398767005687 S-adenosylmethionine binding site [chemical binding]; other site 398767005688 HDOD domain; Region: HDOD; pfam08668 398767005689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767005690 Zn2+ binding site [ion binding]; other site 398767005691 Mg2+ binding site [ion binding]; other site 398767005692 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767005693 HDOD domain; Region: HDOD; pfam08668 398767005694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767005695 Zn2+ binding site [ion binding]; other site 398767005696 Mg2+ binding site [ion binding]; other site 398767005697 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 398767005698 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 398767005699 ATP binding site [chemical binding]; other site 398767005700 putative Mg++ binding site [ion binding]; other site 398767005701 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 398767005702 nucleotide binding region [chemical binding]; other site 398767005703 ATP-binding site [chemical binding]; other site 398767005704 Helicase associated domain (HA2); Region: HA2; cl04503 398767005705 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 398767005706 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 398767005707 active site 398767005708 PHP-associated; Region: PHP_C; pfam13263 398767005709 Phosphotransferase enzyme family; Region: APH; pfam01636 398767005710 serine/threonine protein kinase; Provisional; Region: PRK14879 398767005711 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 398767005712 photolyase PhrII; Region: phr2; TIGR00591 398767005713 DNA photolyase; Region: DNA_photolyase; pfam00875 398767005714 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398767005715 putative cation:proton antiport protein; Provisional; Region: PRK10669 398767005716 TrkA-N domain; Region: TrkA_N; pfam02254 398767005717 TrkA-C domain; Region: TrkA_C; pfam02080 398767005718 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 398767005719 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398767005720 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398767005721 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 398767005722 ATP cone domain; Region: ATP-cone; pfam03477 398767005723 Class III ribonucleotide reductase; Region: RNR_III; cd01675 398767005724 effector binding site; other site 398767005725 active site 398767005726 Zn binding site [ion binding]; other site 398767005727 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 398767005728 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 398767005729 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 398767005730 FeS/SAM binding site; other site 398767005731 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398767005732 FeoA domain; Region: FeoA; pfam04023 398767005733 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767005734 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767005735 metal binding site [ion binding]; metal-binding site 398767005736 active site 398767005737 I-site; other site 398767005738 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 398767005739 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 398767005740 G1 box; other site 398767005741 GTP/Mg2+ binding site [chemical binding]; other site 398767005742 Switch I region; other site 398767005743 G2 box; other site 398767005744 G3 box; other site 398767005745 Switch II region; other site 398767005746 G4 box; other site 398767005747 G5 box; other site 398767005748 Nucleoside recognition; Region: Gate; pfam07670 398767005749 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 398767005750 Nucleoside recognition; Region: Gate; pfam07670 398767005751 FeoA domain; Region: FeoA; pfam04023 398767005752 FeoA domain; Region: FeoA; pfam04023 398767005753 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398767005754 Hemin uptake protein hemP; Region: hemP; pfam10636 398767005755 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 398767005756 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398767005757 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 398767005758 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398767005759 metal binding site 2 [ion binding]; metal-binding site 398767005760 putative DNA binding helix; other site 398767005761 metal binding site 1 [ion binding]; metal-binding site 398767005762 dimer interface [polypeptide binding]; other site 398767005763 structural Zn2+ binding site [ion binding]; other site 398767005764 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 398767005765 Rubrerythrin [Energy production and conversion]; Region: COG1592 398767005766 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 398767005767 binuclear metal center [ion binding]; other site 398767005768 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; cl00202 398767005769 iron binding site [ion binding]; other site 398767005770 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 398767005771 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 398767005772 dimer interface [polypeptide binding]; other site 398767005773 active site 398767005774 heme binding site [chemical binding]; other site 398767005775 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 398767005776 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 398767005777 Rubrerythrin [Energy production and conversion]; Region: COG1592 398767005778 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 398767005779 binuclear metal center [ion binding]; other site 398767005780 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 398767005781 iron binding site [ion binding]; other site 398767005782 SnoaL-like domain; Region: SnoaL_4; pfam13577 398767005783 SnoaL-like domain; Region: SnoaL_3; pfam13474 398767005784 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 398767005785 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 398767005786 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767005787 FtsX-like permease family; Region: FtsX; pfam02687 398767005788 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767005789 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767005790 Walker A/P-loop; other site 398767005791 ATP binding site [chemical binding]; other site 398767005792 Q-loop/lid; other site 398767005793 ABC transporter signature motif; other site 398767005794 Walker B; other site 398767005795 D-loop; other site 398767005796 H-loop/switch region; other site 398767005797 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398767005798 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 398767005799 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 398767005800 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 398767005801 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398767005802 Walker A/P-loop; other site 398767005803 ATP binding site [chemical binding]; other site 398767005804 Q-loop/lid; other site 398767005805 ABC transporter signature motif; other site 398767005806 Walker B; other site 398767005807 D-loop; other site 398767005808 H-loop/switch region; other site 398767005809 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398767005810 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 398767005811 dimerization interface [polypeptide binding]; other site 398767005812 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 398767005813 dimer interface [polypeptide binding]; other site 398767005814 phosphorylation site [posttranslational modification] 398767005815 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 398767005816 ATP binding site [chemical binding]; other site 398767005817 Mg2+ binding site [ion binding]; other site 398767005818 G-X-G motif; other site 398767005819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767005820 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 398767005821 active site 398767005822 phosphorylation site [posttranslational modification] 398767005823 intermolecular recognition site; other site 398767005824 dimerization interface [polypeptide binding]; other site 398767005825 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 398767005826 DNA binding site [nucleotide binding] 398767005827 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 398767005828 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 398767005829 FOG: CBS domain [General function prediction only]; Region: COG0517 398767005830 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 398767005831 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767005832 metal binding triad; other site 398767005833 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 398767005834 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398767005835 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398767005836 TrkA-C domain; Region: TrkA_C; pfam02080 398767005837 TrkA-C domain; Region: TrkA_C; pfam02080 398767005838 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 398767005839 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 398767005840 active site 398767005841 homotetramer interface [polypeptide binding]; other site 398767005842 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 398767005843 binding surface 398767005844 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767005845 TPR motif; other site 398767005846 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767005847 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 398767005848 TPR motif; other site 398767005849 TPR repeat; Region: TPR_11; pfam13414 398767005850 binding surface 398767005851 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 398767005852 binding surface 398767005853 TPR motif; other site 398767005854 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767005855 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398767005856 ligand binding site [chemical binding]; other site 398767005857 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 398767005858 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 398767005859 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398767005860 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398767005861 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 398767005862 motif II; other site 398767005863 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398767005864 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 398767005865 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398767005866 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398767005867 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 398767005868 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398767005869 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398767005870 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 398767005871 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 398767005872 carboxyltransferase (CT) interaction site; other site 398767005873 biotinylation site [posttranslational modification]; other site 398767005874 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 398767005875 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 398767005876 DctM-like transporters; Region: DctM; pfam06808 398767005877 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 398767005878 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398767005879 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398767005880 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398767005881 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398767005882 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767005883 putative substrate translocation pore; other site 398767005884 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767005885 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 398767005886 active site 398767005887 phosphorylation site [posttranslational modification] 398767005888 intermolecular recognition site; other site 398767005889 dimerization interface [polypeptide binding]; other site 398767005890 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 398767005891 Walker A motif; other site 398767005892 ATP binding site [chemical binding]; other site 398767005893 Walker B motif; other site 398767005894 arginine finger; other site 398767005895 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767005896 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005897 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 398767005898 active site 398767005899 phosphorylation site [posttranslational modification] 398767005900 intermolecular recognition site; other site 398767005901 dimerization interface [polypeptide binding]; other site 398767005902 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767005903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767005904 putative active site [active] 398767005905 heme pocket [chemical binding]; other site 398767005906 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 398767005907 dimer interface [polypeptide binding]; other site 398767005908 phosphorylation site [posttranslational modification] 398767005909 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 398767005910 ATP binding site [chemical binding]; other site 398767005911 Mg2+ binding site [ion binding]; other site 398767005912 G-X-G motif; other site 398767005913 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 398767005914 dimerization interface [polypeptide binding]; other site 398767005915 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767005916 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 398767005917 dimer interface [polypeptide binding]; other site 398767005918 phosphorylation site [posttranslational modification] 398767005919 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 398767005920 ATP binding site [chemical binding]; other site 398767005921 G-X-G motif; other site 398767005922 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 398767005923 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 398767005924 putative CheA interaction surface; other site 398767005925 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767005926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767005927 dimer interface [polypeptide binding]; other site 398767005928 putative CheW interface [polypeptide binding]; other site 398767005929 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 398767005930 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398767005931 intersubunit interface [polypeptide binding]; other site 398767005932 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398767005933 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 398767005934 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398767005935 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398767005936 ABC-ATPase subunit interface; other site 398767005937 dimer interface [polypeptide binding]; other site 398767005938 putative PBP binding regions; other site 398767005939 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767005940 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767005941 Zn2+ binding site [ion binding]; other site 398767005942 Mg2+ binding site [ion binding]; other site 398767005943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767005944 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767005945 putative substrate translocation pore; other site 398767005946 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 398767005947 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398767005948 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398767005949 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398767005950 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398767005951 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 398767005952 dimer interface [polypeptide binding]; other site 398767005953 phosphorylation site [posttranslational modification] 398767005954 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 398767005955 ATP binding site [chemical binding]; other site 398767005956 Mg2+ binding site [ion binding]; other site 398767005957 G-X-G motif; other site 398767005958 Response regulator receiver domain; Region: Response_reg; pfam00072 398767005959 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 398767005960 active site 398767005961 phosphorylation site [posttranslational modification] 398767005962 intermolecular recognition site; other site 398767005963 dimerization interface [polypeptide binding]; other site 398767005964 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398767005965 trimer interface [polypeptide binding]; other site 398767005966 active site 398767005967 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 398767005968 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 398767005969 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 398767005970 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767005971 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767005972 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767005973 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767005974 metal binding site [ion binding]; metal-binding site 398767005975 active site 398767005976 I-site; other site 398767005977 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 398767005978 active site 398767005979 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 398767005980 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 398767005981 FeS/SAM binding site; other site 398767005982 Creatinine amidohydrolase; Region: Creatininase; pfam02633 398767005983 TRAM domain; Region: TRAM; pfam01938 398767005984 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 398767005985 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 398767005986 S-adenosylmethionine binding site [chemical binding]; other site 398767005987 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 398767005988 IHF dimer interface [polypeptide binding]; other site 398767005989 IHF - DNA interface [nucleotide binding]; other site 398767005990 exopolyphosphatase; Region: exo_poly_only; TIGR03706 398767005991 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398767005992 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398767005993 EAL domain; Region: EAL; pfam00563 398767005994 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398767005995 mce related protein; Region: MCE; pfam02470 398767005996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767005997 Walker A/P-loop; other site 398767005998 ATP binding site [chemical binding]; other site 398767005999 ABC transporter; Region: ABC_tran; pfam00005 398767006000 Q-loop/lid; other site 398767006001 ABC transporter signature motif; other site 398767006002 Walker B; other site 398767006003 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 398767006004 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 398767006005 dimer interface [polypeptide binding]; other site 398767006006 PYR/PP interface [polypeptide binding]; other site 398767006007 TPP binding site [chemical binding]; other site 398767006008 substrate binding site [chemical binding]; other site 398767006009 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 398767006010 TPP-binding site; other site 398767006011 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 398767006012 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398767006013 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398767006014 acyl-activating enzyme (AAE) consensus motif; other site 398767006015 AMP binding site [chemical binding]; other site 398767006016 active site 398767006017 CoA binding site [chemical binding]; other site 398767006018 ACT domain-containing protein [General function prediction only]; Region: COG4747 398767006019 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 398767006020 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 398767006021 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398767006022 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398767006023 putative ligand binding site [chemical binding]; other site 398767006024 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398767006025 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398767006026 putative ligand binding site [chemical binding]; other site 398767006027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398767006028 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398767006029 TM-ABC transporter signature motif; other site 398767006030 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398767006031 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398767006032 TM-ABC transporter signature motif; other site 398767006033 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398767006034 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398767006035 Walker A/P-loop; other site 398767006036 ATP binding site [chemical binding]; other site 398767006037 Q-loop/lid; other site 398767006038 ABC transporter signature motif; other site 398767006039 Walker B; other site 398767006040 D-loop; other site 398767006041 H-loop/switch region; other site 398767006042 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398767006043 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398767006044 Walker A/P-loop; other site 398767006045 ATP binding site [chemical binding]; other site 398767006046 Q-loop/lid; other site 398767006047 ABC transporter signature motif; other site 398767006048 Walker B; other site 398767006049 D-loop; other site 398767006050 H-loop/switch region; other site 398767006051 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 398767006052 active site 398767006053 dimer interface [polypeptide binding]; other site 398767006054 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 398767006055 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 398767006056 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398767006057 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 398767006058 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 398767006059 S-adenosylmethionine binding site [chemical binding]; other site 398767006060 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398767006061 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 398767006062 Merozoite surface protein 1 (MSP1) C-terminus; Region: MSP1_C; pfam07462 398767006063 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398767006064 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 398767006065 active site 398767006066 dimer interface [polypeptide binding]; other site 398767006067 motif 1; other site 398767006068 motif 2; other site 398767006069 motif 3; other site 398767006070 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 398767006071 anticodon binding site; other site 398767006072 translation initiation factor IF-3; Region: infC; TIGR00168 398767006073 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398767006074 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398767006075 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 398767006076 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398767006077 23S rRNA binding site [nucleotide binding]; other site 398767006078 L21 binding site [polypeptide binding]; other site 398767006079 L13 binding site [polypeptide binding]; other site 398767006080 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398767006081 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398767006082 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 398767006083 dimer interface [polypeptide binding]; other site 398767006084 motif 1; other site 398767006085 active site 398767006086 motif 2; other site 398767006087 motif 3; other site 398767006088 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398767006089 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 398767006090 putative tRNA-binding site [nucleotide binding]; other site 398767006091 B3/4 domain; Region: B3_4; pfam03483 398767006092 tRNA synthetase B5 domain; Region: B5; pfam03484 398767006093 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 398767006094 dimer interface [polypeptide binding]; other site 398767006095 motif 1; other site 398767006096 motif 3; other site 398767006097 motif 2; other site 398767006098 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 398767006099 TOBE domain; Region: TOBE_2; pfam08402 398767006100 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398767006101 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398767006102 active site 398767006103 Zn2+ binding site [ion binding]; other site 398767006104 intersubunit interface [polypeptide binding]; other site 398767006105 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398767006106 Peptidase family M23; Region: Peptidase_M23; pfam01551 398767006107 PilZ domain; Region: PilZ; pfam07238 398767006108 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398767006109 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398767006110 glutamine synthetase, type I; Region: GlnA; TIGR00653 398767006111 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398767006112 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398767006113 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 398767006114 Peptidase family M50; Region: Peptidase_M50; pfam02163 398767006115 active site 398767006116 putative substrate binding region [chemical binding]; other site 398767006117 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398767006118 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398767006119 active site 398767006120 HIGH motif; other site 398767006121 dimer interface [polypeptide binding]; other site 398767006122 KMSKS motif; other site 398767006123 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 398767006124 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 398767006125 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 398767006126 putative ligand binding pocket/active site [active] 398767006127 putative metal binding site [ion binding]; other site 398767006128 Trm112p-like protein; Region: Trm112p; pfam03966 398767006129 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767006130 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 398767006131 S-adenosylmethionine binding site [chemical binding]; other site 398767006132 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 398767006133 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 398767006134 substrate binding site [chemical binding]; other site 398767006135 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 398767006136 substrate binding site [chemical binding]; other site 398767006137 ligand binding site [chemical binding]; other site 398767006138 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 398767006139 IHF - DNA interface [nucleotide binding]; other site 398767006140 IHF dimer interface [polypeptide binding]; other site 398767006141 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 398767006142 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398767006143 DNA binding residues [nucleotide binding] 398767006144 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 398767006145 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767006146 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 398767006147 ATP binding site [chemical binding]; other site 398767006148 Mg2+ binding site [ion binding]; other site 398767006149 G-X-G motif; other site 398767006150 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 398767006151 dimerization interface [polypeptide binding]; other site 398767006152 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767006153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767006154 dimer interface [polypeptide binding]; other site 398767006155 putative CheW interface [polypeptide binding]; other site 398767006156 Cache domain; Region: Cache_1; pfam02743 398767006157 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398767006158 dimerization interface [polypeptide binding]; other site 398767006159 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767006160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006161 putative active site [active] 398767006162 heme pocket [chemical binding]; other site 398767006163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006164 putative active site [active] 398767006165 heme pocket [chemical binding]; other site 398767006166 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767006167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767006168 metal binding site [ion binding]; metal-binding site 398767006169 active site 398767006170 I-site; other site 398767006171 Cache domain; Region: Cache_1; pfam02743 398767006172 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 398767006173 dimerization interface [polypeptide binding]; other site 398767006174 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006175 PAS fold; Region: PAS_3; pfam08447 398767006176 putative active site [active] 398767006177 heme pocket [chemical binding]; other site 398767006178 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006179 PAS domain; Region: PAS_9; pfam13426 398767006180 putative active site [active] 398767006181 heme pocket [chemical binding]; other site 398767006182 PAS domain; Region: PAS; smart00091 398767006183 PAS domain; Region: PAS_9; pfam13426 398767006184 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398767006185 dimer interface [polypeptide binding]; other site 398767006186 phosphorylation site [posttranslational modification] 398767006187 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 398767006188 Walker A motif; other site 398767006189 ATP binding site [chemical binding]; other site 398767006190 Walker B motif; other site 398767006191 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 398767006192 Double zinc ribbon; Region: DZR; pfam12773 398767006193 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006194 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 398767006195 active site 398767006196 phosphorylation site [posttranslational modification] 398767006197 intermolecular recognition site; other site 398767006198 dimerization interface [polypeptide binding]; other site 398767006199 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 398767006200 diiron binding motif [ion binding]; other site 398767006201 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006202 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 398767006203 active site 398767006204 phosphorylation site [posttranslational modification] 398767006205 intermolecular recognition site; other site 398767006206 dimerization interface [polypeptide binding]; other site 398767006207 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767006208 GAF domain; Region: GAF; cl17456 398767006209 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006210 PAS domain; Region: PAS_9; pfam13426 398767006211 putative active site [active] 398767006212 heme pocket [chemical binding]; other site 398767006213 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767006214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767006215 metal binding site [ion binding]; metal-binding site 398767006216 active site 398767006217 I-site; other site 398767006218 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398767006219 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 398767006220 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 398767006221 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 398767006222 active site 398767006223 GMP synthase; Reviewed; Region: guaA; PRK00074 398767006224 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398767006225 AMP/PPi binding site [chemical binding]; other site 398767006226 candidate oxyanion hole; other site 398767006227 catalytic triad [active] 398767006228 potential glutamine specificity residues [chemical binding]; other site 398767006229 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 398767006230 ATP Binding subdomain [chemical binding]; other site 398767006231 Ligand Binding sites [chemical binding]; other site 398767006232 Dimerization subdomain; other site 398767006233 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398767006234 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398767006235 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398767006236 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398767006237 Flagellin N-methylase; Region: FliB; pfam03692 398767006238 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 398767006239 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398767006240 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398767006241 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398767006242 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 398767006243 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006244 active site 398767006245 phosphorylation site [posttranslational modification] 398767006246 intermolecular recognition site; other site 398767006247 dimerization interface [polypeptide binding]; other site 398767006248 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398767006249 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 398767006250 dimer interface [polypeptide binding]; other site 398767006251 motif 1; other site 398767006252 active site 398767006253 motif 2; other site 398767006254 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 398767006255 putative deacylase active site [active] 398767006256 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 398767006257 active site 398767006258 motif 3; other site 398767006259 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 398767006260 anticodon binding site; other site 398767006261 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 398767006262 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398767006263 acyl-activating enzyme (AAE) consensus motif; other site 398767006264 AMP binding site [chemical binding]; other site 398767006265 active site 398767006266 CoA binding site [chemical binding]; other site 398767006267 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 398767006268 rRNA binding site [nucleotide binding]; other site 398767006269 predicted 30S ribosome binding site; other site 398767006270 elongation factor P; Validated; Region: PRK00529 398767006271 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398767006272 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 398767006273 RNA binding site [nucleotide binding]; other site 398767006274 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 398767006275 RNA binding site [nucleotide binding]; other site 398767006276 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 398767006277 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 398767006278 motif 1; other site 398767006279 dimer interface [polypeptide binding]; other site 398767006280 active site 398767006281 motif 2; other site 398767006282 motif 3; other site 398767006283 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398767006284 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 398767006285 generic binding surface II; other site 398767006286 generic binding surface I; other site 398767006287 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398767006288 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398767006289 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 398767006290 P-loop; other site 398767006291 Magnesium ion binding site [ion binding]; other site 398767006292 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 398767006293 Magnesium ion binding site [ion binding]; other site 398767006294 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 398767006295 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398767006296 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398767006297 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 398767006298 IHF dimer interface [polypeptide binding]; other site 398767006299 IHF - DNA interface [nucleotide binding]; other site 398767006300 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 398767006301 NodB motif; other site 398767006302 putative active site [active] 398767006303 putative catalytic site [active] 398767006304 Zn binding site [ion binding]; other site 398767006305 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398767006306 C-terminal peptidase (prc); Region: prc; TIGR00225 398767006307 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 398767006308 protein binding site [polypeptide binding]; other site 398767006309 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398767006310 Catalytic dyad [active] 398767006311 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 398767006312 Peptidase family M23; Region: Peptidase_M23; pfam01551 398767006313 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 398767006314 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 398767006315 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 398767006316 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767006317 Walker A/P-loop; other site 398767006318 ATP binding site [chemical binding]; other site 398767006319 Q-loop/lid; other site 398767006320 ABC transporter signature motif; other site 398767006321 Walker B; other site 398767006322 D-loop; other site 398767006323 H-loop/switch region; other site 398767006324 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 398767006325 Ligand binding site; other site 398767006326 Putative Catalytic site; other site 398767006327 DXD motif; other site 398767006328 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 398767006329 IHF dimer interface [polypeptide binding]; other site 398767006330 IHF - DNA interface [nucleotide binding]; other site 398767006331 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398767006332 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 398767006333 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 398767006334 Walker A motif; other site 398767006335 ATP binding site [chemical binding]; other site 398767006336 Walker B motif; other site 398767006337 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398767006338 Clp protease; Region: CLP_protease; pfam00574 398767006339 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398767006340 oligomer interface [polypeptide binding]; other site 398767006341 active site residues [active] 398767006342 trigger factor; Region: tig; TIGR00115 398767006343 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767006344 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398767006345 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 398767006346 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398767006347 Part of AAA domain; Region: AAA_19; pfam13245 398767006348 Family description; Region: UvrD_C_2; pfam13538 398767006349 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 398767006350 active site 398767006351 8-oxo-dGMP binding site [chemical binding]; other site 398767006352 nudix motif; other site 398767006353 metal binding site [ion binding]; metal-binding site 398767006354 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398767006355 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 398767006356 dimer interface [polypeptide binding]; other site 398767006357 active site 398767006358 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398767006359 folate binding site [chemical binding]; other site 398767006360 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 398767006361 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 398767006362 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 398767006363 dimer interface [polypeptide binding]; other site 398767006364 active site 398767006365 acyl carrier protein; Provisional; Region: acpP; PRK00982 398767006366 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398767006367 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398767006368 NAD(P) binding site [chemical binding]; other site 398767006369 homotetramer interface [polypeptide binding]; other site 398767006370 homodimer interface [polypeptide binding]; other site 398767006371 active site 398767006372 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 398767006373 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398767006374 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398767006375 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398767006376 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 398767006377 dimer interface [polypeptide binding]; other site 398767006378 active site 398767006379 CoA binding pocket [chemical binding]; other site 398767006380 putative phosphate acyltransferase; Provisional; Region: PRK05331 398767006381 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 398767006382 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 398767006383 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 398767006384 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 398767006385 oligomer interface [polypeptide binding]; other site 398767006386 active site 398767006387 metal binding site [ion binding]; metal-binding site 398767006388 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767006389 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 398767006390 FeS/SAM binding site; other site 398767006391 ribonuclease III; Reviewed; Region: rnc; PRK00102 398767006392 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 398767006393 dimerization interface [polypeptide binding]; other site 398767006394 active site 398767006395 metal binding site [ion binding]; metal-binding site 398767006396 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 398767006397 dsRNA binding site [nucleotide binding]; other site 398767006398 thymidylate kinase; Validated; Region: tmk; PRK00698 398767006399 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 398767006400 TMP-binding site; other site 398767006401 ATP-binding site [chemical binding]; other site 398767006402 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 398767006403 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398767006404 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 398767006405 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 398767006406 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398767006407 active site 398767006408 HIGH motif; other site 398767006409 KMSKS motif; other site 398767006410 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398767006411 tRNA binding surface [nucleotide binding]; other site 398767006412 anticodon binding site; other site 398767006413 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398767006414 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 398767006415 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 398767006416 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398767006417 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 398767006418 generic binding surface II; other site 398767006419 ssDNA binding site; other site 398767006420 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 398767006421 ATP binding site [chemical binding]; other site 398767006422 putative Mg++ binding site [ion binding]; other site 398767006423 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 398767006424 nucleotide binding region [chemical binding]; other site 398767006425 ATP-binding site [chemical binding]; other site 398767006426 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767006427 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767006428 putative active site [active] 398767006429 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767006430 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 398767006431 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767006432 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398767006433 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 398767006434 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767006435 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 398767006436 metal-binding site 398767006437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767006438 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 398767006439 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 398767006440 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 398767006441 AMP binding site [chemical binding]; other site 398767006442 metal binding site [ion binding]; metal-binding site 398767006443 active site 398767006444 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398767006445 Permease; Region: Permease; pfam02405 398767006446 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 398767006447 PilZ domain; Region: PilZ; pfam07238 398767006448 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398767006449 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398767006450 DNA binding site [nucleotide binding] 398767006451 catalytic residue [active] 398767006452 H2TH interface [polypeptide binding]; other site 398767006453 putative catalytic residues [active] 398767006454 turnover-facilitating residue; other site 398767006455 intercalation triad [nucleotide binding]; other site 398767006456 8OG recognition residue [nucleotide binding]; other site 398767006457 putative reading head residues; other site 398767006458 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398767006459 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398767006460 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 398767006461 CHASE2 domain; Region: CHASE2; pfam05226 398767006462 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 398767006463 cyclase homology domain; Region: CHD; cd07302 398767006464 nucleotidyl binding site; other site 398767006465 metal binding site [ion binding]; metal-binding site 398767006466 dimer interface [polypeptide binding]; other site 398767006467 FecR protein; Region: FecR; pfam04773 398767006468 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 398767006469 binding surface 398767006470 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 398767006471 TPR motif; other site 398767006472 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767006473 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767006474 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767006475 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398767006476 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 398767006477 Walker A motif; other site 398767006478 ATP binding site [chemical binding]; other site 398767006479 Walker B motif; other site 398767006480 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 398767006481 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398767006482 dinuclear metal binding motif [ion binding]; other site 398767006483 Hemerythrin; Region: Hemerythrin; cd12107 398767006484 Fe binding site [ion binding]; other site 398767006485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398767006486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767006487 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 398767006488 putative dimerization interface [polypeptide binding]; other site 398767006489 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 398767006490 active site residue [active] 398767006491 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398767006492 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 398767006493 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 398767006494 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398767006495 SelR domain; Region: SelR; pfam01641 398767006496 mercuric reductase; Validated; Region: PRK06370 398767006497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398767006498 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398767006499 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398767006500 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398767006501 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398767006502 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398767006503 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 398767006504 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 398767006505 FeS/SAM binding site; other site 398767006506 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767006507 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 398767006508 S-adenosylmethionine binding site [chemical binding]; other site 398767006509 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767006510 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 398767006511 dimerization interface [polypeptide binding]; other site 398767006512 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767006513 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006514 putative active site [active] 398767006515 heme pocket [chemical binding]; other site 398767006516 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 398767006517 dimer interface [polypeptide binding]; other site 398767006518 phosphorylation site [posttranslational modification] 398767006519 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 398767006520 ATP binding site [chemical binding]; other site 398767006521 Mg2+ binding site [ion binding]; other site 398767006522 G-X-G motif; other site 398767006523 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006524 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 398767006525 active site 398767006526 phosphorylation site [posttranslational modification] 398767006527 intermolecular recognition site; other site 398767006528 dimerization interface [polypeptide binding]; other site 398767006529 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 398767006530 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006531 active site 398767006532 phosphorylation site [posttranslational modification] 398767006533 intermolecular recognition site; other site 398767006534 dimerization interface [polypeptide binding]; other site 398767006535 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006536 PAS domain; Region: PAS_9; pfam13426 398767006537 putative active site [active] 398767006538 heme pocket [chemical binding]; other site 398767006539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767006540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767006541 metal binding site [ion binding]; metal-binding site 398767006542 active site 398767006543 I-site; other site 398767006544 PAS domain S-box; Region: sensory_box; TIGR00229 398767006545 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006546 putative active site [active] 398767006547 heme pocket [chemical binding]; other site 398767006548 PAS fold; Region: PAS_4; pfam08448 398767006549 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006550 putative active site [active] 398767006551 heme pocket [chemical binding]; other site 398767006552 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 398767006553 dimer interface [polypeptide binding]; other site 398767006554 phosphorylation site [posttranslational modification] 398767006555 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 398767006556 ATP binding site [chemical binding]; other site 398767006557 Mg2+ binding site [ion binding]; other site 398767006558 G-X-G motif; other site 398767006559 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 398767006560 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006561 active site 398767006562 phosphorylation site [posttranslational modification] 398767006563 intermolecular recognition site; other site 398767006564 dimerization interface [polypeptide binding]; other site 398767006565 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 398767006566 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 398767006567 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 398767006568 Probable Catalytic site; other site 398767006569 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 398767006570 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 398767006571 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 398767006572 active site 398767006573 Zn binding site [ion binding]; other site 398767006574 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_cladeC; cd03378 398767006575 active site clefts [active] 398767006576 zinc binding site [ion binding]; other site 398767006577 dimer interface [polypeptide binding]; other site 398767006578 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398767006579 Clp amino terminal domain; Region: Clp_N; pfam02861 398767006580 Clp amino terminal domain; Region: Clp_N; pfam02861 398767006581 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 398767006582 Walker A motif; other site 398767006583 ATP binding site [chemical binding]; other site 398767006584 Walker B motif; other site 398767006585 arginine finger; other site 398767006586 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 398767006587 Walker A motif; other site 398767006588 ATP binding site [chemical binding]; other site 398767006589 Walker B motif; other site 398767006590 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398767006591 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 398767006592 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767006593 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 398767006594 substrate binding pocket [chemical binding]; other site 398767006595 membrane-bound complex binding site; other site 398767006596 hinge residues; other site 398767006597 PAS domain S-box; Region: sensory_box; TIGR00229 398767006598 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006599 putative active site [active] 398767006600 heme pocket [chemical binding]; other site 398767006601 PAS fold; Region: PAS_3; pfam08447 398767006602 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006603 PAS fold; Region: PAS_3; pfam08447 398767006604 putative active site [active] 398767006605 heme pocket [chemical binding]; other site 398767006606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767006607 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 398767006608 dimer interface [polypeptide binding]; other site 398767006609 phosphorylation site [posttranslational modification] 398767006610 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 398767006611 ATP binding site [chemical binding]; other site 398767006612 Mg2+ binding site [ion binding]; other site 398767006613 G-X-G motif; other site 398767006614 Response regulator receiver domain; Region: Response_reg; pfam00072 398767006615 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 398767006616 active site 398767006617 phosphorylation site [posttranslational modification] 398767006618 intermolecular recognition site; other site 398767006619 dimerization interface [polypeptide binding]; other site 398767006620 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398767006621 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 398767006622 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 398767006623 DHH family; Region: DHH; pfam01368 398767006624 DHHA1 domain; Region: DHHA1; pfam02272 398767006625 TPR repeat; Region: TPR_11; pfam13414 398767006626 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 398767006627 binding surface 398767006628 TPR motif; other site 398767006629 TPR repeat; Region: TPR_11; pfam13414 398767006630 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398767006631 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398767006632 Protein export membrane protein; Region: SecD_SecF; pfam02355 398767006633 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398767006634 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398767006635 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398767006636 Preprotein translocase subunit; Region: YajC; pfam02699 398767006637 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398767006638 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398767006639 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 398767006640 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 398767006641 Stage II sporulation protein; Region: SpoIID; pfam08486 398767006642 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 398767006643 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398767006644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398767006645 Walker A/P-loop; other site 398767006646 ATP binding site [chemical binding]; other site 398767006647 Q-loop/lid; other site 398767006648 ABC transporter signature motif; other site 398767006649 Walker B; other site 398767006650 D-loop; other site 398767006651 H-loop/switch region; other site 398767006652 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398767006653 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398767006654 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398767006655 Walker A/P-loop; other site 398767006656 ATP binding site [chemical binding]; other site 398767006657 Q-loop/lid; other site 398767006658 ABC transporter signature motif; other site 398767006659 Walker B; other site 398767006660 D-loop; other site 398767006661 H-loop/switch region; other site 398767006662 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398767006663 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398767006664 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398767006665 enolase; Provisional; Region: eno; PRK00077 398767006666 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 398767006667 dimer interface [polypeptide binding]; other site 398767006668 metal binding site [ion binding]; metal-binding site 398767006669 substrate binding pocket [chemical binding]; other site 398767006670 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 398767006671 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 398767006672 active site 398767006673 dimer interface [polypeptide binding]; other site 398767006674 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 398767006675 dimer interface [polypeptide binding]; other site 398767006676 active site 398767006677 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398767006678 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398767006679 Walker A/P-loop; other site 398767006680 ATP binding site [chemical binding]; other site 398767006681 Q-loop/lid; other site 398767006682 ABC transporter signature motif; other site 398767006683 Walker B; other site 398767006684 D-loop; other site 398767006685 H-loop/switch region; other site 398767006686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767006687 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 398767006688 membrane-bound complex binding site; other site 398767006689 hinge residues; other site 398767006690 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 398767006691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767006692 substrate binding pocket [chemical binding]; other site 398767006693 membrane-bound complex binding site; other site 398767006694 hinge residues; other site 398767006695 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 398767006696 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767006697 substrate binding pocket [chemical binding]; other site 398767006698 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398767006699 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 398767006700 dimer interface [polypeptide binding]; other site 398767006701 conserved gate region; other site 398767006702 putative PBP binding loops; other site 398767006703 ABC-ATPase subunit interface; other site 398767006704 Cache domain; Region: Cache_1; pfam02743 398767006705 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 398767006706 dimerization interface [polypeptide binding]; other site 398767006707 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398767006708 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398767006709 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 398767006710 NMT1/THI5 like; Region: NMT1; pfam09084 398767006711 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 398767006712 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 398767006713 homodimer interface [polypeptide binding]; other site 398767006714 active site 398767006715 FMN binding site [chemical binding]; other site 398767006716 substrate binding site [chemical binding]; other site 398767006717 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; cl17623 398767006718 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; cl17623 398767006719 HDOD domain; Region: HDOD; pfam08668 398767006720 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 398767006721 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767006722 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 398767006723 S-adenosylmethionine binding site [chemical binding]; other site 398767006724 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398767006725 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398767006726 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 398767006727 dimer interface [polypeptide binding]; other site 398767006728 conserved gate region; other site 398767006729 putative PBP binding loops; other site 398767006730 ABC-ATPase subunit interface; other site 398767006731 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398767006732 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 398767006733 dimer interface [polypeptide binding]; other site 398767006734 conserved gate region; other site 398767006735 putative PBP binding loops; other site 398767006736 ABC-ATPase subunit interface; other site 398767006737 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 398767006738 active site 398767006739 dimerization interface [polypeptide binding]; other site 398767006740 ribonuclease PH; Reviewed; Region: rph; PRK00173 398767006741 Ribonuclease PH; Region: RNase_PH_bact; cd11362 398767006742 hexamer interface [polypeptide binding]; other site 398767006743 active site 398767006744 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 398767006745 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 398767006746 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 398767006747 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 398767006748 active site 398767006749 catalytic residues [active] 398767006750 metal binding site [ion binding]; metal-binding site 398767006751 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398767006752 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767006753 Zn2+ binding site [ion binding]; other site 398767006754 Mg2+ binding site [ion binding]; other site 398767006755 HEAT repeats; Region: HEAT_2; pfam13646 398767006756 HEAT repeats; Region: HEAT_2; pfam13646 398767006757 4-alpha-glucanotransferase; Provisional; Region: PRK14508 398767006758 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 398767006759 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398767006760 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398767006761 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 398767006762 Protein of unknown function DUF58; Region: DUF58; pfam01882 398767006763 MoxR-like ATPases [General function prediction only]; Region: COG0714 398767006764 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 398767006765 Walker A motif; other site 398767006766 ATP binding site [chemical binding]; other site 398767006767 Walker B motif; other site 398767006768 arginine finger; other site 398767006769 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767006770 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767006771 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767006772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767006773 Zn2+ binding site [ion binding]; other site 398767006774 Mg2+ binding site [ion binding]; other site 398767006775 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 398767006776 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 398767006777 homodimer interface [polypeptide binding]; other site 398767006778 metal binding site [ion binding]; metal-binding site 398767006779 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 398767006780 homodimer interface [polypeptide binding]; other site 398767006781 active site 398767006782 putative chemical substrate binding site [chemical binding]; other site 398767006783 metal binding site [ion binding]; metal-binding site 398767006784 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 398767006785 DNA binding site [nucleotide binding] 398767006786 active site 398767006787 integral membrane protein MviN; Region: mviN; TIGR01695 398767006788 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 398767006789 Kua-ubiquitin conjugating enzyme hybrid localisation domain; Region: Kua-UEV1_localn; pfam10520 398767006790 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767006791 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 398767006792 dimerization interface [polypeptide binding]; other site 398767006793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767006794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767006795 metal binding site [ion binding]; metal-binding site 398767006796 active site 398767006797 I-site; other site 398767006798 RmuC family; Region: RmuC; pfam02646 398767006799 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 398767006800 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 398767006801 putative substrate-binding site; other site 398767006802 nickel binding site [ion binding]; other site 398767006803 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398767006804 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398767006805 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 398767006806 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 398767006807 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398767006808 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 398767006809 active site residue [active] 398767006810 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398767006811 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 398767006812 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 398767006813 active site residue [active] 398767006814 Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]; Region: RPL43A; COG1997 398767006815 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398767006816 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 398767006817 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398767006818 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398767006819 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006820 putative active site [active] 398767006821 heme pocket [chemical binding]; other site 398767006822 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767006823 putative active site [active] 398767006824 heme pocket [chemical binding]; other site 398767006825 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 398767006826 Walker A motif; other site 398767006827 ATP binding site [chemical binding]; other site 398767006828 Walker B motif; other site 398767006829 arginine finger; other site 398767006830 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398767006831 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767006832 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 398767006833 TPR motif; other site 398767006834 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767006835 binding surface 398767006836 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 398767006837 binding surface 398767006838 TPR motif; other site 398767006839 polyphosphate kinase; Provisional; Region: PRK05443 398767006840 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 398767006841 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 398767006842 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 398767006843 putative domain interface [polypeptide binding]; other site 398767006844 putative active site [active] 398767006845 catalytic site [active] 398767006846 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398767006847 putative active site [active] 398767006848 catalytic site [active] 398767006849 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 398767006850 Part of AAA domain; Region: AAA_19; pfam13245 398767006851 Family description; Region: UvrD_C_2; pfam13538 398767006852 Protein of unknown function DUF104; Region: DUF104; pfam01954 398767006853 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 398767006854 putative active site [active] 398767006855 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767006856 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398767006857 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 398767006858 putative active site [active] 398767006859 putative NTP binding site [chemical binding]; other site 398767006860 putative nucleic acid binding site [nucleotide binding]; other site 398767006861 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767006862 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 398767006863 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398767006864 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398767006865 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398767006866 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398767006867 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398767006868 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398767006869 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398767006870 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398767006871 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398767006872 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 398767006873 IMP binding site; other site 398767006874 dimer interface [polypeptide binding]; other site 398767006875 Protein of unknown function, DUF486; Region: DUF486; cl01236 398767006876 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398767006877 dinuclear metal binding motif [ion binding]; other site 398767006878 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 398767006879 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 398767006880 FeS/SAM binding site; other site 398767006881 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398767006882 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 398767006883 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398767006884 catalytic site [active] 398767006885 subunit interface [polypeptide binding]; other site 398767006886 dihydroorotase; Validated; Region: pyrC; PRK09357 398767006887 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 398767006888 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 398767006889 active site 398767006890 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 398767006891 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398767006892 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398767006893 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 398767006894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767006895 active site 398767006896 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 398767006897 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 398767006898 ligand binding site [chemical binding]; other site 398767006899 NAD binding site [chemical binding]; other site 398767006900 dimerization interface [polypeptide binding]; other site 398767006901 catalytic site [active] 398767006902 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 398767006903 putative L-serine binding site [chemical binding]; other site 398767006904 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 398767006905 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398767006906 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398767006907 Walker A/P-loop; other site 398767006908 ATP binding site [chemical binding]; other site 398767006909 Q-loop/lid; other site 398767006910 ABC transporter signature motif; other site 398767006911 Walker B; other site 398767006912 D-loop; other site 398767006913 H-loop/switch region; other site 398767006914 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767006915 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398767006916 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 398767006917 binding surface 398767006918 TPR motif; other site 398767006919 TPR repeat; Region: TPR_11; pfam13414 398767006920 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 398767006921 binding surface 398767006922 TPR motif; other site 398767006923 TPR repeat; Region: TPR_11; pfam13414 398767006924 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 398767006925 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 398767006926 binding surface 398767006927 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767006928 TPR motif; other site 398767006929 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398767006930 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 398767006931 binding surface 398767006932 TPR motif; other site 398767006933 TPR repeat; Region: TPR_11; pfam13414 398767006934 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 398767006935 binding surface 398767006936 TPR motif; other site 398767006937 TPR repeat; Region: TPR_11; pfam13414 398767006938 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398767006939 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398767006940 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 398767006941 peptide binding site [polypeptide binding]; other site 398767006942 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 398767006943 binding surface 398767006944 TPR motif; other site 398767006945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767006946 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 398767006947 binding surface 398767006948 TPR motif; other site 398767006949 TPR repeat; Region: TPR_11; pfam13414 398767006950 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 398767006951 binding surface 398767006952 TPR motif; other site 398767006953 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 398767006954 binding surface 398767006955 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767006956 TPR motif; other site 398767006957 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 398767006958 binding surface 398767006959 TPR motif; other site 398767006960 TPR repeat; Region: TPR_11; pfam13414 398767006961 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 398767006962 binding surface 398767006963 TPR motif; other site 398767006964 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 398767006965 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767006966 GAF domain; Region: GAF; cl17456 398767006967 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398767006968 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398767006969 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 398767006970 anti sigma factor interaction site; other site 398767006971 regulatory phosphorylation site [posttranslational modification]; other site 398767006972 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398767006973 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 398767006974 ATP binding site [chemical binding]; other site 398767006975 Mg2+ binding site [ion binding]; other site 398767006976 G-X-G motif; other site 398767006977 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 398767006978 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767006979 FeS/SAM binding site; other site 398767006980 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 398767006981 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398767006982 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398767006983 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767006984 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 398767006985 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767006986 catalytic residue [active] 398767006987 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398767006988 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 398767006989 dimerization interface [polypeptide binding]; other site 398767006990 putative ATP binding site [chemical binding]; other site 398767006991 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398767006992 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398767006993 active site 398767006994 substrate binding site [chemical binding]; other site 398767006995 cosubstrate binding site; other site 398767006996 catalytic site [active] 398767006997 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 398767006998 CotH protein; Region: CotH; pfam08757 398767006999 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 398767007000 Interdomain contacts; other site 398767007001 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398767007002 DNA polymerase III, delta subunit; Region: holA; TIGR01128 398767007003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767007004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767007005 metal binding site [ion binding]; metal-binding site 398767007006 active site 398767007007 I-site; other site 398767007008 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 398767007009 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 398767007010 dimerization interface [polypeptide binding]; other site 398767007011 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398767007012 Lipopolysaccharide-assembly; Region: LptE; pfam04390 398767007013 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398767007014 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398767007015 HIGH motif; other site 398767007016 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398767007017 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398767007018 active site 398767007019 KMSKS motif; other site 398767007020 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398767007021 tRNA binding surface [nucleotide binding]; other site 398767007022 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398767007023 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 398767007024 active site 398767007025 phosphorylation site [posttranslational modification] 398767007026 intermolecular recognition site; other site 398767007027 dimerization interface [polypeptide binding]; other site 398767007028 CheB methylesterase; Region: CheB_methylest; pfam01339 398767007029 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398767007030 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398767007031 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 398767007032 S-adenosylmethionine binding site [chemical binding]; other site 398767007033 HEAT repeats; Region: HEAT_2; pfam13646 398767007034 HEAT repeats; Region: HEAT_2; pfam13646 398767007035 HEAT repeats; Region: HEAT_2; pfam13646 398767007036 HEAT repeats; Region: HEAT_2; pfam13646 398767007037 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398767007038 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 398767007039 putative CheA interaction surface; other site 398767007040 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 398767007041 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 398767007042 Walker A motif; other site 398767007043 ATP binding site [chemical binding]; other site 398767007044 Walker B motif; other site 398767007045 arginine finger; other site 398767007046 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398767007047 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 398767007048 putative binding surface; other site 398767007049 active site 398767007050 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398767007051 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 398767007052 ATP binding site [chemical binding]; other site 398767007053 Mg2+ binding site [ion binding]; other site 398767007054 G-X-G motif; other site 398767007055 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 398767007056 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007057 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 398767007058 active site 398767007059 phosphorylation site [posttranslational modification] 398767007060 intermolecular recognition site; other site 398767007061 dimerization interface [polypeptide binding]; other site 398767007062 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767007063 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 398767007064 active site 398767007065 phosphorylation site [posttranslational modification] 398767007066 intermolecular recognition site; other site 398767007067 dimerization interface [polypeptide binding]; other site 398767007068 GTP-binding protein Der; Reviewed; Region: PRK00093 398767007069 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398767007070 G1 box; other site 398767007071 GTP/Mg2+ binding site [chemical binding]; other site 398767007072 Switch I region; other site 398767007073 G2 box; other site 398767007074 Switch II region; other site 398767007075 G3 box; other site 398767007076 G4 box; other site 398767007077 G5 box; other site 398767007078 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398767007079 G1 box; other site 398767007080 GTP/Mg2+ binding site [chemical binding]; other site 398767007081 Switch I region; other site 398767007082 G2 box; other site 398767007083 G3 box; other site 398767007084 Switch II region; other site 398767007085 G4 box; other site 398767007086 G5 box; other site 398767007087 GTPase Era; Reviewed; Region: era; PRK00089 398767007088 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398767007089 G1 box; other site 398767007090 GTP/Mg2+ binding site [chemical binding]; other site 398767007091 Switch I region; other site 398767007092 G2 box; other site 398767007093 Switch II region; other site 398767007094 G3 box; other site 398767007095 G4 box; other site 398767007096 G5 box; other site 398767007097 KH domain; Region: KH_2; pfam07650 398767007098 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398767007099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398767007100 active site 398767007101 HIGH motif; other site 398767007102 nucleotide binding site [chemical binding]; other site 398767007103 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398767007104 KMSKS motif; other site 398767007105 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398767007106 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 398767007107 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398767007108 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 398767007109 FeS/SAM binding site; other site 398767007110 TRAM domain; Region: TRAM; pfam01938 398767007111 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 398767007112 FAD binding site [chemical binding]; other site 398767007113 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 398767007114 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 398767007115 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 398767007116 putative active site [active] 398767007117 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 398767007118 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 398767007119 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 398767007120 substrate binding pocket [chemical binding]; other site 398767007121 dimer interface [polypeptide binding]; other site 398767007122 inhibitor binding site; inhibition site 398767007123 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 398767007124 B12 binding site [chemical binding]; other site 398767007125 cobalt ligand [ion binding]; other site 398767007126 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398767007127 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 398767007128 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 398767007129 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 398767007130 Walker A motif; other site 398767007131 ATP binding site [chemical binding]; other site 398767007132 Walker B motif; other site 398767007133 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 398767007134 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 398767007135 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 398767007136 HicB family; Region: HicB; pfam05534 398767007137 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 398767007138 Fic/DOC family; Region: Fic; cl00960 398767007139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 398767007140 AAA domain; Region: AAA_33; pfam13671 398767007141 heat shock protein 90; Provisional; Region: PRK05218 398767007142 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 398767007143 ATP binding site [chemical binding]; other site 398767007144 Mg2+ binding site [ion binding]; other site 398767007145 G-X-G motif; other site 398767007146 Domain of unknown function (DUF309); Region: DUF309; pfam03745 398767007147 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 398767007148 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 398767007149 RNA binding site [nucleotide binding]; other site 398767007150 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 398767007151 RNA binding site [nucleotide binding]; other site 398767007152 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 398767007153 RNA binding site [nucleotide binding]; other site 398767007154 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 398767007155 RNA binding site [nucleotide binding]; other site 398767007156 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 398767007157 RNA binding site [nucleotide binding]; other site 398767007158 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 398767007159 RNA binding site [nucleotide binding]; other site 398767007160 LytB protein; Region: LYTB; cl00507 398767007161 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 398767007162 cytidylate kinase; Provisional; Region: cmk; PRK00023 398767007163 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 398767007164 CMP-binding site; other site 398767007165 The sites determining sugar specificity; other site 398767007166 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 398767007167 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 398767007168 hinge; other site 398767007169 active site 398767007170 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 398767007171 prephenate dehydrogenase; Validated; Region: PRK08507 398767007172 Chorismate mutase type II; Region: CM_2; smart00830 398767007173 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 398767007174 Prephenate dehydratase; Region: PDT; pfam00800 398767007175 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 398767007176 putative L-Phe binding site [chemical binding]; other site 398767007177 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 398767007178 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398767007179 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398767007180 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 398767007181 Bacterial Ig-like domain; Region: Big_5; pfam13205 398767007182 Bacterial Ig-like domain; Region: Big_5; pfam13205 398767007183 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 398767007184 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 398767007185 dimerization domain [polypeptide binding]; other site 398767007186 dimer interface [polypeptide binding]; other site 398767007187 catalytic residues [active] 398767007188 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767007189 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 398767007190 active site 398767007191 phosphorylation site [posttranslational modification] 398767007192 intermolecular recognition site; other site 398767007193 dimerization interface [polypeptide binding]; other site 398767007194 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 398767007195 Walker A motif; other site 398767007196 ATP binding site [chemical binding]; other site 398767007197 Walker B motif; other site 398767007198 arginine finger; other site 398767007199 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767007200 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 398767007201 dimerization interface [polypeptide binding]; other site 398767007202 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 398767007203 dimer interface [polypeptide binding]; other site 398767007204 phosphorylation site [posttranslational modification] 398767007205 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 398767007206 ATP binding site [chemical binding]; other site 398767007207 G-X-G motif; other site 398767007208 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 398767007209 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398767007210 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 398767007211 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 398767007212 dimerization domain swap beta strand [polypeptide binding]; other site 398767007213 regulatory protein interface [polypeptide binding]; other site 398767007214 active site 398767007215 regulatory phosphorylation site [posttranslational modification]; other site 398767007216 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 398767007217 active pocket/dimerization site; other site 398767007218 active site 398767007219 phosphorylation site [posttranslational modification] 398767007220 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 398767007221 shikimate kinase; Reviewed; Region: aroK; PRK00131 398767007222 HPr kinase/phosphorylase; Provisional; Region: PRK05428 398767007223 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 398767007224 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 398767007225 Hpr binding site; other site 398767007226 active site 398767007227 homohexamer subunit interaction site [polypeptide binding]; other site 398767007228 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 398767007229 30S subunit binding site; other site 398767007230 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398767007231 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 398767007232 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398767007233 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398767007234 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 398767007235 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 398767007236 Walker A/P-loop; other site 398767007237 ATP binding site [chemical binding]; other site 398767007238 Q-loop/lid; other site 398767007239 ABC transporter signature motif; other site 398767007240 Walker B; other site 398767007241 D-loop; other site 398767007242 H-loop/switch region; other site 398767007243 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 398767007244 OstA-like protein; Region: OstA; pfam03968 398767007245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 398767007246 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 398767007247 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 398767007248 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 398767007249 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398767007250 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 398767007251 putative active site [active] 398767007252 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 398767007253 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 398767007254 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398767007255 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398767007256 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 398767007257 Walker A motif; other site 398767007258 ATP binding site [chemical binding]; other site 398767007259 Walker B motif; other site 398767007260 arginine finger; other site 398767007261 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398767007262 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 398767007263 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 398767007264 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 398767007265 Walker A motif; other site 398767007266 ATP binding site [chemical binding]; other site 398767007267 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 398767007268 Leucine rich repeat; Region: LRR_8; pfam13855 398767007269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767007270 Walker A/P-loop; other site 398767007271 ATP binding site [chemical binding]; other site 398767007272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 398767007273 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767007274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767007275 Integrase core domain; Region: rve; pfam00665 398767007276 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767007277 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 398767007278 Walker A motif; other site 398767007279 ATP binding site [chemical binding]; other site 398767007280 Walker B motif; other site 398767007281 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 398767007282 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398767007283 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 398767007284 TPP-binding site; other site 398767007285 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 398767007286 PYR/PP interface [polypeptide binding]; other site 398767007287 dimer interface [polypeptide binding]; other site 398767007288 TPP binding site [chemical binding]; other site 398767007289 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398767007290 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398767007291 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398767007292 substrate binding pocket [chemical binding]; other site 398767007293 chain length determination region; other site 398767007294 substrate-Mg2+ binding site; other site 398767007295 catalytic residues [active] 398767007296 aspartate-rich region 1; other site 398767007297 active site lid residues [active] 398767007298 aspartate-rich region 2; other site 398767007299 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14066 398767007300 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767007301 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767007302 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 398767007303 FeS/SAM binding site; other site 398767007304 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 398767007305 Predicted exporter [General function prediction only]; Region: COG4258 398767007306 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 398767007307 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 398767007308 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 398767007309 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 398767007310 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398767007311 active site 2 [active] 398767007312 active site 1 [active] 398767007313 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 398767007314 active site 398767007315 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 398767007316 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 398767007317 dimer interface [polypeptide binding]; other site 398767007318 active site 398767007319 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 398767007320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767007321 NAD(P) binding site [chemical binding]; other site 398767007322 active site 398767007323 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 398767007324 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767007325 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 398767007326 FeS/SAM binding site; other site 398767007327 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 398767007328 active site 398767007329 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 398767007330 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 398767007331 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 398767007332 ATP binding site [chemical binding]; other site 398767007333 putative Mg++ binding site [ion binding]; other site 398767007334 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 398767007335 ADP-ribose binding site [chemical binding]; other site 398767007336 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 398767007337 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767007338 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398767007339 HsdM N-terminal domain; Region: HsdM_N; pfam12161 398767007340 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767007341 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398767007342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398767007343 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767007344 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767007345 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 398767007346 FeS/SAM binding site; other site 398767007347 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767007348 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767007349 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 398767007350 FeS/SAM binding site; other site 398767007351 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 398767007352 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767007353 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 398767007354 FeS/SAM binding site; other site 398767007355 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398767007356 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398767007357 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398767007358 putative acyl-acceptor binding pocket; other site 398767007359 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 398767007360 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 398767007361 FeS/SAM binding site; other site 398767007362 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 398767007363 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767007364 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398767007365 Ligand binding site; other site 398767007366 Putative Catalytic site; other site 398767007367 DXD motif; other site 398767007368 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 398767007369 putative active site [active] 398767007370 putative catalytic site [active] 398767007371 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 398767007372 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398767007373 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 398767007374 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 398767007375 L-aspartate oxidase; Provisional; Region: PRK06175 398767007376 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398767007377 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 398767007378 putative Iron-sulfur protein interface [polypeptide binding]; other site 398767007379 proximal heme binding site [chemical binding]; other site 398767007380 distal heme binding site [chemical binding]; other site 398767007381 putative dimer interface [polypeptide binding]; other site 398767007382 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 398767007383 IHF dimer interface [polypeptide binding]; other site 398767007384 IHF - DNA interface [nucleotide binding]; other site 398767007385 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398767007386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398767007387 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398767007388 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398767007389 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 398767007390 motif II; other site 398767007391 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 398767007392 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 398767007393 Protein of unknown function (DUF497); Region: DUF497; pfam04365 398767007394 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 398767007395 Ferritin-like domain; Region: Ferritin; pfam00210 398767007396 ferroxidase diiron center [ion binding]; other site 398767007397 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398767007398 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398767007399 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398767007400 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398767007401 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398767007402 ligand binding site [chemical binding]; other site 398767007403 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398767007404 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 398767007405 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 398767007406 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007407 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 398767007408 active site 398767007409 phosphorylation site [posttranslational modification] 398767007410 intermolecular recognition site; other site 398767007411 dimerization interface [polypeptide binding]; other site 398767007412 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398767007413 CoenzymeA binding site [chemical binding]; other site 398767007414 subunit interaction site [polypeptide binding]; other site 398767007415 PHB binding site; other site 398767007416 NAD synthetase; Provisional; Region: PRK13980 398767007417 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 398767007418 homodimer interface [polypeptide binding]; other site 398767007419 NAD binding pocket [chemical binding]; other site 398767007420 ATP binding pocket [chemical binding]; other site 398767007421 Mg binding site [ion binding]; other site 398767007422 active-site loop [active] 398767007423 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398767007424 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 398767007425 putative active site [active] 398767007426 catalytic triad [active] 398767007427 putative dimer interface [polypeptide binding]; other site 398767007428 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 398767007429 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 398767007430 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 398767007431 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 398767007432 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 398767007433 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 398767007434 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 398767007435 Active site cavity [active] 398767007436 catalytic acid [active] 398767007437 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 398767007438 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 398767007439 putative NADP binding site [chemical binding]; other site 398767007440 putative substrate binding site [chemical binding]; other site 398767007441 active site 398767007442 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398767007443 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 398767007444 TPP-binding site; other site 398767007445 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 398767007446 PYR/PP interface [polypeptide binding]; other site 398767007447 dimer interface [polypeptide binding]; other site 398767007448 TPP binding site [chemical binding]; other site 398767007449 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398767007450 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 398767007451 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 398767007452 FeS/SAM binding site; other site 398767007453 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 398767007454 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 398767007455 catalytic residues [active] 398767007456 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398767007457 active site 398767007458 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 398767007459 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 398767007460 FeS/SAM binding site; other site 398767007461 Predicted membrane protein [Function unknown]; Region: COG3766 398767007462 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398767007463 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398767007464 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 398767007465 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 398767007466 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 398767007467 FeS/SAM binding site; other site 398767007468 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398767007469 CoenzymeA binding site [chemical binding]; other site 398767007470 subunit interaction site [polypeptide binding]; other site 398767007471 PHB binding site; other site 398767007472 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767007473 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 398767007474 active site 398767007475 phosphorylation site [posttranslational modification] 398767007476 intermolecular recognition site; other site 398767007477 dimerization interface [polypeptide binding]; other site 398767007478 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 398767007479 Walker A motif; other site 398767007480 ATP binding site [chemical binding]; other site 398767007481 Walker B motif; other site 398767007482 arginine finger; other site 398767007483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767007484 Protein of unknown function (DUF342); Region: DUF342; pfam03961 398767007485 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 398767007486 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 398767007487 inhibitor-cofactor binding pocket; inhibition site 398767007488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767007489 catalytic residue [active] 398767007490 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767007491 GAF domain; Region: GAF; pfam01590 398767007492 integron integrase; Region: integrase_gron; TIGR02249 398767007493 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 398767007494 Int/Topo IB signature motif; other site 398767007495 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 398767007496 HicB family; Region: HicB; pfam05534 398767007497 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398767007498 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767007499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767007500 Integrase core domain; Region: rve; pfam00665 398767007501 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767007502 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 398767007503 Walker A motif; other site 398767007504 ATP binding site [chemical binding]; other site 398767007505 Walker B motif; other site 398767007506 proteasome-activating nucleotidase; Provisional; Region: PRK03992 398767007507 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398767007508 MULE transposase domain; Region: MULE; pfam10551 398767007509 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 398767007510 HicB family; Region: HicB; pfam05534 398767007511 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767007512 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007513 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 398767007514 active site 398767007515 phosphorylation site [posttranslational modification] 398767007516 intermolecular recognition site; other site 398767007517 dimerization interface [polypeptide binding]; other site 398767007518 Domain of unknown function DUF77; Region: DUF77; pfam01910 398767007519 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767007520 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 398767007521 FeS/SAM binding site; other site 398767007522 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 398767007523 FMN binding site [chemical binding]; other site 398767007524 substrate binding site [chemical binding]; other site 398767007525 putative catalytic residue [active] 398767007526 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398767007527 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 398767007528 active site 398767007529 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398767007530 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 398767007531 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398767007532 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398767007533 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398767007534 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398767007535 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 398767007536 putative NADP binding site [chemical binding]; other site 398767007537 active site 398767007538 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 398767007539 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 398767007540 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398767007541 active site 398767007542 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398767007543 active site 398767007544 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 398767007545 Acyl transferase domain; Region: Acyl_transf_1; cl08282 398767007546 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398767007547 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398767007548 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 398767007549 active site 1 [active] 398767007550 dimer interface [polypeptide binding]; other site 398767007551 active site 2 [active] 398767007552 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 398767007553 active site 2 [active] 398767007554 dimer interface [polypeptide binding]; other site 398767007555 active site 1 [active] 398767007556 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398767007557 active site 2 [active] 398767007558 active site 1 [active] 398767007559 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 398767007560 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 398767007561 dimer interface [polypeptide binding]; other site 398767007562 active site 398767007563 CoA binding pocket [chemical binding]; other site 398767007564 haloalkane dehalogenase; Provisional; Region: PRK03592 398767007565 peptide synthase; Provisional; Region: PRK09274 398767007566 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 398767007567 acyl-activating enzyme (AAE) consensus motif; other site 398767007568 putative AMP binding site [chemical binding]; other site 398767007569 putative active site [active] 398767007570 putative CoA binding site [chemical binding]; other site 398767007571 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 398767007572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767007573 NAD(P) binding site [chemical binding]; other site 398767007574 active site 398767007575 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 398767007576 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398767007577 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 398767007578 active site 398767007579 metal binding site [ion binding]; metal-binding site 398767007580 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398767007581 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 398767007582 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 398767007583 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398767007584 catalytic residues [active] 398767007585 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398767007586 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398767007587 substrate binding pocket [chemical binding]; other site 398767007588 chain length determination region; other site 398767007589 substrate-Mg2+ binding site; other site 398767007590 catalytic residues [active] 398767007591 aspartate-rich region 1; other site 398767007592 active site lid residues [active] 398767007593 aspartate-rich region 2; other site 398767007594 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 398767007595 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 398767007596 ATP binding site [chemical binding]; other site 398767007597 Mg++ binding site [ion binding]; other site 398767007598 motif III; other site 398767007599 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 398767007600 nucleotide binding region [chemical binding]; other site 398767007601 ATP-binding site [chemical binding]; other site 398767007602 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 398767007603 Double zinc ribbon; Region: DZR; pfam12773 398767007604 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 398767007605 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 398767007606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767007607 catalytic residue [active] 398767007608 Uncharacterized conserved protein [Function unknown]; Region: COG1434 398767007609 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 398767007610 putative active site [active] 398767007611 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 398767007612 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 398767007613 homotrimer interaction site [polypeptide binding]; other site 398767007614 putative active site [active] 398767007615 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398767007616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767007617 Zn2+ binding site [ion binding]; other site 398767007618 Mg2+ binding site [ion binding]; other site 398767007619 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398767007620 synthetase active site [active] 398767007621 NTP binding site [chemical binding]; other site 398767007622 metal binding site [ion binding]; metal-binding site 398767007623 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 398767007624 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398767007625 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 398767007626 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398767007627 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 398767007628 catalytic site [active] 398767007629 G-X2-G-X-G-K; other site 398767007630 hypothetical protein; Provisional; Region: PRK11820 398767007631 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398767007632 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398767007633 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 398767007634 ATP binding site [chemical binding]; other site 398767007635 Mg2+ binding site [ion binding]; other site 398767007636 G-X-G motif; other site 398767007637 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007638 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 398767007639 active site 398767007640 phosphorylation site [posttranslational modification] 398767007641 intermolecular recognition site; other site 398767007642 dimerization interface [polypeptide binding]; other site 398767007643 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767007644 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 398767007645 active site 398767007646 phosphorylation site [posttranslational modification] 398767007647 intermolecular recognition site; other site 398767007648 dimerization interface [polypeptide binding]; other site 398767007649 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 398767007650 Walker A motif; other site 398767007651 ATP binding site [chemical binding]; other site 398767007652 Walker B motif; other site 398767007653 arginine finger; other site 398767007654 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767007655 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767007656 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767007657 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 398767007658 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398767007659 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767007660 heme-binding residues [chemical binding]; other site 398767007661 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398767007662 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398767007663 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 398767007664 ATP binding site [chemical binding]; other site 398767007665 Mg2+ binding site [ion binding]; other site 398767007666 G-X-G motif; other site 398767007667 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767007668 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 398767007669 active site 398767007670 phosphorylation site [posttranslational modification] 398767007671 intermolecular recognition site; other site 398767007672 dimerization interface [polypeptide binding]; other site 398767007673 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767007674 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 398767007675 active site 398767007676 phosphorylation site [posttranslational modification] 398767007677 intermolecular recognition site; other site 398767007678 dimerization interface [polypeptide binding]; other site 398767007679 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 398767007680 Walker A motif; other site 398767007681 ATP binding site [chemical binding]; other site 398767007682 Walker B motif; other site 398767007683 arginine finger; other site 398767007684 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767007685 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398767007686 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 398767007687 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398767007688 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767007689 Zn2+ binding site [ion binding]; other site 398767007690 Mg2+ binding site [ion binding]; other site 398767007691 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398767007692 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398767007693 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 398767007694 ligand binding site [chemical binding]; other site 398767007695 flexible hinge region; other site 398767007696 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 398767007697 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 398767007698 heterodimer interface [polypeptide binding]; other site 398767007699 active site 398767007700 FMN binding site [chemical binding]; other site 398767007701 homodimer interface [polypeptide binding]; other site 398767007702 substrate binding site [chemical binding]; other site 398767007703 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 398767007704 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 398767007705 FAD binding pocket [chemical binding]; other site 398767007706 FAD binding motif [chemical binding]; other site 398767007707 phosphate binding motif [ion binding]; other site 398767007708 beta-alpha-beta structure motif; other site 398767007709 NAD binding pocket [chemical binding]; other site 398767007710 Iron coordination center [ion binding]; other site 398767007711 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398767007712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767007713 Coenzyme A binding pocket [chemical binding]; other site 398767007714 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398767007715 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 398767007716 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 398767007717 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 398767007718 TPP-binding site [chemical binding]; other site 398767007719 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 398767007720 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 398767007721 dimer interface [polypeptide binding]; other site 398767007722 PYR/PP interface [polypeptide binding]; other site 398767007723 TPP binding site [chemical binding]; other site 398767007724 substrate binding site [chemical binding]; other site 398767007725 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398767007726 Ferredoxin [Energy production and conversion]; Region: COG1146 398767007727 Transposase domain (DUF772); Region: DUF772; pfam05598 398767007728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767007729 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767007730 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767007731 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 398767007732 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 398767007733 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 398767007734 S-adenosylmethionine binding site [chemical binding]; other site 398767007735 UGMP family protein; Validated; Region: PRK09604 398767007736 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 398767007737 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398767007738 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398767007739 putative active site [active] 398767007740 PhoH-like protein; Region: PhoH; pfam02562 398767007741 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 398767007742 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398767007743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767007744 catalytic residue [active] 398767007745 Right handed beta helix region; Region: Beta_helix; pfam13229 398767007746 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 398767007747 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 398767007748 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 398767007749 active site 398767007750 dimer interface [polypeptide binding]; other site 398767007751 effector binding site; other site 398767007752 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 398767007753 TSCPD domain; Region: TSCPD; pfam12637 398767007754 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 398767007755 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 398767007756 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 398767007757 active site 398767007758 DNA binding site [nucleotide binding] 398767007759 Int/Topo IB signature motif; other site 398767007760 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 398767007761 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398767007762 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398767007763 catalytic residues [active] 398767007764 catalytic nucleophile [active] 398767007765 Presynaptic Site I dimer interface [polypeptide binding]; other site 398767007766 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398767007767 Synaptic Flat tetramer interface [polypeptide binding]; other site 398767007768 Synaptic Site I dimer interface [polypeptide binding]; other site 398767007769 DNA binding site [nucleotide binding] 398767007770 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 398767007771 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767007772 active site 398767007773 metal binding site [ion binding]; metal-binding site 398767007774 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398767007775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767007776 Zn2+ binding site [ion binding]; other site 398767007777 Mg2+ binding site [ion binding]; other site 398767007778 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 398767007779 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398767007780 Walker A motif; other site 398767007781 ATP binding site [chemical binding]; other site 398767007782 Walker B motif; other site 398767007783 arginine finger; other site 398767007784 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 398767007785 binding surface 398767007786 TPR motif; other site 398767007787 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 398767007788 binding surface 398767007789 TPR motif; other site 398767007790 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 398767007791 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 398767007792 PcfJ-like protein; Region: PcfJ; pfam14284 398767007793 Peptidase C10 family; Region: Peptidase_C10; pfam01640 398767007794 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767007795 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767007796 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398767007797 CARDB; Region: CARDB; pfam07705 398767007798 CARDB; Region: CARDB; pfam07705 398767007799 Peptidase C10 family; Region: Peptidase_C10; pfam01640 398767007800 Putative zinc-finger; Region: zf-HC2; pfam13490 398767007801 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398767007802 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767007803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 398767007804 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 398767007805 active site 398767007806 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767007807 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 398767007808 metal-binding site 398767007809 TPR repeat; Region: TPR_11; pfam13414 398767007810 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 398767007811 binding surface 398767007812 TPR motif; other site 398767007813 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 398767007814 active site 398767007815 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767007816 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 398767007817 active site 398767007818 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767007819 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 398767007820 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 398767007821 FeS/SAM binding site; other site 398767007822 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 398767007823 sulfotransferase; Region: PLN02164 398767007824 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 398767007825 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398767007826 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767007827 Rhomboid family; Region: Rhomboid; cl11446 398767007828 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 398767007829 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398767007830 NAD binding site [chemical binding]; other site 398767007831 ligand binding site [chemical binding]; other site 398767007832 catalytic site [active] 398767007833 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398767007834 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 398767007835 IHF dimer interface [polypeptide binding]; other site 398767007836 IHF - DNA interface [nucleotide binding]; other site 398767007837 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 398767007838 Uncharacterized conserved protein [Function unknown]; Region: COG0432 398767007839 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 398767007840 metal binding triad [ion binding]; metal-binding site 398767007841 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398767007842 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 398767007843 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398767007844 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398767007845 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398767007846 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398767007847 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 398767007848 nucleotide binding site/active site [active] 398767007849 HIT family signature motif; other site 398767007850 catalytic residue [active] 398767007851 Protein of unknown function, DUF479; Region: DUF479; cl01203 398767007852 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398767007853 active site 2 [active] 398767007854 active site 1 [active] 398767007855 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398767007856 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 398767007857 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 398767007858 active site 398767007859 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398767007860 active site 2 [active] 398767007861 active site 1 [active] 398767007862 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 398767007863 AAA domain; Region: AAA_26; pfam13500 398767007864 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398767007865 biotin synthase; Region: bioB; TIGR00433 398767007866 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 398767007867 FeS/SAM binding site; other site 398767007868 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 398767007869 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767007870 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398767007871 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 398767007872 Walker A motif; other site 398767007873 ATP binding site [chemical binding]; other site 398767007874 Walker B motif; other site 398767007875 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398767007876 Protein export membrane protein; Region: SecD_SecF; cl14618 398767007877 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 398767007878 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 398767007879 active site 398767007880 metal binding site [ion binding]; metal-binding site 398767007881 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398767007882 NlpC/P60 family; Region: NLPC_P60; cl17555 398767007883 Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction; Region: CysPc; cl00051 398767007884 catalytic site [active] 398767007885 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 398767007886 Cupin domain; Region: Cupin_2; pfam07883 398767007887 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 398767007888 dimer interface [polypeptide binding]; other site 398767007889 catalytic motif [active] 398767007890 nucleoside/Zn binding site; other site 398767007891 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398767007892 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398767007893 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398767007894 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398767007895 Nucleoside recognition; Region: Gate; pfam07670 398767007896 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398767007897 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398767007898 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 398767007899 putative ligand binding site [chemical binding]; other site 398767007900 putative NAD binding site [chemical binding]; other site 398767007901 catalytic site [active] 398767007902 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 398767007903 Carbon starvation protein CstA; Region: CstA; pfam02554 398767007904 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 398767007905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767007906 Coenzyme A binding pocket [chemical binding]; other site 398767007907 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398767007908 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767007909 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 398767007910 substrate binding pocket [chemical binding]; other site 398767007911 membrane-bound complex binding site; other site 398767007912 hinge residues; other site 398767007913 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 398767007914 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 398767007915 dimer interface [polypeptide binding]; other site 398767007916 PYR/PP interface [polypeptide binding]; other site 398767007917 TPP binding site [chemical binding]; other site 398767007918 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398767007919 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 398767007920 TPP-binding site [chemical binding]; other site 398767007921 dimer interface [polypeptide binding]; other site 398767007922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767007923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767007924 putative substrate translocation pore; other site 398767007925 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398767007926 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 398767007927 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767007928 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 398767007929 dimer interface [polypeptide binding]; other site 398767007930 phosphorylation site [posttranslational modification] 398767007931 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 398767007932 ATP binding site [chemical binding]; other site 398767007933 Mg2+ binding site [ion binding]; other site 398767007934 G-X-G motif; other site 398767007935 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007936 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 398767007937 active site 398767007938 phosphorylation site [posttranslational modification] 398767007939 intermolecular recognition site; other site 398767007940 dimerization interface [polypeptide binding]; other site 398767007941 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 398767007942 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398767007943 acyl-activating enzyme (AAE) consensus motif; other site 398767007944 AMP binding site [chemical binding]; other site 398767007945 active site 398767007946 CoA binding site [chemical binding]; other site 398767007947 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 398767007948 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 398767007949 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 398767007950 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 398767007951 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 398767007952 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 398767007953 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398767007954 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 398767007955 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 398767007956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767007957 homodimer interface [polypeptide binding]; other site 398767007958 catalytic residue [active] 398767007959 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 398767007960 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398767007961 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398767007962 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398767007963 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 398767007964 dimer interface [polypeptide binding]; other site 398767007965 active site 398767007966 CoA binding pocket [chemical binding]; other site 398767007967 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 398767007968 anti sigma factor interaction site; other site 398767007969 regulatory phosphorylation site [posttranslational modification]; other site 398767007970 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 398767007971 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398767007972 Ligand binding site; other site 398767007973 metal-binding site 398767007974 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398767007975 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 398767007976 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398767007977 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767007978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767007979 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398767007980 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 398767007981 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398767007982 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398767007983 acyl carrier protein; Provisional; Region: acpP; PRK00982 398767007984 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 398767007985 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398767007986 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398767007987 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 398767007988 dimer interface [polypeptide binding]; other site 398767007989 active site 398767007990 CoA binding pocket [chemical binding]; other site 398767007991 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398767007992 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767007993 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767007994 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767007995 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 398767007996 Response regulator receiver domain; Region: Response_reg; pfam00072 398767007997 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 398767007998 active site 398767007999 phosphorylation site [posttranslational modification] 398767008000 intermolecular recognition site; other site 398767008001 dimerization interface [polypeptide binding]; other site 398767008002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767008003 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 398767008004 ATP binding site [chemical binding]; other site 398767008005 Mg2+ binding site [ion binding]; other site 398767008006 G-X-G motif; other site 398767008007 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cl09238 398767008008 putative proteinase inhibition site; other site 398767008009 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 398767008010 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 398767008011 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 398767008012 nucleoside/Zn binding site; other site 398767008013 dimer interface [polypeptide binding]; other site 398767008014 catalytic motif [active] 398767008015 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398767008016 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398767008017 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398767008018 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008019 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 398767008020 active site 398767008021 phosphorylation site [posttranslational modification] 398767008022 intermolecular recognition site; other site 398767008023 dimerization interface [polypeptide binding]; other site 398767008024 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 398767008025 dimer interface [polypeptide binding]; other site 398767008026 phosphorylation site [posttranslational modification] 398767008027 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 398767008028 ATP binding site [chemical binding]; other site 398767008029 Mg2+ binding site [ion binding]; other site 398767008030 G-X-G motif; other site 398767008031 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 398767008032 anti sigma factor interaction site; other site 398767008033 regulatory phosphorylation site [posttranslational modification]; other site 398767008034 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 398767008035 EF-hand domain pair; Region: EF_hand_5; pfam13499 398767008036 Ca2+ binding site [ion binding]; other site 398767008037 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767008038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767008039 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767008040 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 398767008041 diiron binding motif [ion binding]; other site 398767008042 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 398767008043 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767008044 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767008045 ABC transporter; Region: ABC_tran_2; pfam12848 398767008046 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767008047 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008048 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 398767008049 active site 398767008050 phosphorylation site [posttranslational modification] 398767008051 intermolecular recognition site; other site 398767008052 dimerization interface [polypeptide binding]; other site 398767008053 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767008054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008055 metal binding site [ion binding]; metal-binding site 398767008056 active site 398767008057 I-site; other site 398767008058 PilZ domain; Region: PilZ; pfam07238 398767008059 Protein of unknown function (DUF721); Region: DUF721; pfam05258 398767008060 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 398767008061 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 398767008062 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 398767008063 CPxP motif; other site 398767008064 signal recognition particle protein; Provisional; Region: PRK10867 398767008065 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 398767008066 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 398767008067 P loop; other site 398767008068 GTP binding site [chemical binding]; other site 398767008069 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398767008070 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 398767008071 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 398767008072 KH domain; Region: KH_4; pfam13083 398767008073 G-X-X-G motif; other site 398767008074 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 398767008075 RimM N-terminal domain; Region: RimM; pfam01782 398767008076 PRC-barrel domain; Region: PRC; pfam05239 398767008077 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 398767008078 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 398767008079 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 398767008080 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398767008081 RNA/DNA hybrid binding site [nucleotide binding]; other site 398767008082 active site 398767008083 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767008084 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398767008085 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 398767008086 Walker A motif; other site 398767008087 ATP binding site [chemical binding]; other site 398767008088 Walker B motif; other site 398767008089 HDOD domain; Region: HDOD; pfam08668 398767008090 YceG-like family; Region: YceG; pfam02618 398767008091 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398767008092 dimerization interface [polypeptide binding]; other site 398767008093 PAS fold; Region: PAS_4; pfam08448 398767008094 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767008095 putative active site [active] 398767008096 heme pocket [chemical binding]; other site 398767008097 PAS domain S-box; Region: sensory_box; TIGR00229 398767008098 PAS domain; Region: PAS; smart00091 398767008099 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 398767008100 putative active site [active] 398767008101 heme pocket [chemical binding]; other site 398767008102 PAS domain; Region: PAS_8; pfam13188 398767008103 putative active site [active] 398767008104 heme pocket [chemical binding]; other site 398767008105 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 398767008106 dimer interface [polypeptide binding]; other site 398767008107 phosphorylation site [posttranslational modification] 398767008108 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 398767008109 ATP binding site [chemical binding]; other site 398767008110 Mg2+ binding site [ion binding]; other site 398767008111 G-X-G motif; other site 398767008112 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 398767008113 active site 398767008114 phosphorylation site [posttranslational modification] 398767008115 intermolecular recognition site; other site 398767008116 dimerization interface [polypeptide binding]; other site 398767008117 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008118 metal binding site [ion binding]; metal-binding site 398767008119 active site 398767008120 I-site; other site 398767008121 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 398767008122 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 398767008123 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 398767008124 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 398767008125 putative NADH binding site [chemical binding]; other site 398767008126 putative active site [active] 398767008127 nudix motif; other site 398767008128 putative metal binding site [ion binding]; other site 398767008129 PAS domain; Region: PAS_9; pfam13426 398767008130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767008131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008132 metal binding site [ion binding]; metal-binding site 398767008133 active site 398767008134 I-site; other site 398767008135 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 398767008136 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 398767008137 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 398767008138 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 398767008139 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 398767008140 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 398767008141 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 398767008142 G1 box; other site 398767008143 GTP/Mg2+ binding site [chemical binding]; other site 398767008144 Switch I region; other site 398767008145 G2 box; other site 398767008146 G3 box; other site 398767008147 Switch II region; other site 398767008148 G4 box; other site 398767008149 G5 box; other site 398767008150 Nucleoside recognition; Region: Gate; pfam07670 398767008151 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 398767008152 Nucleoside recognition; Region: Gate; pfam07670 398767008153 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398767008154 metal binding site 2 [ion binding]; metal-binding site 398767008155 putative DNA binding helix; other site 398767008156 metal binding site 1 [ion binding]; metal-binding site 398767008157 dimer interface [polypeptide binding]; other site 398767008158 structural Zn2+ binding site [ion binding]; other site 398767008159 PemK-like protein; Region: PemK; pfam02452 398767008160 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 398767008161 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 398767008162 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 398767008163 putative active site [active] 398767008164 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 398767008165 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 398767008166 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 398767008167 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 398767008168 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 398767008169 CT1975-like protein; Region: Cas_CT1975; pfam09344 398767008170 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 398767008171 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 398767008172 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 398767008173 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 398767008174 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 398767008175 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398767008176 active site 398767008177 catalytic site [active] 398767008178 substrate binding site [chemical binding]; other site 398767008179 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 398767008180 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 398767008181 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 398767008182 active site 398767008183 ribulose/triose binding site [chemical binding]; other site 398767008184 phosphate binding site [ion binding]; other site 398767008185 substrate (anthranilate) binding pocket [chemical binding]; other site 398767008186 product (indole) binding pocket [chemical binding]; other site 398767008187 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398767008188 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398767008189 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398767008190 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008191 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 398767008192 active site 398767008193 phosphorylation site [posttranslational modification] 398767008194 intermolecular recognition site; other site 398767008195 dimerization interface [polypeptide binding]; other site 398767008196 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398767008197 Beta-lactamase; Region: Beta-lactamase; pfam00144 398767008198 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 398767008199 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 398767008200 heterotetramer interface [polypeptide binding]; other site 398767008201 active site pocket [active] 398767008202 cleavage site 398767008203 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 398767008204 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 398767008205 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 398767008206 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 398767008207 nucleotide binding region [chemical binding]; other site 398767008208 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398767008209 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 398767008210 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398767008211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398767008212 rod shape-determining protein MreC; Provisional; Region: PRK13922 398767008213 rod shape-determining protein MreC; Region: MreC; pfam04085 398767008214 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 398767008215 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 398767008216 active site 398767008217 motif I; other site 398767008218 motif II; other site 398767008219 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 398767008220 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398767008221 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 398767008222 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398767008223 tandem repeat interface [polypeptide binding]; other site 398767008224 oligomer interface [polypeptide binding]; other site 398767008225 active site residues [active] 398767008226 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 398767008227 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767008228 active site 398767008229 metal binding site [ion binding]; metal-binding site 398767008230 homotetramer interface [polypeptide binding]; other site 398767008231 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 398767008232 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 398767008233 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 398767008234 ketol-acid reductoisomerase; Provisional; Region: PRK05479 398767008235 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 398767008236 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398767008237 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398767008238 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398767008239 putative valine binding site [chemical binding]; other site 398767008240 dimer interface [polypeptide binding]; other site 398767008241 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398767008242 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 398767008243 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398767008244 PYR/PP interface [polypeptide binding]; other site 398767008245 dimer interface [polypeptide binding]; other site 398767008246 TPP binding site [chemical binding]; other site 398767008247 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398767008248 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 398767008249 TPP-binding site [chemical binding]; other site 398767008250 dimer interface [polypeptide binding]; other site 398767008251 Protein of unknown function (DUF995); Region: DUF995; pfam06191 398767008252 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398767008253 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398767008254 PBP superfamily domain; Region: PBP_like_2; cl17296 398767008255 HAMP domain; Region: HAMP; pfam00672 398767008256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767008257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767008258 dimer interface [polypeptide binding]; other site 398767008259 putative CheW interface [polypeptide binding]; other site 398767008260 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 398767008261 homodimer interface [polypeptide binding]; other site 398767008262 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 398767008263 active site pocket [active] 398767008264 recombination factor protein RarA; Reviewed; Region: PRK13342 398767008265 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 398767008266 Walker A motif; other site 398767008267 ATP binding site [chemical binding]; other site 398767008268 Walker B motif; other site 398767008269 arginine finger; other site 398767008270 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398767008271 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 398767008272 phosphofructokinase; Region: PFK_mixed; TIGR02483 398767008273 active site 398767008274 ADP/pyrophosphate binding site [chemical binding]; other site 398767008275 dimerization interface [polypeptide binding]; other site 398767008276 allosteric effector site; other site 398767008277 fructose-1,6-bisphosphate binding site; other site 398767008278 Transposase domain (DUF772); Region: DUF772; pfam05598 398767008279 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767008280 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767008281 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767008282 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398767008283 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398767008284 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398767008285 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 398767008286 non-specific DNA binding site [nucleotide binding]; other site 398767008287 salt bridge; other site 398767008288 sequence-specific DNA binding site [nucleotide binding]; other site 398767008289 6-phosphofructokinase; Provisional; Region: PRK03202 398767008290 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 398767008291 active site 398767008292 ADP/pyrophosphate binding site [chemical binding]; other site 398767008293 dimerization interface [polypeptide binding]; other site 398767008294 allosteric effector site; other site 398767008295 fructose-1,6-bisphosphate binding site; other site 398767008296 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398767008297 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 398767008298 oligomer interface [polypeptide binding]; other site 398767008299 metal binding site [ion binding]; metal-binding site 398767008300 metal binding site [ion binding]; metal-binding site 398767008301 Cl binding site [ion binding]; other site 398767008302 aspartate ring; other site 398767008303 basic sphincter; other site 398767008304 putative hydrophobic gate; other site 398767008305 periplasmic entrance; other site 398767008306 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 398767008307 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 398767008308 Ligand Binding Site [chemical binding]; other site 398767008309 TilS substrate C-terminal domain; Region: TilS_C; smart00977 398767008310 FtsH Extracellular; Region: FtsH_ext; pfam06480 398767008311 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398767008312 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 398767008313 Walker A motif; other site 398767008314 ATP binding site [chemical binding]; other site 398767008315 Walker B motif; other site 398767008316 arginine finger; other site 398767008317 Peptidase family M41; Region: Peptidase_M41; pfam01434 398767008318 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 398767008319 dihydropteroate synthase; Region: DHPS; TIGR01496 398767008320 substrate binding pocket [chemical binding]; other site 398767008321 dimer interface [polypeptide binding]; other site 398767008322 inhibitor binding site; inhibition site 398767008323 Uncharacterized conserved protein [Function unknown]; Region: COG1624 398767008324 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 398767008325 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 398767008326 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 398767008327 active site 398767008328 substrate binding site [chemical binding]; other site 398767008329 metal binding site [ion binding]; metal-binding site 398767008330 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 398767008331 active site 398767008332 hydrophilic channel; other site 398767008333 dimerization interface [polypeptide binding]; other site 398767008334 catalytic residues [active] 398767008335 active site lid [active] 398767008336 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14656 398767008337 putative carbohydrate kinase; Provisional; Region: PRK10565 398767008338 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 398767008339 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 398767008340 putative substrate binding site [chemical binding]; other site 398767008341 putative ATP binding site [chemical binding]; other site 398767008342 FOG: CBS domain [General function prediction only]; Region: COG0517 398767008343 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 398767008344 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 398767008345 aspartate kinase; Reviewed; Region: PRK06635 398767008346 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 398767008347 putative nucleotide binding site [chemical binding]; other site 398767008348 putative catalytic residues [active] 398767008349 putative Mg ion binding site [ion binding]; other site 398767008350 putative aspartate binding site [chemical binding]; other site 398767008351 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 398767008352 putative allosteric regulatory site; other site 398767008353 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 398767008354 putative allosteric regulatory residue; other site 398767008355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767008356 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 398767008357 dimer interface [polypeptide binding]; other site 398767008358 phosphorylation site [posttranslational modification] 398767008359 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 398767008360 ATP binding site [chemical binding]; other site 398767008361 Mg2+ binding site [ion binding]; other site 398767008362 G-X-G motif; other site 398767008363 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008364 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 398767008365 active site 398767008366 phosphorylation site [posttranslational modification] 398767008367 intermolecular recognition site; other site 398767008368 dimerization interface [polypeptide binding]; other site 398767008369 TPR repeat; Region: TPR_11; pfam13414 398767008370 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 398767008371 TPR motif; other site 398767008372 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767008373 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 398767008374 TPR motif; other site 398767008375 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767008376 binding surface 398767008377 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 398767008378 TPR motif; other site 398767008379 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767008380 binding surface 398767008381 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767008382 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 398767008383 binding surface 398767008384 TPR motif; other site 398767008385 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767008386 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 398767008387 binding surface 398767008388 TPR motif; other site 398767008389 CHAT domain; Region: CHAT; pfam12770 398767008390 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 398767008391 FOG: WD40 repeat [General function prediction only]; Region: COG2319 398767008392 Caspase domain; Region: Peptidase_C14; pfam00656 398767008393 BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure; Region: KU; cd00109 398767008394 trypsin interaction site; other site 398767008395 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 398767008396 binding surface 398767008397 TPR repeat; Region: TPR_11; pfam13414 398767008398 TPR motif; other site 398767008399 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767008400 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 398767008401 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398767008402 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398767008403 HIGH motif; other site 398767008404 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398767008405 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398767008406 active site 398767008407 KMSKS motif; other site 398767008408 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398767008409 tRNA binding surface [nucleotide binding]; other site 398767008410 anticodon binding site; other site 398767008411 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398767008412 selenobiotic family peptide radical SAM maturase; Region: rSAM_for_selen; TIGR04082 398767008413 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 398767008414 FeS/SAM binding site; other site 398767008415 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398767008416 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398767008417 Predicted dehydrogenase [General function prediction only]; Region: COG0579 398767008418 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398767008419 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398767008420 glutamine binding [chemical binding]; other site 398767008421 catalytic triad [active] 398767008422 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398767008423 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398767008424 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 398767008425 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 398767008426 RNA binding site [nucleotide binding]; other site 398767008427 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 398767008428 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 398767008429 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 398767008430 anthranilate synthase component I; Provisional; Region: PRK13565 398767008431 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398767008432 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398767008433 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398767008434 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008435 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 398767008436 active site 398767008437 phosphorylation site [posttranslational modification] 398767008438 intermolecular recognition site; other site 398767008439 dimerization interface [polypeptide binding]; other site 398767008440 pyruvate carboxylase; Reviewed; Region: PRK12999 398767008441 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398767008442 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398767008443 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398767008444 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 398767008445 active site 398767008446 catalytic residues [active] 398767008447 metal binding site [ion binding]; metal-binding site 398767008448 homodimer binding site [polypeptide binding]; other site 398767008449 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 398767008450 carboxyltransferase (CT) interaction site; other site 398767008451 biotinylation site [posttranslational modification]; other site 398767008452 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; cl00202 398767008453 iron binding site [ion binding]; other site 398767008454 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 398767008455 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398767008456 ATP binding site [chemical binding]; other site 398767008457 Mg++ binding site [ion binding]; other site 398767008458 motif III; other site 398767008459 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 398767008460 nucleotide binding region [chemical binding]; other site 398767008461 ATP-binding site [chemical binding]; other site 398767008462 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 398767008463 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 398767008464 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 398767008465 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 398767008466 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 398767008467 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767008468 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 398767008469 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 398767008470 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767008471 Helix-turn-helix domain; Region: HTH_17; pfam12728 398767008472 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 398767008473 active site 398767008474 phosphorylation site [posttranslational modification] 398767008475 hydrogenase 4 subunit B; Validated; Region: PRK06521 398767008476 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767008477 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 398767008478 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 398767008479 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398767008480 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398767008481 mobile mystery protein A; Region: mob_myst_A; TIGR02612 398767008482 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 398767008483 non-specific DNA binding site [nucleotide binding]; other site 398767008484 salt bridge; other site 398767008485 sequence-specific DNA binding site [nucleotide binding]; other site 398767008486 mobile mystery protein B; Region: mob_myst_B; TIGR02613 398767008487 Fic/DOC family; Region: Fic; pfam02661 398767008488 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 398767008489 AAA domain; Region: AAA_14; pfam13173 398767008490 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 398767008491 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 398767008492 putative active site [active] 398767008493 putative NTP binding site [chemical binding]; other site 398767008494 putative nucleic acid binding site [nucleotide binding]; other site 398767008495 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 398767008496 Fic/DOC family; Region: Fic; cl00960 398767008497 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; cl00257 398767008498 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 398767008499 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 398767008500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398767008501 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398767008502 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398767008503 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398767008504 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 398767008505 integron integrase; Region: integrase_gron; TIGR02249 398767008506 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 398767008507 Int/Topo IB signature motif; other site 398767008508 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 398767008509 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398767008510 active site 398767008511 NTP binding site [chemical binding]; other site 398767008512 metal binding triad [ion binding]; metal-binding site 398767008513 beta-lactamase TEM; Provisional; Region: PRK15442 398767008514 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 398767008515 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398767008516 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 398767008517 P-loop; other site 398767008518 Magnesium ion binding site [ion binding]; other site 398767008519 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 398767008520 Magnesium ion binding site [ion binding]; other site 398767008521 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 398767008522 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 398767008523 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 398767008524 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398767008525 Predicted permeases [General function prediction only]; Region: COG0795 398767008526 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398767008527 Predicted permeases [General function prediction only]; Region: COG0795 398767008528 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398767008529 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398767008530 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398767008531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767008532 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398767008533 dimer interface [polypeptide binding]; other site 398767008534 phosphorylation site [posttranslational modification] 398767008535 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 398767008536 ATP binding site [chemical binding]; other site 398767008537 Mg2+ binding site [ion binding]; other site 398767008538 G-X-G motif; other site 398767008539 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 398767008540 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 398767008541 non-heme iron binding site [ion binding]; other site 398767008542 dimer interface [polypeptide binding]; other site 398767008543 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 398767008544 non-heme iron binding site [ion binding]; other site 398767008545 dimer interface [polypeptide binding]; other site 398767008546 GTP-binding protein YchF; Reviewed; Region: PRK09601 398767008547 YchF GTPase; Region: YchF; cd01900 398767008548 G1 box; other site 398767008549 GTP/Mg2+ binding site [chemical binding]; other site 398767008550 Switch I region; other site 398767008551 G2 box; other site 398767008552 Switch II region; other site 398767008553 G3 box; other site 398767008554 G4 box; other site 398767008555 G5 box; other site 398767008556 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 398767008557 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 398767008558 putative active site [active] 398767008559 catalytic residue [active] 398767008560 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 398767008561 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398767008562 5S rRNA interface [nucleotide binding]; other site 398767008563 CTC domain interface [polypeptide binding]; other site 398767008564 L16 interface [polypeptide binding]; other site 398767008565 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398767008566 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398767008567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767008568 active site 398767008569 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 398767008570 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398767008571 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398767008572 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 398767008573 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 398767008574 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 398767008575 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 398767008576 putative active site; other site 398767008577 catalytic triad [active] 398767008578 putative dimer interface [polypeptide binding]; other site 398767008579 aspartate aminotransferase; Provisional; Region: PRK06836 398767008580 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 398767008581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767008582 homodimer interface [polypeptide binding]; other site 398767008583 catalytic residue [active] 398767008584 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398767008585 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 398767008586 DNA binding residues [nucleotide binding] 398767008587 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398767008588 Sodium Bile acid symporter family; Region: SBF; cl17470 398767008589 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398767008590 trimerization site [polypeptide binding]; other site 398767008591 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398767008592 active site 398767008593 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 398767008594 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 398767008595 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 398767008596 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 398767008597 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 398767008598 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398767008599 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398767008600 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398767008601 Domain of unknown function DUF21; Region: DUF21; pfam01595 398767008602 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 398767008603 Transporter associated domain; Region: CorC_HlyC; smart01091 398767008604 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398767008605 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398767008606 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 398767008607 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 398767008608 serine O-acetyltransferase; Region: cysE; TIGR01172 398767008609 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 398767008610 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 398767008611 trimer interface [polypeptide binding]; other site 398767008612 active site 398767008613 substrate binding site [chemical binding]; other site 398767008614 CoA binding site [chemical binding]; other site 398767008615 Homeobox associated leucine zipper; Region: HALZ; cl02577 398767008616 fumarate hydratase; Provisional; Region: PRK15389 398767008617 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 398767008618 Fumarase C-terminus; Region: Fumerase_C; pfam05683 398767008619 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 398767008620 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 398767008621 Walker A motif; other site 398767008622 ATP binding site [chemical binding]; other site 398767008623 Walker B motif; other site 398767008624 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398767008625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767008626 Walker A/P-loop; other site 398767008627 ATP binding site [chemical binding]; other site 398767008628 Q-loop/lid; other site 398767008629 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767008630 ABC transporter signature motif; other site 398767008631 Walker B; other site 398767008632 D-loop; other site 398767008633 ABC transporter; Region: ABC_tran_2; pfam12848 398767008634 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767008635 ABC transporter; Region: ABC_tran_2; pfam12848 398767008636 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 398767008637 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 398767008638 ATP binding site [chemical binding]; other site 398767008639 Mg++ binding site [ion binding]; other site 398767008640 motif III; other site 398767008641 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 398767008642 nucleotide binding region [chemical binding]; other site 398767008643 ATP-binding site [chemical binding]; other site 398767008644 CHASE2 domain; Region: CHASE2; pfam05226 398767008645 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 398767008646 cyclase homology domain; Region: CHD; cd07302 398767008647 nucleotidyl binding site; other site 398767008648 metal binding site [ion binding]; metal-binding site 398767008649 dimer interface [polypeptide binding]; other site 398767008650 FecR protein; Region: FecR; pfam04773 398767008651 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767008652 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398767008653 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 398767008654 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 398767008655 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc2; cd04597 398767008656 DRTGG domain; Region: DRTGG; pfam07085 398767008657 DHH family; Region: DHH; pfam01368 398767008658 DHHA2 domain; Region: DHHA2; pfam02833 398767008659 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 398767008660 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767008661 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 398767008662 putative FMN binding site [chemical binding]; other site 398767008663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767008664 Zn2+ binding site [ion binding]; other site 398767008665 Mg2+ binding site [ion binding]; other site 398767008666 Flagellin N-methylase; Region: FliB; pfam03692 398767008667 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 398767008668 DNA-binding site [nucleotide binding]; DNA binding site 398767008669 RNA-binding motif; other site 398767008670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 398767008671 AAA domain; Region: AAA_33; pfam13671 398767008672 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 398767008673 active site 398767008674 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398767008675 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767008676 putative substrate translocation pore; other site 398767008677 PilZ domain; Region: PilZ; pfam07238 398767008678 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398767008679 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 398767008680 dimerization interface [polypeptide binding]; other site 398767008681 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 398767008682 dimer interface [polypeptide binding]; other site 398767008683 phosphorylation site [posttranslational modification] 398767008684 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 398767008685 ATP binding site [chemical binding]; other site 398767008686 Mg2+ binding site [ion binding]; other site 398767008687 G-X-G motif; other site 398767008688 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767008689 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 398767008690 active site 398767008691 phosphorylation site [posttranslational modification] 398767008692 intermolecular recognition site; other site 398767008693 dimerization interface [polypeptide binding]; other site 398767008694 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 398767008695 Walker A motif; other site 398767008696 ATP binding site [chemical binding]; other site 398767008697 Walker B motif; other site 398767008698 arginine finger; other site 398767008699 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398767008700 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767008701 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 398767008702 substrate binding pocket [chemical binding]; other site 398767008703 membrane-bound complex binding site; other site 398767008704 hinge residues; other site 398767008705 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767008706 PAS fold; Region: PAS_3; pfam08447 398767008707 putative active site [active] 398767008708 heme pocket [chemical binding]; other site 398767008709 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767008710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008711 metal binding site [ion binding]; metal-binding site 398767008712 active site 398767008713 I-site; other site 398767008714 Hemerythrin; Region: Hemerythrin; cd12107 398767008715 Fe binding site [ion binding]; other site 398767008716 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398767008717 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 398767008718 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 398767008719 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 398767008720 homodimer interface [polypeptide binding]; other site 398767008721 substrate-cofactor binding pocket; other site 398767008722 catalytic residue [active] 398767008723 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 398767008724 IHF dimer interface [polypeptide binding]; other site 398767008725 IHF - DNA interface [nucleotide binding]; other site 398767008726 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398767008727 Na2 binding site [ion binding]; other site 398767008728 putative substrate binding site 1 [chemical binding]; other site 398767008729 Na binding site 1 [ion binding]; other site 398767008730 putative substrate binding site 2 [chemical binding]; other site 398767008731 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 398767008732 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398767008733 Walker A motif; other site 398767008734 ATP binding site [chemical binding]; other site 398767008735 Walker B motif; other site 398767008736 arginine finger; other site 398767008737 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398767008738 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398767008739 xanthine permease; Region: pbuX; TIGR03173 398767008740 EamA-like transporter family; Region: EamA; pfam00892 398767008741 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398767008742 EamA-like transporter family; Region: EamA; pfam00892 398767008743 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398767008744 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767008745 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398767008746 hybrid cluster protein; Provisional; Region: PRK05290 398767008747 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 398767008748 ACS interaction site; other site 398767008749 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 398767008750 hybrid metal cluster; other site 398767008751 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 398767008752 Hemerythrin-like domain; Region: Hr-like; cd12108 398767008753 Fe binding site [ion binding]; other site 398767008754 Cytochrome c; Region: Cytochrom_C; pfam00034 398767008755 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 398767008756 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 398767008757 [4Fe-4S] binding site [ion binding]; other site 398767008758 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767008759 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767008760 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767008761 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 398767008762 molybdopterin cofactor binding site; other site 398767008763 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 398767008764 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398767008765 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 398767008766 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 398767008767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767008768 putative substrate translocation pore; other site 398767008769 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 398767008770 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767008771 PAS domain; Region: PAS_9; pfam13426 398767008772 putative active site [active] 398767008773 heme pocket [chemical binding]; other site 398767008774 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 398767008775 Protein of unknown function, DUF488; Region: DUF488; pfam04343 398767008776 lipoyl synthase; Provisional; Region: PRK05481 398767008777 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 398767008778 FeS/SAM binding site; other site 398767008779 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 398767008780 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398767008781 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398767008782 endonuclease III; Region: ENDO3c; smart00478 398767008783 minor groove reading motif; other site 398767008784 helix-hairpin-helix signature motif; other site 398767008785 substrate binding pocket [chemical binding]; other site 398767008786 active site 398767008787 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 398767008788 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 398767008789 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 398767008790 S-adenosylmethionine binding site [chemical binding]; other site 398767008791 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767008792 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 398767008793 S-adenosylmethionine binding site [chemical binding]; other site 398767008794 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 398767008795 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 398767008796 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767008797 catalytic residue [active] 398767008798 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 398767008799 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 398767008800 tetramer interface [polypeptide binding]; other site 398767008801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767008802 catalytic residue [active] 398767008803 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 398767008804 lipoyl attachment site [posttranslational modification]; other site 398767008805 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 398767008806 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 398767008807 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398767008808 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767008809 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767008810 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767008811 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767008812 Zn2+ binding site [ion binding]; other site 398767008813 Mg2+ binding site [ion binding]; other site 398767008814 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 398767008815 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 398767008816 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 398767008817 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767008818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008819 metal binding site [ion binding]; metal-binding site 398767008820 active site 398767008821 I-site; other site 398767008822 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 398767008823 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398767008824 Walker A/P-loop; other site 398767008825 ATP binding site [chemical binding]; other site 398767008826 Q-loop/lid; other site 398767008827 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398767008828 ABC transporter signature motif; other site 398767008829 Walker B; other site 398767008830 D-loop; other site 398767008831 H-loop/switch region; other site 398767008832 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 398767008833 ATP-NAD kinase; Region: NAD_kinase; pfam01513 398767008834 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 398767008835 dimerization interface [polypeptide binding]; other site 398767008836 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 398767008837 dimer interface [polypeptide binding]; other site 398767008838 phosphorylation site [posttranslational modification] 398767008839 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 398767008840 ATP binding site [chemical binding]; other site 398767008841 Mg2+ binding site [ion binding]; other site 398767008842 G-X-G motif; other site 398767008843 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008844 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 398767008845 active site 398767008846 phosphorylation site [posttranslational modification] 398767008847 intermolecular recognition site; other site 398767008848 dimerization interface [polypeptide binding]; other site 398767008849 NMT1/THI5 like; Region: NMT1; pfam09084 398767008850 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 398767008851 substrate binding pocket [chemical binding]; other site 398767008852 membrane-bound complex binding site; other site 398767008853 hinge residues; other site 398767008854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767008855 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 398767008856 dimerization interface [polypeptide binding]; other site 398767008857 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 398767008858 dimer interface [polypeptide binding]; other site 398767008859 phosphorylation site [posttranslational modification] 398767008860 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 398767008861 ATP binding site [chemical binding]; other site 398767008862 Mg2+ binding site [ion binding]; other site 398767008863 G-X-G motif; other site 398767008864 Response regulator receiver domain; Region: Response_reg; pfam00072 398767008865 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 398767008866 active site 398767008867 phosphorylation site [posttranslational modification] 398767008868 intermolecular recognition site; other site 398767008869 dimerization interface [polypeptide binding]; other site 398767008870 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 398767008871 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 398767008872 nudix motif; other site 398767008873 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398767008874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398767008875 glycerol kinase; Provisional; Region: glpK; PRK00047 398767008876 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398767008877 N- and C-terminal domain interface [polypeptide binding]; other site 398767008878 active site 398767008879 MgATP binding site [chemical binding]; other site 398767008880 catalytic site [active] 398767008881 metal binding site [ion binding]; metal-binding site 398767008882 glycerol binding site [chemical binding]; other site 398767008883 homotetramer interface [polypeptide binding]; other site 398767008884 homodimer interface [polypeptide binding]; other site 398767008885 FBP binding site [chemical binding]; other site 398767008886 protein IIAGlc interface [polypeptide binding]; other site 398767008887 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 398767008888 SmpB-tmRNA interface; other site 398767008889 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398767008890 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 398767008891 Cl binding site [ion binding]; other site 398767008892 oligomer interface [polypeptide binding]; other site 398767008893 PII uridylyl-transferase; Provisional; Region: PRK05092 398767008894 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767008895 metal binding triad; other site 398767008896 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398767008897 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 398767008898 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 398767008899 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 398767008900 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 398767008901 active site 398767008902 Int/Topo IB signature motif; other site 398767008903 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: COG2248 398767008904 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 398767008905 Transposase domain (DUF772); Region: DUF772; pfam05598 398767008906 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767008907 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767008908 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767008909 adenylosuccinate lyase; Provisional; Region: PRK07492 398767008910 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 398767008911 tetramer interface [polypeptide binding]; other site 398767008912 active site 398767008913 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398767008914 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398767008915 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398767008916 ligand binding site [chemical binding]; other site 398767008917 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 398767008918 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 398767008919 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 398767008920 dimerization interface [polypeptide binding]; other site 398767008921 ATP binding site [chemical binding]; other site 398767008922 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 398767008923 dimerization interface [polypeptide binding]; other site 398767008924 ATP binding site [chemical binding]; other site 398767008925 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767008926 PAS domain; Region: PAS_9; pfam13426 398767008927 putative active site [active] 398767008928 heme pocket [chemical binding]; other site 398767008929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767008930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767008931 metal binding site [ion binding]; metal-binding site 398767008932 active site 398767008933 I-site; other site 398767008934 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 398767008935 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398767008936 conserved cys residue [active] 398767008937 amidophosphoribosyltransferase; Provisional; Region: PRK09123 398767008938 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 398767008939 active site 398767008940 tetramer interface [polypeptide binding]; other site 398767008941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767008942 active site 398767008943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767008944 active site 398767008945 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 398767008946 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 398767008947 RNA binding surface [nucleotide binding]; other site 398767008948 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 398767008949 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 398767008950 nucleotide binding site/active site [active] 398767008951 HIT family signature motif; other site 398767008952 catalytic residue [active] 398767008953 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 398767008954 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767008955 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 398767008956 rRNA interaction site [nucleotide binding]; other site 398767008957 S8 interaction site; other site 398767008958 putative laminin-1 binding site; other site 398767008959 elongation factor Ts; Provisional; Region: tsf; PRK09377 398767008960 UBA/TS-N domain; Region: UBA; pfam00627 398767008961 Elongation factor TS; Region: EF_TS; pfam00889 398767008962 Elongation factor TS; Region: EF_TS; pfam00889 398767008963 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 398767008964 putative nucleotide binding site [chemical binding]; other site 398767008965 uridine monophosphate binding site [chemical binding]; other site 398767008966 homohexameric interface [polypeptide binding]; other site 398767008967 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398767008968 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 398767008969 hinge region; other site 398767008970 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 398767008971 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 398767008972 catalytic residue [active] 398767008973 putative FPP diphosphate binding site; other site 398767008974 putative FPP binding hydrophobic cleft; other site 398767008975 dimer interface [polypeptide binding]; other site 398767008976 putative IPP diphosphate binding site; other site 398767008977 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 398767008978 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398767008979 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 398767008980 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398767008981 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398767008982 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398767008983 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 398767008984 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 398767008985 active site 398767008986 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 398767008987 protein binding site [polypeptide binding]; other site 398767008988 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 398767008989 putative substrate binding region [chemical binding]; other site 398767008990 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398767008991 Glycoprotease family; Region: Peptidase_M22; pfam00814 398767008992 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398767008993 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 398767008994 CoA-ligase; Region: Ligase_CoA; pfam00549 398767008995 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398767008996 CoA binding domain; Region: CoA_binding; smart00881 398767008997 CoA-ligase; Region: Ligase_CoA; pfam00549 398767008998 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398767008999 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 398767009000 active site 398767009001 phosphorylation site [posttranslational modification] 398767009002 intermolecular recognition site; other site 398767009003 dimerization interface [polypeptide binding]; other site 398767009004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767009005 Zn2+ binding site [ion binding]; other site 398767009006 Mg2+ binding site [ion binding]; other site 398767009007 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 398767009008 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 398767009009 active site 398767009010 PHP Thumb interface [polypeptide binding]; other site 398767009011 metal binding site [ion binding]; metal-binding site 398767009012 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 398767009013 generic binding surface II; other site 398767009014 generic binding surface I; other site 398767009015 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 398767009016 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 398767009017 Protein of unknown function (DUF454); Region: DUF454; cl01063 398767009018 Protein of unknown function (DUF454); Region: DUF454; pfam04304 398767009019 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398767009020 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 398767009021 RNA binding surface [nucleotide binding]; other site 398767009022 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 398767009023 active site 398767009024 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 398767009025 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 398767009026 putative dimer interface [polypeptide binding]; other site 398767009027 putative anticodon binding site; other site 398767009028 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 398767009029 homodimer interface [polypeptide binding]; other site 398767009030 motif 1; other site 398767009031 motif 2; other site 398767009032 active site 398767009033 motif 3; other site 398767009034 Protein of unknown function (DUF503); Region: DUF503; pfam04456 398767009035 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 398767009036 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 398767009037 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767009038 Zn2+ binding site [ion binding]; other site 398767009039 Mg2+ binding site [ion binding]; other site 398767009040 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 398767009041 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 398767009042 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 398767009043 Transporter associated domain; Region: CorC_HlyC; smart01091 398767009044 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 398767009045 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 398767009046 putative active site [active] 398767009047 catalytic triad [active] 398767009048 putative dimer interface [polypeptide binding]; other site 398767009049 peptide chain release factor 2; Provisional; Region: PRK07342 398767009050 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398767009051 RF-1 domain; Region: RF-1; pfam00472 398767009052 Sporulation related domain; Region: SPOR; pfam05036 398767009053 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398767009054 NlpC/P60 family; Region: NLPC_P60; pfam00877 398767009055 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 398767009056 Uncharacterized conserved protein [Function unknown]; Region: COG4198 398767009057 EVE domain; Region: EVE; pfam01878 398767009058 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 398767009059 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 398767009060 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 398767009061 SurA N-terminal domain; Region: SurA_N_3; cl07813 398767009062 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398767009063 Response regulator receiver domain; Region: Response_reg; pfam00072 398767009064 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 398767009065 active site 398767009066 phosphorylation site [posttranslational modification] 398767009067 intermolecular recognition site; other site 398767009068 dimerization interface [polypeptide binding]; other site 398767009069 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398767009070 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 398767009071 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 398767009072 S-adenosylmethionine binding site [chemical binding]; other site 398767009073 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 398767009074 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 398767009075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767009076 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767009077 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 398767009078 active site 398767009079 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767009080 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 398767009081 active site 398767009082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767009083 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 398767009084 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 398767009085 GDP-Fucose binding site [chemical binding]; other site 398767009086 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 398767009087 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 398767009088 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 398767009089 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 398767009090 NADP binding site [chemical binding]; other site 398767009091 active site 398767009092 putative substrate binding site [chemical binding]; other site 398767009093 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 398767009094 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398767009095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767009096 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 398767009097 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398767009098 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398767009099 Ligand binding site; other site 398767009100 Putative Catalytic site; other site 398767009101 DXD motif; other site 398767009102 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 398767009103 active site 398767009104 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 398767009105 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398767009106 ResB-like family; Region: ResB; pfam05140 398767009107 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 398767009108 heme-binding residues [chemical binding]; other site 398767009109 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398767009110 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398767009111 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 398767009112 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398767009113 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398767009114 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 398767009115 purine monophosphate binding site [chemical binding]; other site 398767009116 dimer interface [polypeptide binding]; other site 398767009117 putative catalytic residues [active] 398767009118 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 398767009119 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398767009120 selenophosphate synthetase; Provisional; Region: PRK00943 398767009121 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 398767009122 dimerization interface [polypeptide binding]; other site 398767009123 putative ATP binding site [chemical binding]; other site 398767009124 alanine racemase; Reviewed; Region: alr; PRK00053 398767009125 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 398767009126 active site 398767009127 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398767009128 dimer interface [polypeptide binding]; other site 398767009129 substrate binding site [chemical binding]; other site 398767009130 catalytic residues [active] 398767009131 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 398767009132 thiamine phosphate binding site [chemical binding]; other site 398767009133 active site 398767009134 pyrophosphate binding site [ion binding]; other site 398767009135 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 398767009136 substrate binding site [chemical binding]; other site 398767009137 dimer interface [polypeptide binding]; other site 398767009138 ATP binding site [chemical binding]; other site 398767009139 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 398767009140 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 398767009141 nickel responsive regulator; Provisional; Region: PRK04460 398767009142 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 398767009143 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398767009144 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398767009145 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398767009146 Walker A/P-loop; other site 398767009147 ATP binding site [chemical binding]; other site 398767009148 Q-loop/lid; other site 398767009149 ABC transporter signature motif; other site 398767009150 Walker B; other site 398767009151 D-loop; other site 398767009152 H-loop/switch region; other site 398767009153 Cobalt transport protein; Region: CbiQ; cl00463 398767009154 cobalt transport protein CbiM; Validated; Region: PRK06265 398767009155 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 398767009156 PDGLE domain; Region: PDGLE; pfam13190 398767009157 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 398767009158 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398767009159 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 398767009160 substrate binding pocket [chemical binding]; other site 398767009161 membrane-bound complex binding site; other site 398767009162 hinge residues; other site 398767009163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009164 PAS domain; Region: PAS_9; pfam13426 398767009165 putative active site [active] 398767009166 heme pocket [chemical binding]; other site 398767009167 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009168 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009169 metal binding site [ion binding]; metal-binding site 398767009170 active site 398767009171 I-site; other site 398767009172 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 398767009173 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 398767009174 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767009175 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 398767009176 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 398767009177 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398767009178 tetramerization interface [polypeptide binding]; other site 398767009179 NAD(P) binding site [chemical binding]; other site 398767009180 catalytic residues [active] 398767009181 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 398767009182 dimerization interface [polypeptide binding]; other site 398767009183 PAS domain; Region: PAS_9; pfam13426 398767009184 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009185 putative active site [active] 398767009186 heme pocket [chemical binding]; other site 398767009187 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009189 metal binding site [ion binding]; metal-binding site 398767009190 active site 398767009191 I-site; other site 398767009192 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 398767009193 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767009194 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 398767009195 dimerization interface [polypeptide binding]; other site 398767009196 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767009197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767009198 dimer interface [polypeptide binding]; other site 398767009199 putative CheW interface [polypeptide binding]; other site 398767009200 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398767009201 RNA/DNA hybrid binding site [nucleotide binding]; other site 398767009202 active site 398767009203 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398767009204 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398767009205 putative acyl-acceptor binding pocket; other site 398767009206 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398767009207 EAL domain; Region: EAL; pfam00563 398767009208 RF-1 domain; Region: RF-1; pfam00472 398767009209 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 398767009210 MutS domain III; Region: MutS_III; pfam05192 398767009211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767009212 Walker A/P-loop; other site 398767009213 ATP binding site [chemical binding]; other site 398767009214 Q-loop/lid; other site 398767009215 ABC transporter signature motif; other site 398767009216 Walker B; other site 398767009217 D-loop; other site 398767009218 H-loop/switch region; other site 398767009219 Smr domain; Region: Smr; pfam01713 398767009220 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398767009221 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 398767009222 active site 398767009223 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398767009224 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 398767009225 motif II; other site 398767009226 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 398767009227 PAS domain S-box; Region: sensory_box; TIGR00229 398767009228 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009229 putative active site [active] 398767009230 heme pocket [chemical binding]; other site 398767009231 PAS domain S-box; Region: sensory_box; TIGR00229 398767009232 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009233 putative active site [active] 398767009234 heme pocket [chemical binding]; other site 398767009235 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009237 metal binding site [ion binding]; metal-binding site 398767009238 active site 398767009239 I-site; other site 398767009240 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767009241 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 398767009242 active site 398767009243 phosphorylation site [posttranslational modification] 398767009244 intermolecular recognition site; other site 398767009245 dimerization interface [polypeptide binding]; other site 398767009246 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 398767009247 Walker A motif; other site 398767009248 ATP binding site [chemical binding]; other site 398767009249 Walker B motif; other site 398767009250 arginine finger; other site 398767009251 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398767009252 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767009253 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009254 putative active site [active] 398767009255 heme pocket [chemical binding]; other site 398767009256 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 398767009257 phosphorylation site [posttranslational modification] 398767009258 dimer interface [polypeptide binding]; other site 398767009259 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 398767009260 ATP binding site [chemical binding]; other site 398767009261 Mg2+ binding site [ion binding]; other site 398767009262 G-X-G motif; other site 398767009263 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 398767009264 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 398767009265 FMN binding site [chemical binding]; other site 398767009266 active site 398767009267 catalytic residues [active] 398767009268 substrate binding site [chemical binding]; other site 398767009269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 398767009270 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398767009271 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398767009272 putative dimer interface [polypeptide binding]; other site 398767009273 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 398767009274 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398767009275 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398767009276 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 398767009277 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 398767009278 catalytic loop [active] 398767009279 iron binding site [ion binding]; other site 398767009280 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398767009281 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 398767009282 dimer interface [polypeptide binding]; other site 398767009283 [2Fe-2S] cluster binding site [ion binding]; other site 398767009284 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398767009285 SLBB domain; Region: SLBB; pfam10531 398767009286 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 398767009287 bidirectional hydrogenase complex protein HoxE; Reviewed; Region: PRK07571 398767009288 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 398767009289 putative dimer interface [polypeptide binding]; other site 398767009290 [2Fe-2S] cluster binding site [ion binding]; other site 398767009291 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 398767009292 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 398767009293 DNA polymerase I; Provisional; Region: PRK05755 398767009294 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398767009295 active site 398767009296 metal binding site 1 [ion binding]; metal-binding site 398767009297 putative 5' ssDNA interaction site; other site 398767009298 metal binding site 3; metal-binding site 398767009299 metal binding site 2 [ion binding]; metal-binding site 398767009300 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398767009301 putative DNA binding site [nucleotide binding]; other site 398767009302 putative metal binding site [ion binding]; other site 398767009303 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 398767009304 active site 398767009305 catalytic site [active] 398767009306 substrate binding site [chemical binding]; other site 398767009307 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398767009308 active site 398767009309 DNA binding site [nucleotide binding] 398767009310 catalytic site [active] 398767009311 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398767009312 Recombination protein O N terminal; Region: RecO_N; pfam11967 398767009313 Recombination protein O C terminal; Region: RecO_C; pfam02565 398767009314 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398767009315 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 398767009316 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 398767009317 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398767009318 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 398767009319 ligand binding site [chemical binding]; other site 398767009320 flexible hinge region; other site 398767009321 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 398767009322 putative switch regulator; other site 398767009323 non-specific DNA interactions [nucleotide binding]; other site 398767009324 DNA binding site [nucleotide binding] 398767009325 sequence specific DNA binding site [nucleotide binding]; other site 398767009326 putative cAMP binding site [chemical binding]; other site 398767009327 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 398767009328 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 398767009329 TPP-binding site [chemical binding]; other site 398767009330 dimer interface [polypeptide binding]; other site 398767009331 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 398767009332 PYR/PP interface [polypeptide binding]; other site 398767009333 dimer interface [polypeptide binding]; other site 398767009334 TPP binding site [chemical binding]; other site 398767009335 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398767009336 thiamine monophosphate kinase; Provisional; Region: PRK05731 398767009337 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 398767009338 ATP binding site [chemical binding]; other site 398767009339 dimerization interface [polypeptide binding]; other site 398767009340 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398767009341 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 398767009342 Walker A motif; other site 398767009343 ATP binding site [chemical binding]; other site 398767009344 Walker B motif; other site 398767009345 arginine finger; other site 398767009346 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398767009347 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398767009348 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398767009349 putative dimer interface [polypeptide binding]; other site 398767009350 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398767009351 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767009352 putative active site [active] 398767009353 putative metal binding site [ion binding]; other site 398767009354 primosome assembly protein PriA; Validated; Region: PRK05580 398767009355 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 398767009356 ATP binding site [chemical binding]; other site 398767009357 putative Mg++ binding site [ion binding]; other site 398767009358 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398767009359 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398767009360 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 398767009361 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398767009362 catalytic residue [active] 398767009363 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767009364 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 398767009365 Walker A motif; other site 398767009366 ATP binding site [chemical binding]; other site 398767009367 Walker B motif; other site 398767009368 arginine finger; other site 398767009369 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767009370 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 398767009371 putative CheA interaction surface; other site 398767009372 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 398767009373 putative binding surface; other site 398767009374 active site 398767009375 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398767009376 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398767009377 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 398767009378 ATP binding site [chemical binding]; other site 398767009379 Mg2+ binding site [ion binding]; other site 398767009380 G-X-G motif; other site 398767009381 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 398767009382 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398767009383 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 398767009384 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398767009385 HDOD domain; Region: HDOD; pfam08668 398767009386 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767009387 Zn2+ binding site [ion binding]; other site 398767009388 Mg2+ binding site [ion binding]; other site 398767009389 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398767009390 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 398767009391 active site 398767009392 phosphorylation site [posttranslational modification] 398767009393 intermolecular recognition site; other site 398767009394 dimerization interface [polypeptide binding]; other site 398767009395 CheB methylesterase; Region: CheB_methylest; pfam01339 398767009396 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 398767009397 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 398767009398 G1 box; other site 398767009399 putative GEF interaction site [polypeptide binding]; other site 398767009400 GTP/Mg2+ binding site [chemical binding]; other site 398767009401 Switch I region; other site 398767009402 G2 box; other site 398767009403 G3 box; other site 398767009404 Switch II region; other site 398767009405 G4 box; other site 398767009406 G5 box; other site 398767009407 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 398767009408 Predicted membrane protein [Function unknown]; Region: COG2259 398767009409 dephospho-CoA kinase; Region: TIGR00152 398767009410 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 398767009411 CoA-binding site [chemical binding]; other site 398767009412 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 398767009413 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 398767009414 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 398767009415 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767009416 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 398767009417 active site 398767009418 phosphorylation site [posttranslational modification] 398767009419 intermolecular recognition site; other site 398767009420 dimerization interface [polypeptide binding]; other site 398767009421 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 398767009422 Walker A motif; other site 398767009423 ATP binding site [chemical binding]; other site 398767009424 Walker B motif; other site 398767009425 arginine finger; other site 398767009426 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767009427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767009428 HAMP domain; Region: HAMP; pfam00672 398767009429 dimerization interface [polypeptide binding]; other site 398767009430 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 398767009431 dimer interface [polypeptide binding]; other site 398767009432 phosphorylation site [posttranslational modification] 398767009433 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 398767009434 ATP binding site [chemical binding]; other site 398767009435 Mg2+ binding site [ion binding]; other site 398767009436 G-X-G motif; other site 398767009437 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 398767009438 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 398767009439 chaperone protein DnaJ; Provisional; Region: PRK10767 398767009440 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 398767009441 HSP70 interaction site [polypeptide binding]; other site 398767009442 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 398767009443 substrate binding site [polypeptide binding]; other site 398767009444 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398767009445 Zn binding sites [ion binding]; other site 398767009446 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398767009447 dimer interface [polypeptide binding]; other site 398767009448 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398767009449 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 398767009450 nucleotide binding site [chemical binding]; other site 398767009451 NEF interaction site [polypeptide binding]; other site 398767009452 SBD interface [polypeptide binding]; other site 398767009453 GrpE; Region: GrpE; pfam01025 398767009454 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 398767009455 dimer interface [polypeptide binding]; other site 398767009456 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398767009457 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 398767009458 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 398767009459 glutamate racemase; Provisional; Region: PRK00865 398767009460 Sporulation and spore germination; Region: Germane; pfam10646 398767009461 Fic family protein [Function unknown]; Region: COG3177 398767009462 Fic/DOC family; Region: Fic; pfam02661 398767009463 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398767009464 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398767009465 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 398767009466 Fic family protein [Function unknown]; Region: COG3177 398767009467 Fic/DOC family; Region: Fic; pfam02661 398767009468 hypothetical protein; Validated; Region: PRK07121 398767009469 CHAT domain; Region: CHAT; pfam12770 398767009470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398767009471 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767009472 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767009473 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 398767009474 non-specific DNA binding site [nucleotide binding]; other site 398767009475 salt bridge; other site 398767009476 sequence-specific DNA binding site [nucleotide binding]; other site 398767009477 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767009478 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 398767009479 Walker A motif; other site 398767009480 ATP binding site [chemical binding]; other site 398767009481 Walker B motif; other site 398767009482 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767009483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767009484 Integrase core domain; Region: rve; pfam00665 398767009485 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 398767009486 active site 398767009487 catalytic residues [active] 398767009488 Int/Topo IB signature motif; other site 398767009489 DNA binding site [nucleotide binding] 398767009490 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 398767009491 generic binding surface II; other site 398767009492 generic binding surface I; other site 398767009493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767009494 Zn2+ binding site [ion binding]; other site 398767009495 Mg2+ binding site [ion binding]; other site 398767009496 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 398767009497 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398767009498 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 398767009499 active site 398767009500 DNA binding site [nucleotide binding] 398767009501 Int/Topo IB signature motif; other site 398767009502 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 398767009503 non-specific DNA binding site [nucleotide binding]; other site 398767009504 salt bridge; other site 398767009505 sequence-specific DNA binding site [nucleotide binding]; other site 398767009506 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398767009507 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767009508 active site 398767009509 metal binding site [ion binding]; metal-binding site 398767009510 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 398767009511 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398767009512 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 398767009513 active site 398767009514 metal binding site [ion binding]; metal-binding site 398767009515 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 398767009516 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767009517 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 398767009518 Walker A motif; other site 398767009519 ATP binding site [chemical binding]; other site 398767009520 Walker B motif; other site 398767009521 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767009522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767009523 Integrase core domain; Region: rve; pfam00665 398767009524 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 398767009525 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398767009526 FMN-binding domain; Region: FMN_bind; pfam04205 398767009527 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 398767009528 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767009529 reductive dehalogenase; Region: RDH; TIGR02486 398767009530 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 398767009531 4Fe-4S binding domain; Region: Fer4; pfam00037 398767009532 reductive dehalogenase; Region: RDH; TIGR02486 398767009533 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 398767009534 4Fe-4S binding domain; Region: Fer4; pfam00037 398767009535 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 398767009536 putative catalytic cysteine [active] 398767009537 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 398767009538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398767009539 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398767009540 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398767009541 phosphate binding motif [ion binding]; other site 398767009542 beta-alpha-beta structure motif; other site 398767009543 NAD binding pocket [chemical binding]; other site 398767009544 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 398767009545 ApbE family; Region: ApbE; pfam02424 398767009546 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 398767009547 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767009548 Zn2+ binding site [ion binding]; other site 398767009549 Mg2+ binding site [ion binding]; other site 398767009550 hypothetical protein; Provisional; Region: PRK10279 398767009551 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398767009552 nucleophile elbow; other site 398767009553 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 398767009554 ABC1 family; Region: ABC1; cl17513 398767009555 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398767009556 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 398767009557 putative CheA interaction surface; other site 398767009558 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 398767009559 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767009560 dimerization interface [polypeptide binding]; other site 398767009561 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767009562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767009563 dimer interface [polypeptide binding]; other site 398767009564 putative CheW interface [polypeptide binding]; other site 398767009565 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767009566 Tar ligand binding domain homologue; Region: TarH; pfam02203 398767009567 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767009568 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 398767009569 dimerization interface [polypeptide binding]; other site 398767009570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767009571 dimer interface [polypeptide binding]; other site 398767009572 putative CheW interface [polypeptide binding]; other site 398767009573 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398767009574 MarR family; Region: MarR_2; pfam12802 398767009575 putative transposase OrfB; Reviewed; Region: PHA02517 398767009576 HTH-like domain; Region: HTH_21; pfam13276 398767009577 Integrase core domain; Region: rve; pfam00665 398767009578 Integrase core domain; Region: rve_3; pfam13683 398767009579 Transposase; Region: HTH_Tnp_1; cl17663 398767009580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398767009581 HipA N-terminal domain; Region: couple_hipA; TIGR03071 398767009582 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398767009583 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398767009584 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398767009585 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767009586 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 398767009587 non-specific DNA binding site [nucleotide binding]; other site 398767009588 salt bridge; other site 398767009589 sequence-specific DNA binding site [nucleotide binding]; other site 398767009590 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 398767009591 FeS/SAM binding site; other site 398767009592 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398767009593 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 398767009594 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398767009595 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767009596 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 398767009597 dimerization interface [polypeptide binding]; other site 398767009598 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 398767009599 ATP binding site [chemical binding]; other site 398767009600 Mg2+ binding site [ion binding]; other site 398767009601 G-X-G motif; other site 398767009602 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767009603 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 398767009604 active site 398767009605 phosphorylation site [posttranslational modification] 398767009606 intermolecular recognition site; other site 398767009607 dimerization interface [polypeptide binding]; other site 398767009608 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 398767009609 Walker A motif; other site 398767009610 ATP binding site [chemical binding]; other site 398767009611 Walker B motif; other site 398767009612 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767009613 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 398767009614 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398767009615 substrate binding site [chemical binding]; other site 398767009616 oxyanion hole (OAH) forming residues; other site 398767009617 trimer interface [polypeptide binding]; other site 398767009618 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398767009619 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 398767009620 Metal-binding active site; metal-binding site 398767009621 AP (apurinic/apyrimidinic) site pocket; other site 398767009622 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767009623 metal binding triad; other site 398767009624 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 398767009625 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398767009626 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398767009627 Na binding site [ion binding]; other site 398767009628 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 398767009629 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 398767009630 S-adenosylmethionine binding site [chemical binding]; other site 398767009631 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 398767009632 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398767009633 NAD binding site [chemical binding]; other site 398767009634 homotetramer interface [polypeptide binding]; other site 398767009635 homodimer interface [polypeptide binding]; other site 398767009636 substrate binding site [chemical binding]; other site 398767009637 active site 398767009638 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 398767009639 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398767009640 HflX GTPase family; Region: HflX; cd01878 398767009641 G1 box; other site 398767009642 GTP/Mg2+ binding site [chemical binding]; other site 398767009643 Switch I region; other site 398767009644 G2 box; other site 398767009645 G3 box; other site 398767009646 Switch II region; other site 398767009647 G4 box; other site 398767009648 G5 box; other site 398767009649 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398767009650 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398767009651 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 398767009652 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398767009653 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 398767009654 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398767009655 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 398767009656 Response regulator receiver domain; Region: Response_reg; pfam00072 398767009657 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 398767009658 active site 398767009659 phosphorylation site [posttranslational modification] 398767009660 intermolecular recognition site; other site 398767009661 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398767009662 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 398767009663 active site 398767009664 phosphorylation site [posttranslational modification] 398767009665 intermolecular recognition site; other site 398767009666 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 398767009667 DNA binding residues [nucleotide binding] 398767009668 dimerization interface [polypeptide binding]; other site 398767009669 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398767009670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767009671 Histidine kinase; Region: HisKA_3; pfam07730 398767009672 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 398767009673 ATP binding site [chemical binding]; other site 398767009674 Mg2+ binding site [ion binding]; other site 398767009675 G-X-G motif; other site 398767009676 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398767009677 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767009678 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398767009679 putative active site [active] 398767009680 putative metal binding site [ion binding]; other site 398767009681 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 398767009682 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398767009683 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398767009684 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 398767009685 metal-binding site [ion binding] 398767009686 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398767009687 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 398767009688 metal-binding site [ion binding] 398767009689 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398767009690 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767009691 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767009692 PAS domain S-box; Region: sensory_box; TIGR00229 398767009693 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009694 putative active site [active] 398767009695 heme pocket [chemical binding]; other site 398767009696 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009697 PAS domain; Region: PAS_9; pfam13426 398767009698 putative active site [active] 398767009699 heme pocket [chemical binding]; other site 398767009700 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009702 metal binding site [ion binding]; metal-binding site 398767009703 active site 398767009704 I-site; other site 398767009705 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398767009706 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 398767009707 nucleotide binding pocket [chemical binding]; other site 398767009708 K-X-D-G motif; other site 398767009709 catalytic site [active] 398767009710 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398767009711 Helix-hairpin-helix motif; Region: HHH; pfam00633 398767009712 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 398767009713 Dimer interface [polypeptide binding]; other site 398767009714 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 398767009715 oligomerisation interface [polypeptide binding]; other site 398767009716 mobile loop; other site 398767009717 roof hairpin; other site 398767009718 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398767009719 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 398767009720 ring oligomerisation interface [polypeptide binding]; other site 398767009721 ATP/Mg binding site [chemical binding]; other site 398767009722 stacking interactions; other site 398767009723 hinge regions; other site 398767009724 Ferrochelatase; Region: Ferrochelatase; pfam00762 398767009725 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 398767009726 C-terminal domain interface [polypeptide binding]; other site 398767009727 active site 398767009728 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 398767009729 active site 398767009730 N-terminal domain interface [polypeptide binding]; other site 398767009731 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 398767009732 dimer interface [polypeptide binding]; other site 398767009733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767009734 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 398767009735 active site 398767009736 phosphorylation site [posttranslational modification] 398767009737 intermolecular recognition site; other site 398767009738 dimerization interface [polypeptide binding]; other site 398767009739 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 398767009740 DNA binding site [nucleotide binding] 398767009741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767009742 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 398767009743 dimerization interface [polypeptide binding]; other site 398767009744 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 398767009745 dimer interface [polypeptide binding]; other site 398767009746 phosphorylation site [posttranslational modification] 398767009747 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 398767009748 ATP binding site [chemical binding]; other site 398767009749 Mg2+ binding site [ion binding]; other site 398767009750 G-X-G motif; other site 398767009751 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398767009752 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398767009753 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398767009754 active site 398767009755 Transcriptional regulator; Region: Rrf2; cl17282 398767009756 Rrf2 family protein; Region: rrf2_super; TIGR00738 398767009757 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 398767009758 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 398767009759 Ligand Binding Site [chemical binding]; other site 398767009760 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 398767009761 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767009762 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 398767009763 active site 398767009764 phosphorylation site [posttranslational modification] 398767009765 intermolecular recognition site; other site 398767009766 dimerization interface [polypeptide binding]; other site 398767009767 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 398767009768 Walker A motif; other site 398767009769 ATP binding site [chemical binding]; other site 398767009770 Walker B motif; other site 398767009771 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767009772 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 398767009773 dimer interface [polypeptide binding]; other site 398767009774 phosphorylation site [posttranslational modification] 398767009775 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 398767009776 ATP binding site [chemical binding]; other site 398767009777 Mg2+ binding site [ion binding]; other site 398767009778 G-X-G motif; other site 398767009779 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 398767009780 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767009781 substrate binding pocket [chemical binding]; other site 398767009782 membrane-bound complex binding site; other site 398767009783 hinge residues; other site 398767009784 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 398767009785 ATP binding site [chemical binding]; other site 398767009786 Mg2+ binding site [ion binding]; other site 398767009787 G-X-G motif; other site 398767009788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767009789 Coenzyme A binding pocket [chemical binding]; other site 398767009790 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 398767009791 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 398767009792 Walker A motif; other site 398767009793 ATP binding site [chemical binding]; other site 398767009794 Walker B motif; other site 398767009795 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 398767009796 putative deacylase active site [active] 398767009797 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 398767009798 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 398767009799 dimerization interface [polypeptide binding]; other site 398767009800 ATP binding site [chemical binding]; other site 398767009801 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 398767009802 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 398767009803 binding surface 398767009804 TPR motif; other site 398767009805 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398767009806 membrane protein; Provisional; Region: PRK14393 398767009807 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 398767009808 putative active site [active] 398767009809 putative CoA binding site [chemical binding]; other site 398767009810 nudix motif; other site 398767009811 metal binding site [ion binding]; metal-binding site 398767009812 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767009813 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 398767009814 dimerization interface [polypeptide binding]; other site 398767009815 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009816 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767009817 putative active site [active] 398767009818 heme pocket [chemical binding]; other site 398767009819 PAS domain; Region: PAS; smart00091 398767009820 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 398767009821 dimer interface [polypeptide binding]; other site 398767009822 phosphorylation site [posttranslational modification] 398767009823 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 398767009824 ATP binding site [chemical binding]; other site 398767009825 Mg2+ binding site [ion binding]; other site 398767009826 G-X-G motif; other site 398767009827 Response regulator receiver domain; Region: Response_reg; pfam00072 398767009828 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 398767009829 active site 398767009830 phosphorylation site [posttranslational modification] 398767009831 intermolecular recognition site; other site 398767009832 dimerization interface [polypeptide binding]; other site 398767009833 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 398767009834 Response regulator receiver domain; Region: Response_reg; pfam00072 398767009835 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 398767009836 active site 398767009837 phosphorylation site [posttranslational modification] 398767009838 intermolecular recognition site; other site 398767009839 dimerization interface [polypeptide binding]; other site 398767009840 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009842 metal binding site [ion binding]; metal-binding site 398767009843 active site 398767009844 I-site; other site 398767009845 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 398767009846 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767009847 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 398767009848 substrate binding pocket [chemical binding]; other site 398767009849 membrane-bound complex binding site; other site 398767009850 hinge residues; other site 398767009851 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009852 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398767009853 putative active site [active] 398767009854 heme pocket [chemical binding]; other site 398767009855 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 398767009856 dimer interface [polypeptide binding]; other site 398767009857 phosphorylation site [posttranslational modification] 398767009858 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 398767009859 ATP binding site [chemical binding]; other site 398767009860 Mg2+ binding site [ion binding]; other site 398767009861 G-X-G motif; other site 398767009862 Response regulator receiver domain; Region: Response_reg; pfam00072 398767009863 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 398767009864 active site 398767009865 phosphorylation site [posttranslational modification] 398767009866 intermolecular recognition site; other site 398767009867 dimerization interface [polypeptide binding]; other site 398767009868 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 398767009869 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 398767009870 dimer interface [polypeptide binding]; other site 398767009871 catalytic triad [active] 398767009872 peroxidatic and resolving cysteines [active] 398767009873 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 398767009874 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398767009875 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398767009876 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 398767009877 dimerization interface [polypeptide binding]; other site 398767009878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767009879 dimer interface [polypeptide binding]; other site 398767009880 putative CheW interface [polypeptide binding]; other site 398767009881 Carbonic anhydrase; Region: Pro_CA; smart00947 398767009882 active site clefts [active] 398767009883 zinc binding site [ion binding]; other site 398767009884 dimer interface [polypeptide binding]; other site 398767009885 Isochorismatase family; Region: Isochorismatase; pfam00857 398767009886 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 398767009887 catalytic triad [active] 398767009888 dimer interface [polypeptide binding]; other site 398767009889 conserved cis-peptide bond; other site 398767009890 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 398767009891 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 398767009892 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398767009893 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 398767009894 Walker A motif; other site 398767009895 ATP binding site [chemical binding]; other site 398767009896 Walker B motif; other site 398767009897 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 398767009898 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 398767009899 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398767009900 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767009901 GAF domain; Region: GAF_2; pfam13185 398767009902 GAF domain; Region: GAF; pfam01590 398767009903 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767009904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767009905 metal binding site [ion binding]; metal-binding site 398767009906 active site 398767009907 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398767009908 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398767009909 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 398767009910 PAS domain; Region: PAS_10; pfam13596 398767009911 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767009912 PAS fold; Region: PAS_3; pfam08447 398767009913 putative active site [active] 398767009914 heme pocket [chemical binding]; other site 398767009915 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 398767009916 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 398767009917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767009918 homodimer interface [polypeptide binding]; other site 398767009919 catalytic residue [active] 398767009920 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398767009921 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 398767009922 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767009923 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 398767009924 S-adenosylmethionine binding site [chemical binding]; other site 398767009925 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 398767009926 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 398767009927 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 398767009928 phosphate binding site [ion binding]; other site 398767009929 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 398767009930 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398767009931 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 398767009932 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 398767009933 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 398767009934 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 398767009935 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767009936 Uncharacterized conserved protein [Function unknown]; Region: COG2006 398767009937 Domain of unknown function (DUF362); Region: DUF362; pfam04015 398767009938 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 398767009939 AAA domain; Region: AAA_21; pfam13304 398767009940 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 398767009941 B12 binding site [chemical binding]; other site 398767009942 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 398767009943 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767009944 FeS/SAM binding site; other site 398767009945 PilZ domain; Region: PilZ; pfam07238 398767009946 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 398767009947 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 398767009948 NADP binding site [chemical binding]; other site 398767009949 dimer interface [polypeptide binding]; other site 398767009950 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398767009951 CoenzymeA binding site [chemical binding]; other site 398767009952 subunit interaction site [polypeptide binding]; other site 398767009953 PHB binding site; other site 398767009954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 398767009955 SEC-C motif; Region: SEC-C; pfam02810 398767009956 SEC-C motif; Region: SEC-C; pfam02810 398767009957 Predicted membrane protein [Function unknown]; Region: COG2860 398767009958 UPF0126 domain; Region: UPF0126; pfam03458 398767009959 UPF0126 domain; Region: UPF0126; pfam03458 398767009960 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767009961 Methyltransferase domain; Region: Methyltransf_12; pfam08242 398767009962 DsrE/DsrF-like family; Region: DrsE; pfam02635 398767009963 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 398767009964 putative FMN binding site [chemical binding]; other site 398767009965 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398767009966 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 398767009967 putative NAD(P) binding site [chemical binding]; other site 398767009968 putative substrate binding site [chemical binding]; other site 398767009969 catalytic Zn binding site [ion binding]; other site 398767009970 structural Zn binding site [ion binding]; other site 398767009971 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398767009972 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 398767009973 hexamer interface [polypeptide binding]; other site 398767009974 ligand binding site [chemical binding]; other site 398767009975 putative active site [active] 398767009976 NAD(P) binding site [chemical binding]; other site 398767009977 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398767009978 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 398767009979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767009980 DTW domain; Region: DTW; cl01221 398767009981 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 398767009982 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 398767009983 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 398767009984 DNA-binding site [nucleotide binding]; DNA binding site 398767009985 RNA-binding motif; other site 398767009986 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398767009987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767009988 Walker A/P-loop; other site 398767009989 ATP binding site [chemical binding]; other site 398767009990 Q-loop/lid; other site 398767009991 ABC transporter signature motif; other site 398767009992 Walker B; other site 398767009993 D-loop; other site 398767009994 H-loop/switch region; other site 398767009995 ABC transporter; Region: ABC_tran_2; pfam12848 398767009996 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767009997 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767009998 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767009999 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398767010000 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 398767010001 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398767010002 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 398767010003 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398767010004 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398767010005 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 398767010006 active site 398767010007 dimer interface [polypeptide binding]; other site 398767010008 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398767010009 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 398767010010 active site 398767010011 FMN binding site [chemical binding]; other site 398767010012 substrate binding site [chemical binding]; other site 398767010013 3Fe-4S cluster binding site [ion binding]; other site 398767010014 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 398767010015 domain interface; other site 398767010016 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398767010017 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 398767010018 putative FMN binding site [chemical binding]; other site 398767010019 NADPH bind site [chemical binding]; other site 398767010020 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398767010021 serine/threonine protein kinase; Provisional; Region: PRK11768 398767010022 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398767010023 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 398767010024 ATP binding site [chemical binding]; other site 398767010025 Mg++ binding site [ion binding]; other site 398767010026 motif III; other site 398767010027 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 398767010028 nucleotide binding region [chemical binding]; other site 398767010029 ATP-binding site [chemical binding]; other site 398767010030 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 398767010031 putative RNA binding site [nucleotide binding]; other site 398767010032 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398767010033 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398767010034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398767010035 Coenzyme A binding pocket [chemical binding]; other site 398767010036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398767010037 Protein of unknown function (DUF445); Region: DUF445; pfam04286 398767010038 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 398767010039 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 398767010040 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 398767010041 homodimer interaction site [polypeptide binding]; other site 398767010042 cofactor binding site; other site 398767010043 AAA domain; Region: AAA_26; pfam13500 398767010044 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398767010045 DRTGG domain; Region: DRTGG; pfam07085 398767010046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 398767010047 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398767010048 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398767010049 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 398767010050 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398767010051 active site 398767010052 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398767010053 substrate binding site [chemical binding]; other site 398767010054 catalytic residues [active] 398767010055 dimer interface [polypeptide binding]; other site 398767010056 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 398767010057 peptidase T-like protein; Region: PepT-like; TIGR01883 398767010058 metal binding site [ion binding]; metal-binding site 398767010059 putative dimer interface [polypeptide binding]; other site 398767010060 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 398767010061 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398767010062 hypothetical protein; Provisional; Region: PRK13795 398767010063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 398767010064 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; cl07055 398767010065 DnaA box-binding interface [nucleotide binding]; other site 398767010066 Uncharacterized conserved protein [Function unknown]; Region: COG2361 398767010067 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398767010068 active site 398767010069 NTP binding site [chemical binding]; other site 398767010070 metal binding triad [ion binding]; metal-binding site 398767010071 antibiotic binding site [chemical binding]; other site 398767010072 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 398767010073 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 398767010074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010075 homodimer interface [polypeptide binding]; other site 398767010076 catalytic residue [active] 398767010077 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398767010078 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 398767010079 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398767010080 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398767010081 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398767010082 dimer interface [polypeptide binding]; other site 398767010083 active site 398767010084 catalytic residue [active] 398767010085 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 398767010086 SurA N-terminal domain; Region: SurA_N_3; cl07813 398767010087 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 398767010088 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 398767010089 ATP binding site [chemical binding]; other site 398767010090 active site 398767010091 substrate binding site [chemical binding]; other site 398767010092 MG2 domain; Region: A2M_N; pfam01835 398767010093 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398767010094 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 398767010095 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 398767010096 Hemerythrin; Region: Hemerythrin; cd12107 398767010097 Fe binding site [ion binding]; other site 398767010098 AAA domain; Region: AAA_32; pfam13654 398767010099 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398767010100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767010101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767010102 metal binding site [ion binding]; metal-binding site 398767010103 active site 398767010104 I-site; other site 398767010105 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767010106 Zn2+ binding site [ion binding]; other site 398767010107 Mg2+ binding site [ion binding]; other site 398767010108 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 398767010109 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 398767010110 S-adenosylmethionine binding site [chemical binding]; other site 398767010111 Uncharacterized conserved protein [Function unknown]; Region: COG1624 398767010112 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 398767010113 YbbR-like protein; Region: YbbR; pfam07949 398767010114 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767010115 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767010116 NlpC/P60 family; Region: NLPC_P60; pfam00877 398767010117 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 398767010118 B12 binding domain; Region: B12-binding; pfam02310 398767010119 B12 binding site [chemical binding]; other site 398767010120 TPR repeat; Region: TPR_11; pfam13414 398767010121 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 398767010122 TPR motif; other site 398767010123 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 398767010124 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 398767010125 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 398767010126 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398767010127 Mitochondrial PGP phosphatase; Region: PGP_phosphatase; pfam09419 398767010128 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 398767010129 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 398767010130 heme-binding site [chemical binding]; other site 398767010131 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 398767010132 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 398767010133 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 398767010134 HupF/HypC family; Region: HupF_HypC; pfam01455 398767010135 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 398767010136 Acylphosphatase; Region: Acylphosphatase; pfam00708 398767010137 HypF finger; Region: zf-HYPF; pfam07503 398767010138 HypF finger; Region: zf-HYPF; pfam07503 398767010139 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 398767010140 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 398767010141 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398767010142 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398767010143 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 398767010144 Walker A/P-loop; other site 398767010145 ATP binding site [chemical binding]; other site 398767010146 Q-loop/lid; other site 398767010147 ABC transporter signature motif; other site 398767010148 Walker B; other site 398767010149 D-loop; other site 398767010150 H-loop/switch region; other site 398767010151 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398767010152 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 398767010153 dimer interface [polypeptide binding]; other site 398767010154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010155 catalytic residue [active] 398767010156 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 398767010157 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 398767010158 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 398767010159 homodimer interface [polypeptide binding]; other site 398767010160 substrate-cofactor binding pocket; other site 398767010161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010162 catalytic residue [active] 398767010163 cystathionine beta-lyase; Provisional; Region: PRK08064 398767010164 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 398767010165 homodimer interface [polypeptide binding]; other site 398767010166 substrate-cofactor binding pocket; other site 398767010167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010168 catalytic residue [active] 398767010169 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 398767010170 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 398767010171 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 398767010172 ATP binding site [chemical binding]; other site 398767010173 substrate interface [chemical binding]; other site 398767010174 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398767010175 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 398767010176 Ligand Binding Site [chemical binding]; other site 398767010177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398767010178 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398767010179 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 398767010180 dimer interface [polypeptide binding]; other site 398767010181 phosphorylation site [posttranslational modification] 398767010182 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 398767010183 ATP binding site [chemical binding]; other site 398767010184 Mg2+ binding site [ion binding]; other site 398767010185 G-X-G motif; other site 398767010186 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767010187 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 398767010188 active site 398767010189 phosphorylation site [posttranslational modification] 398767010190 intermolecular recognition site; other site 398767010191 dimerization interface [polypeptide binding]; other site 398767010192 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 398767010193 Walker A motif; other site 398767010194 ATP binding site [chemical binding]; other site 398767010195 Walker B motif; other site 398767010196 arginine finger; other site 398767010197 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767010198 Outer membrane efflux protein; Region: OEP; pfam02321 398767010199 Outer membrane efflux protein; Region: OEP; pfam02321 398767010200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767010201 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767010202 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398767010203 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 398767010204 homotrimer interface [polypeptide binding]; other site 398767010205 Walker A motif; other site 398767010206 GTP binding site [chemical binding]; other site 398767010207 Walker B motif; other site 398767010208 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398767010209 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398767010210 putative dimer interface [polypeptide binding]; other site 398767010211 active site pocket [active] 398767010212 putative cataytic base [active] 398767010213 cobalamin synthase; Reviewed; Region: cobS; PRK00235 398767010214 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 398767010215 catalytic core [active] 398767010216 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398767010217 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 398767010218 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 398767010219 B12 binding site [chemical binding]; other site 398767010220 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 398767010221 FeS/SAM binding site; other site 398767010222 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 398767010223 putative active site [active] 398767010224 YdjC motif; other site 398767010225 Mg binding site [ion binding]; other site 398767010226 putative homodimer interface [polypeptide binding]; other site 398767010227 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 398767010228 pyrroline-5-carboxylate reductase; Region: PLN02688 398767010229 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 398767010230 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 398767010231 active site 398767010232 Ca binding site [ion binding]; other site 398767010233 catalytic site [active] 398767010234 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 398767010235 shikimate kinase; Reviewed; Region: aroK; PRK00131 398767010236 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 398767010237 ADP binding site [chemical binding]; other site 398767010238 magnesium binding site [ion binding]; other site 398767010239 putative shikimate binding site; other site 398767010240 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 398767010241 putative active site [active] 398767010242 putative metal binding site [ion binding]; other site 398767010243 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398767010244 Ligand Binding Site [chemical binding]; other site 398767010245 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398767010246 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398767010247 Bacterial transcriptional regulator; Region: IclR; pfam01614 398767010248 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398767010249 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398767010250 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398767010251 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398767010252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398767010253 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 398767010254 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398767010255 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398767010256 Walker A/P-loop; other site 398767010257 ATP binding site [chemical binding]; other site 398767010258 Q-loop/lid; other site 398767010259 ABC transporter signature motif; other site 398767010260 Walker B; other site 398767010261 D-loop; other site 398767010262 H-loop/switch region; other site 398767010263 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398767010264 Walker A/P-loop; other site 398767010265 ATP binding site [chemical binding]; other site 398767010266 Q-loop/lid; other site 398767010267 ABC transporter signature motif; other site 398767010268 Walker B; other site 398767010269 D-loop; other site 398767010270 H-loop/switch region; other site 398767010271 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767010272 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767010273 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 398767010274 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398767010275 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398767010276 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 398767010277 nucleoside/Zn binding site; other site 398767010278 dimer interface [polypeptide binding]; other site 398767010279 catalytic motif [active] 398767010280 integrase; Provisional; Region: PRK09692 398767010281 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 398767010282 active site 398767010283 Int/Topo IB signature motif; other site 398767010284 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398767010285 PAS domain; Region: PAS; smart00091 398767010286 PAS domain; Region: PAS_9; pfam13426 398767010287 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767010288 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 398767010289 dimer interface [polypeptide binding]; other site 398767010290 phosphorylation site [posttranslational modification] 398767010291 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 398767010292 ATP binding site [chemical binding]; other site 398767010293 Mg2+ binding site [ion binding]; other site 398767010294 G-X-G motif; other site 398767010295 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767010296 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 398767010297 active site 398767010298 phosphorylation site [posttranslational modification] 398767010299 intermolecular recognition site; other site 398767010300 dimerization interface [polypeptide binding]; other site 398767010301 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 398767010302 hypothetical protein; Provisional; Region: PRK14709 398767010303 D5 N terminal like; Region: D5_N; smart00885 398767010304 Transposase domain (DUF772); Region: DUF772; pfam05598 398767010305 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767010306 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398767010307 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767010308 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 398767010309 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 398767010310 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 398767010311 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 398767010312 FeS/SAM binding site; other site 398767010313 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398767010314 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 398767010315 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 398767010316 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398767010317 G1 box; other site 398767010318 GTP/Mg2+ binding site [chemical binding]; other site 398767010319 G2 box; other site 398767010320 Switch I region; other site 398767010321 G3 box; other site 398767010322 Switch II region; other site 398767010323 G4 box; other site 398767010324 G5 box; other site 398767010325 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 398767010326 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767010327 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398767010328 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767010329 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 398767010330 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 398767010331 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398767010332 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 398767010333 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 398767010334 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 398767010335 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 398767010336 4Fe-4S binding domain; Region: Fer4; pfam00037 398767010337 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 398767010338 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 398767010339 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 398767010340 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 398767010341 catalytic loop [active] 398767010342 iron binding site [ion binding]; other site 398767010343 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398767010344 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398767010345 molybdopterin cofactor binding site; other site 398767010346 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398767010347 molybdopterin cofactor binding site; other site 398767010348 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 398767010349 dimer interface [polypeptide binding]; other site 398767010350 [2Fe-2S] cluster binding site [ion binding]; other site 398767010351 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398767010352 SLBB domain; Region: SLBB; pfam10531 398767010353 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 398767010354 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 398767010355 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 398767010356 putative dimer interface [polypeptide binding]; other site 398767010357 [2Fe-2S] cluster binding site [ion binding]; other site 398767010358 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 398767010359 NADH dehydrogenase subunit D; Validated; Region: PRK06075 398767010360 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 398767010361 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 398767010362 NADH dehydrogenase subunit B; Validated; Region: PRK06411 398767010363 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 398767010364 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398767010365 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 398767010366 inhibitor-cofactor binding pocket; inhibition site 398767010367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010368 catalytic residue [active] 398767010369 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 398767010370 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 398767010371 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 398767010372 ATP synthase subunit C; Region: ATP-synt_C; cl00466 398767010373 C2H2 type zinc-finger (2 copies); Region: zf-C2H2_2; pfam12756 398767010374 argininosuccinate lyase; Provisional; Region: PRK00855 398767010375 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398767010376 active sites [active] 398767010377 tetramer interface [polypeptide binding]; other site 398767010378 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 398767010379 nudix motif; other site 398767010380 argininosuccinate synthase; Provisional; Region: PRK13820 398767010381 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 398767010382 ANP binding site [chemical binding]; other site 398767010383 Substrate Binding Site II [chemical binding]; other site 398767010384 Substrate Binding Site I [chemical binding]; other site 398767010385 ornithine carbamoyltransferase; Provisional; Region: PRK00779 398767010386 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398767010387 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398767010388 acetylornithine aminotransferase; Provisional; Region: PRK02627 398767010389 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 398767010390 inhibitor-cofactor binding pocket; inhibition site 398767010391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010392 catalytic residue [active] 398767010393 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 398767010394 feedback inhibition sensing region; other site 398767010395 homohexameric interface [polypeptide binding]; other site 398767010396 nucleotide binding site [chemical binding]; other site 398767010397 N-acetyl-L-glutamate binding site [chemical binding]; other site 398767010398 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 398767010399 active site 398767010400 phosphorylation site [posttranslational modification] 398767010401 intermolecular recognition site; other site 398767010402 dimerization interface [polypeptide binding]; other site 398767010403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767010404 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 398767010405 ATP binding site [chemical binding]; other site 398767010406 Mg2+ binding site [ion binding]; other site 398767010407 G-X-G motif; other site 398767010408 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398767010409 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 398767010410 motif 1; other site 398767010411 active site 398767010412 motif 2; other site 398767010413 motif 3; other site 398767010414 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398767010415 DHHA1 domain; Region: DHHA1; pfam02272 398767010416 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 398767010417 Interdomain contacts; other site 398767010418 Cytokine receptor motif; other site 398767010419 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 398767010420 Interdomain contacts; other site 398767010421 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 398767010422 Cytokine receptor motif; other site 398767010423 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 398767010424 Interdomain contacts; other site 398767010425 Cytokine receptor motif; other site 398767010426 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 398767010427 Interdomain contacts; other site 398767010428 Cytokine receptor motif; other site 398767010429 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 398767010430 Interdomain contacts; other site 398767010431 Cytokine receptor motif; other site 398767010432 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 398767010433 recombination regulator RecX; Reviewed; Region: recX; PRK00117 398767010434 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398767010435 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 398767010436 Walker A motif; other site 398767010437 ATP binding site [chemical binding]; other site 398767010438 Walker B motif; other site 398767010439 recombinase A; Provisional; Region: recA; PRK09354 398767010440 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 398767010441 hexamer interface [polypeptide binding]; other site 398767010442 Walker A motif; other site 398767010443 ATP binding site [chemical binding]; other site 398767010444 Walker B motif; other site 398767010445 Competence-damaged protein; Region: CinA; pfam02464 398767010446 Protein of unknown function DUF111; Region: DUF111; pfam01969 398767010447 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 398767010448 AIR carboxylase; Region: AIRC; smart01001 398767010449 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398767010450 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398767010451 substrate binding site [chemical binding]; other site 398767010452 ligand binding site [chemical binding]; other site 398767010453 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 398767010454 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 398767010455 substrate binding site [chemical binding]; other site 398767010456 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 398767010457 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 398767010458 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 398767010459 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 398767010460 gamma subunit interface [polypeptide binding]; other site 398767010461 epsilon subunit interface [polypeptide binding]; other site 398767010462 LBP interface [polypeptide binding]; other site 398767010463 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398767010464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398767010465 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 398767010466 alpha subunit interaction interface [polypeptide binding]; other site 398767010467 Walker A motif; other site 398767010468 ATP binding site [chemical binding]; other site 398767010469 Walker B motif; other site 398767010470 inhibitor binding site; inhibition site 398767010471 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398767010472 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 398767010473 core domain interface [polypeptide binding]; other site 398767010474 delta subunit interface [polypeptide binding]; other site 398767010475 epsilon subunit interface [polypeptide binding]; other site 398767010476 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398767010477 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398767010478 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 398767010479 beta subunit interaction interface [polypeptide binding]; other site 398767010480 Walker A motif; other site 398767010481 ATP binding site [chemical binding]; other site 398767010482 Walker B motif; other site 398767010483 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398767010484 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 398767010485 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 398767010486 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398767010487 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 398767010488 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 398767010489 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 398767010490 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 398767010491 ParB-like nuclease domain; Region: ParB; smart00470 398767010492 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398767010493 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 398767010494 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 398767010495 Magnesium ion binding site [ion binding]; other site 398767010496 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398767010497 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 398767010498 RNA binding surface [nucleotide binding]; other site 398767010499 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398767010500 active site 398767010501 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767010502 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 398767010503 S-adenosylmethionine binding site [chemical binding]; other site 398767010504 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 398767010505 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 398767010506 ligand binding site; other site 398767010507 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398767010508 Permease; Region: Permease; pfam02405 398767010509 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398767010510 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 398767010511 Walker A/P-loop; other site 398767010512 ATP binding site [chemical binding]; other site 398767010513 Q-loop/lid; other site 398767010514 ABC transporter signature motif; other site 398767010515 Walker B; other site 398767010516 D-loop; other site 398767010517 H-loop/switch region; other site 398767010518 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398767010519 mce related protein; Region: MCE; pfam02470 398767010520 Outer membrane efflux protein; Region: OEP; pfam02321 398767010521 Outer membrane efflux protein; Region: OEP; pfam02321 398767010522 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 398767010523 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 398767010524 DNA-binding site [nucleotide binding]; DNA binding site 398767010525 RNA-binding motif; other site 398767010526 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 398767010527 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 398767010528 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 398767010529 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 398767010530 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398767010531 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398767010532 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398767010533 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 398767010534 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 398767010535 23S rRNA interface [nucleotide binding]; other site 398767010536 L3 interface [polypeptide binding]; other site 398767010537 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 398767010538 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398767010539 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 398767010540 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 398767010541 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 398767010542 GatB domain; Region: GatB_Yqey; smart00845 398767010543 Response regulator receiver domain; Region: Response_reg; pfam00072 398767010544 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 398767010545 active site 398767010546 phosphorylation site [posttranslational modification] 398767010547 intermolecular recognition site; other site 398767010548 dimerization interface [polypeptide binding]; other site 398767010549 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 398767010550 putative binding surface; other site 398767010551 active site 398767010552 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398767010553 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398767010554 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 398767010555 ATP binding site [chemical binding]; other site 398767010556 Mg2+ binding site [ion binding]; other site 398767010557 G-X-G motif; other site 398767010558 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398767010559 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 398767010560 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 398767010561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 398767010562 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 398767010563 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 398767010564 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398767010565 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 398767010566 FeS/SAM binding site; other site 398767010567 TRAM domain; Region: TRAM; cl01282 398767010568 Predicted membrane protein [Function unknown]; Region: COG4267 398767010569 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 398767010570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767010571 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398767010572 GAF domain; Region: GAF_3; pfam13492 398767010573 Tetratricopeptide repeat; Region: TPR_15; pfam13429 398767010574 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 398767010575 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 398767010576 putative active site [active] 398767010577 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 398767010578 Uncharacterized conserved protein [Function unknown]; Region: COG2006 398767010579 Domain of unknown function (DUF362); Region: DUF362; pfam04015 398767010580 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398767010581 Response regulator receiver domain; Region: Response_reg; pfam00072 398767010582 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 398767010583 active site 398767010584 phosphorylation site [posttranslational modification] 398767010585 intermolecular recognition site; other site 398767010586 dimerization interface [polypeptide binding]; other site 398767010587 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767010588 PAS domain; Region: PAS_9; pfam13426 398767010589 putative active site [active] 398767010590 heme pocket [chemical binding]; other site 398767010591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767010592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767010593 metal binding site [ion binding]; metal-binding site 398767010594 active site 398767010595 I-site; other site 398767010596 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 398767010597 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 398767010598 active site 398767010599 catalytic site [active] 398767010600 TPR repeat; Region: TPR_11; pfam13414 398767010601 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 398767010602 TPR motif; other site 398767010603 binding surface 398767010604 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 398767010605 binding surface 398767010606 TPR motif; other site 398767010607 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 398767010608 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767010609 TPR motif; other site 398767010610 binding surface 398767010611 TPR repeat; Region: TPR_11; pfam13414 398767010612 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 398767010613 binding surface 398767010614 TPR motif; other site 398767010615 TPR repeat; Region: TPR_11; pfam13414 398767010616 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 398767010617 binding surface 398767010618 TPR motif; other site 398767010619 TPR repeat; Region: TPR_11; pfam13414 398767010620 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 398767010621 binding surface 398767010622 TPR motif; other site 398767010623 HDOD domain; Region: HDOD; pfam08668 398767010624 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767010625 Zn2+ binding site [ion binding]; other site 398767010626 Mg2+ binding site [ion binding]; other site 398767010627 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 398767010628 active site 398767010629 catalytic residues [active] 398767010630 metal binding site [ion binding]; metal-binding site 398767010631 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398767010632 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398767010633 putative active site [active] 398767010634 substrate binding site [chemical binding]; other site 398767010635 putative cosubstrate binding site; other site 398767010636 catalytic site [active] 398767010637 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398767010638 substrate binding site [chemical binding]; other site 398767010639 Protein of unknown function DUF116; Region: DUF116; pfam01976 398767010640 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398767010641 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 398767010642 Ligand Binding Site [chemical binding]; other site 398767010643 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 398767010644 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398767010645 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 398767010646 Walker A motif; other site 398767010647 ATP binding site [chemical binding]; other site 398767010648 Walker B motif; other site 398767010649 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398767010650 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 398767010651 Walker A motif; other site 398767010652 ATP binding site [chemical binding]; other site 398767010653 Walker B motif; other site 398767010654 K+ potassium transporter; Region: K_trans; pfam02705 398767010655 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398767010656 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 398767010657 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398767010658 K+ potassium transporter; Region: K_trans; pfam02705 398767010659 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 398767010660 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 398767010661 active site 398767010662 phosphorylation site [posttranslational modification] 398767010663 intermolecular recognition site; other site 398767010664 dimerization interface [polypeptide binding]; other site 398767010665 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 398767010666 DNA binding site [nucleotide binding] 398767010667 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 398767010668 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 398767010669 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 398767010670 Ligand Binding Site [chemical binding]; other site 398767010671 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398767010672 GAF domain; Region: GAF_3; pfam13492 398767010673 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 398767010674 dimer interface [polypeptide binding]; other site 398767010675 phosphorylation site [posttranslational modification] 398767010676 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 398767010677 ATP binding site [chemical binding]; other site 398767010678 Mg2+ binding site [ion binding]; other site 398767010679 G-X-G motif; other site 398767010680 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 398767010681 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 398767010682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398767010683 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 398767010684 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398767010685 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 398767010686 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 398767010687 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 398767010688 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 398767010689 putative active site [active] 398767010690 putative metal binding site [ion binding]; other site 398767010691 seryl-tRNA synthetase; Provisional; Region: PRK05431 398767010692 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398767010693 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 398767010694 dimer interface [polypeptide binding]; other site 398767010695 active site 398767010696 motif 1; other site 398767010697 motif 2; other site 398767010698 motif 3; other site 398767010699 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767010700 putative substrate translocation pore; other site 398767010701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767010702 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 398767010703 Helix-turn-helix domain; Region: HTH_25; pfam13413 398767010704 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 398767010705 S1 domain; Region: S1_2; pfam13509 398767010706 S1 domain; Region: S1_2; pfam13509 398767010707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 398767010708 Protein of unknown function (DUF330); Region: DUF330; pfam03886 398767010709 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398767010710 mce related protein; Region: MCE; pfam02470 398767010711 mce related protein; Region: MCE; pfam02470 398767010712 Paraquat-inducible protein A; Region: PqiA; pfam04403 398767010713 Paraquat-inducible protein A; Region: PqiA; pfam04403 398767010714 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 398767010715 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 398767010716 substrate binding site [chemical binding]; other site 398767010717 active site 398767010718 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398767010719 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 398767010720 active site 398767010721 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 398767010722 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398767010723 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 398767010724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010725 homodimer interface [polypeptide binding]; other site 398767010726 catalytic residue [active] 398767010727 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398767010728 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 398767010729 GDP-binding site [chemical binding]; other site 398767010730 ACT binding site; other site 398767010731 IMP binding site; other site 398767010732 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 398767010733 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 398767010734 dimer interface [polypeptide binding]; other site 398767010735 motif 1; other site 398767010736 active site 398767010737 motif 2; other site 398767010738 motif 3; other site 398767010739 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 398767010740 anticodon binding site; other site 398767010741 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 398767010742 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398767010743 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 398767010744 dimer interface [polypeptide binding]; other site 398767010745 substrate binding site [chemical binding]; other site 398767010746 metal binding site [ion binding]; metal-binding site 398767010747 membrane ATPase/protein kinase; Provisional; Region: PRK09435 398767010748 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 398767010749 Walker A; other site 398767010750 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 398767010751 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 398767010752 active site 398767010753 substrate binding site [chemical binding]; other site 398767010754 coenzyme B12 binding site [chemical binding]; other site 398767010755 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 398767010756 B12 binding site [chemical binding]; other site 398767010757 cobalt ligand [ion binding]; other site 398767010758 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398767010759 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398767010760 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398767010761 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 398767010762 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 398767010763 carboxyltransferase (CT) interaction site; other site 398767010764 biotinylation site [posttranslational modification]; other site 398767010765 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 398767010766 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398767010767 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 398767010768 sequence-specific DNA binding site [nucleotide binding]; other site 398767010769 salt bridge; other site 398767010770 Cupin domain; Region: Cupin_2; pfam07883 398767010771 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 398767010772 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398767010773 Cysteine-rich domain; Region: CCG; pfam02754 398767010774 Cysteine-rich domain; Region: CCG; pfam02754 398767010775 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 398767010776 Glucose inhibited division protein A; Region: GIDA; pfam01134 398767010777 DNA topoisomerase I; Validated; Region: PRK06599 398767010778 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 398767010779 active site 398767010780 interdomain interaction site; other site 398767010781 putative metal-binding site [ion binding]; other site 398767010782 nucleotide binding site [chemical binding]; other site 398767010783 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 398767010784 domain I; other site 398767010785 DNA binding groove [nucleotide binding] 398767010786 phosphate binding site [ion binding]; other site 398767010787 domain II; other site 398767010788 domain III; other site 398767010789 nucleotide binding site [chemical binding]; other site 398767010790 catalytic site [active] 398767010791 domain IV; other site 398767010792 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398767010793 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 398767010794 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398767010795 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398767010796 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 398767010797 DNA protecting protein DprA; Region: dprA; TIGR00732 398767010798 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398767010799 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398767010800 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 398767010801 TPR motif; other site 398767010802 binding surface 398767010803 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398767010804 Peptidase family U32; Region: Peptidase_U32; pfam01136 398767010805 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398767010806 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398767010807 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398767010808 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 398767010809 inhibitor-cofactor binding pocket; inhibition site 398767010810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010811 catalytic residue [active] 398767010812 replicative DNA helicase; Region: DnaB; TIGR00665 398767010813 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398767010814 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 398767010815 Walker A motif; other site 398767010816 ATP binding site [chemical binding]; other site 398767010817 Walker B motif; other site 398767010818 DNA binding loops [nucleotide binding] 398767010819 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 398767010820 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398767010821 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 398767010822 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398767010823 FlgN protein; Region: FlgN; pfam05130 398767010824 Rod binding protein; Region: Rod-binding; pfam10135 398767010825 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398767010826 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398767010827 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 398767010828 Flagellar L-ring protein; Region: FlgH; pfam02107 398767010829 SAF-like; Region: SAF_2; pfam13144 398767010830 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398767010831 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 398767010832 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 398767010833 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398767010834 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 398767010835 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398767010836 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 398767010837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398767010838 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 398767010839 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398767010840 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 398767010841 DNA binding residues [nucleotide binding] 398767010842 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398767010843 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 398767010844 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 398767010845 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 398767010846 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398767010847 FHIPEP family; Region: FHIPEP; pfam00771 398767010848 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398767010849 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 398767010850 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398767010851 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 398767010852 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398767010853 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 398767010854 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398767010855 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398767010856 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398767010857 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 398767010858 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 398767010859 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398767010860 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398767010861 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 398767010862 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398767010863 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398767010864 Sporulation related domain; Region: SPOR; cl10051 398767010865 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398767010866 Uncharacterized conserved protein [Function unknown]; Region: COG3334 398767010867 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 398767010868 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 398767010869 Walker A motif/ATP binding site; other site 398767010870 Walker B motif; other site 398767010871 Flagellar assembly protein FliH; Region: FliH; pfam02108 398767010872 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398767010873 Uncharacterized conserved protein [Function unknown]; Region: COG3334 398767010874 FliG C-terminal domain; Region: FliG_C; pfam01706 398767010875 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398767010876 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 398767010877 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398767010878 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 398767010879 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 398767010880 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398767010881 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398767010882 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 398767010883 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398767010884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 398767010885 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 398767010886 active site 398767010887 phosphorylation site [posttranslational modification] 398767010888 intermolecular recognition site; other site 398767010889 dimerization interface [polypeptide binding]; other site 398767010890 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398767010891 Response regulator receiver domain; Region: Response_reg; pfam00072 398767010892 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 398767010893 active site 398767010894 phosphorylation site [posttranslational modification] 398767010895 intermolecular recognition site; other site 398767010896 dimerization interface [polypeptide binding]; other site 398767010897 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 398767010898 dimerization interface [polypeptide binding]; other site 398767010899 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767010900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767010901 dimer interface [polypeptide binding]; other site 398767010902 putative CheW interface [polypeptide binding]; other site 398767010903 Protein of unknown function (DUF523); Region: DUF523; pfam04463 398767010904 Uncharacterized conserved protein [Function unknown]; Region: COG3272 398767010905 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 398767010906 Response regulator receiver domain; Region: Response_reg; pfam00072 398767010907 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 398767010908 active site 398767010909 phosphorylation site [posttranslational modification] 398767010910 intermolecular recognition site; other site 398767010911 dimerization interface [polypeptide binding]; other site 398767010912 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 398767010913 CheC-like family; Region: CheC; pfam04509 398767010914 Chemotaxis phosphatase CheX; Region: CheX; cl15816 398767010915 PAS fold; Region: PAS_4; pfam08448 398767010916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767010917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767010918 metal binding site [ion binding]; metal-binding site 398767010919 active site 398767010920 I-site; other site 398767010921 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 398767010922 putative binding surface; other site 398767010923 active site 398767010924 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398767010925 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398767010926 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 398767010927 ATP binding site [chemical binding]; other site 398767010928 Mg2+ binding site [ion binding]; other site 398767010929 G-X-G motif; other site 398767010930 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 398767010931 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398767010932 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 398767010933 active site 398767010934 substrate binding site [chemical binding]; other site 398767010935 metal binding site [ion binding]; metal-binding site 398767010936 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398767010937 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398767010938 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 398767010939 putative homodimer interface [polypeptide binding]; other site 398767010940 putative active site pocket [active] 398767010941 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 398767010942 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398767010943 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398767010944 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398767010945 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398767010946 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 398767010947 trimer interface [polypeptide binding]; other site 398767010948 putative metal binding site [ion binding]; other site 398767010949 2-isopropylmalate synthase; Validated; Region: PRK00915 398767010950 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398767010951 active site 398767010952 catalytic residues [active] 398767010953 metal binding site [ion binding]; metal-binding site 398767010954 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398767010955 GAF domain; Region: GAF; pfam01590 398767010956 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767010957 GAF domain; Region: GAF_3; pfam13492 398767010958 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 398767010959 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398767010960 Walker A motif; other site 398767010961 ATP binding site [chemical binding]; other site 398767010962 Walker B motif; other site 398767010963 arginine finger; other site 398767010964 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767010965 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767010966 putative active site [active] 398767010967 heme pocket [chemical binding]; other site 398767010968 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767010969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767010970 metal binding site [ion binding]; metal-binding site 398767010971 active site 398767010972 I-site; other site 398767010973 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 398767010974 PAS fold; Region: PAS; pfam00989 398767010975 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767010976 GAF domain; Region: GAF; pfam01590 398767010977 PAS domain S-box; Region: sensory_box; TIGR00229 398767010978 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767010979 putative active site [active] 398767010980 heme pocket [chemical binding]; other site 398767010981 PAS domain S-box; Region: sensory_box; TIGR00229 398767010982 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767010983 putative active site [active] 398767010984 heme pocket [chemical binding]; other site 398767010985 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767010986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767010987 metal binding site [ion binding]; metal-binding site 398767010988 active site 398767010989 I-site; other site 398767010990 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 398767010991 putative hydrolase; Provisional; Region: PRK02113 398767010992 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 398767010993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767010994 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 398767010995 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398767010996 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 398767010997 tetramer interface [polypeptide binding]; other site 398767010998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767010999 catalytic residue [active] 398767011000 CheW-like domain; Region: CheW; pfam01584 398767011001 HAMP domain; Region: HAMP; pfam00672 398767011002 dimerization interface [polypeptide binding]; other site 398767011003 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767011004 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767011005 dimer interface [polypeptide binding]; other site 398767011006 putative CheW interface [polypeptide binding]; other site 398767011007 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398767011008 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398767011009 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398767011010 NlpC/P60 family; Region: NLPC_P60; cl17555 398767011011 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398767011012 Fe-S cluster binding site [ion binding]; other site 398767011013 active site 398767011014 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 398767011015 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398767011016 Flavoprotein; Region: Flavoprotein; pfam02441 398767011017 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 398767011018 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398767011019 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 398767011020 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 398767011021 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 398767011022 Rubredoxin; Region: Rubredoxin; pfam00301 398767011023 iron binding site [ion binding]; other site 398767011024 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398767011025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398767011026 catalytic residue [active] 398767011027 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 398767011028 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 398767011029 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398767011030 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767011031 thioredoxin reductase; Provisional; Region: PRK10262 398767011032 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398767011033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398767011034 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 398767011035 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 398767011036 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 398767011037 binding surface 398767011038 TPR motif; other site 398767011039 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767011040 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 398767011041 binding surface 398767011042 TPR motif; other site 398767011043 TPR repeat; Region: TPR_11; pfam13414 398767011044 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 398767011045 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011046 binding surface 398767011047 TPR motif; other site 398767011048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011049 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 398767011050 TPR motif; other site 398767011051 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011052 binding surface 398767011053 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 398767011054 Exostosin family; Region: Exostosin; pfam03016 398767011055 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 398767011056 binding surface 398767011057 TPR motif; other site 398767011058 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767011059 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 398767011060 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 398767011061 TPR motif; other site 398767011062 binding surface 398767011063 TPR repeat; Region: TPR_11; pfam13414 398767011064 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 398767011065 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 398767011066 TPR motif; other site 398767011067 TPR repeat; Region: TPR_11; pfam13414 398767011068 binding surface 398767011069 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 398767011070 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 398767011071 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 398767011072 S-adenosylmethionine binding site [chemical binding]; other site 398767011073 putative glycosyl transferase; Provisional; Region: PRK10125 398767011074 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 398767011075 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 398767011076 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767011077 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 398767011078 S-adenosylmethionine binding site [chemical binding]; other site 398767011079 Methyltransferase domain; Region: Methyltransf_24; pfam13578 398767011080 B12 binding domain; Region: B12-binding; pfam02310 398767011081 B12 binding site [chemical binding]; other site 398767011082 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767011083 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 398767011084 FeS/SAM binding site; other site 398767011085 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 398767011086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 398767011087 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 398767011088 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 398767011089 Methyltransferase domain; Region: Methyltransf_24; pfam13578 398767011090 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 398767011091 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 398767011092 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 398767011093 active site 398767011094 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 398767011095 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 398767011096 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398767011097 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 398767011098 S-adenosylmethionine binding site [chemical binding]; other site 398767011099 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767011100 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767011101 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 398767011102 FeS/SAM binding site; other site 398767011103 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398767011104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767011105 NAD(P) binding site [chemical binding]; other site 398767011106 active site 398767011107 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 398767011108 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 398767011109 active site 398767011110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398767011111 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 398767011112 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 398767011113 binding surface 398767011114 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011115 TPR motif; other site 398767011116 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011117 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398767011118 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 398767011119 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011120 TPR repeat; Region: TPR_11; pfam13414 398767011121 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 398767011122 binding surface 398767011123 TPR motif; other site 398767011124 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 398767011125 binding surface 398767011126 TPR repeat; Region: TPR_11; pfam13414 398767011127 TPR motif; other site 398767011128 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398767011129 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 398767011130 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398767011131 flagellin; Provisional; Region: PRK12802 398767011132 flagellin; Provisional; Region: PRK12802 398767011133 Flagellar protein FlbT; Region: FlbT; pfam07378 398767011134 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767011135 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 398767011136 Probable Catalytic site; other site 398767011137 metal-binding site 398767011138 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767011139 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767011140 Probable Catalytic site; other site 398767011141 metal-binding site 398767011142 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398767011143 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398767011144 Probable Catalytic site; other site 398767011145 metal-binding site 398767011146 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 398767011147 putative metal binding site; other site 398767011148 TPR repeat; Region: TPR_11; pfam13414 398767011149 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 398767011150 binding surface 398767011151 TPR motif; other site 398767011152 TPR repeat; Region: TPR_11; pfam13414 398767011153 TPR repeat; Region: TPR_11; pfam13414 398767011154 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 398767011155 TPR motif; other site 398767011156 binding surface 398767011157 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 398767011158 binding surface 398767011159 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398767011160 TPR motif; other site 398767011161 TPR repeat; Region: TPR_11; pfam13414 398767011162 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 398767011163 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398767011164 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 398767011165 active site 398767011166 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 398767011167 S-adenosylmethionine binding site [chemical binding]; other site 398767011168 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398767011169 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 398767011170 inhibitor-cofactor binding pocket; inhibition site 398767011171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767011172 catalytic residue [active] 398767011173 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 398767011174 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398767011175 Methyltransferase domain; Region: Methyltransf_12; pfam08242 398767011176 S-adenosylmethionine binding site [chemical binding]; other site 398767011177 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 398767011178 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 398767011179 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 398767011180 S-adenosylmethionine binding site [chemical binding]; other site 398767011181 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398767011182 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398767011183 putative active site [active] 398767011184 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 398767011185 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398767011186 FeS/SAM binding site; other site 398767011187 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 398767011188 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 398767011189 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 398767011190 FeS/SAM binding site; other site 398767011191 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 398767011192 putative ligand binding site [chemical binding]; other site 398767011193 putative catalytic site [active] 398767011194 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 398767011195 adenylylsulfate kinase; Provisional; Region: PRK05541 398767011196 active site 398767011197 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398767011198 active site 398767011199 cosubstrate binding site; other site 398767011200 substrate binding site [chemical binding]; other site 398767011201 catalytic site [active] 398767011202 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398767011203 active site 398767011204 metal-binding site 398767011205 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398767011206 conserved cys residue [active] 398767011207 hypothetical protein; Provisional; Region: PRK05849 398767011208 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398767011209 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398767011210 Transposase; Region: HTH_Tnp_1; pfam01527 398767011211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398767011212 putative transposase OrfB; Reviewed; Region: PHA02517 398767011213 HTH-like domain; Region: HTH_21; pfam13276 398767011214 Integrase core domain; Region: rve; pfam00665 398767011215 Integrase core domain; Region: rve_3; pfam13683 398767011216 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398767011217 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 398767011218 putative active site [active] 398767011219 oxyanion strand; other site 398767011220 catalytic triad [active] 398767011221 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 398767011222 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398767011223 substrate binding site [chemical binding]; other site 398767011224 glutamase interaction surface [polypeptide binding]; other site 398767011225 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 398767011226 ligand binding site; other site 398767011227 tetramer interface; other site 398767011228 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398767011229 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 398767011230 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 398767011231 FeS/SAM binding site; other site 398767011232 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 398767011233 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 398767011234 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 398767011235 inhibitor-cofactor binding pocket; inhibition site 398767011236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767011237 catalytic residue [active] 398767011238 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 398767011239 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398767011240 Metal-binding active site; metal-binding site 398767011241 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398767011242 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398767011243 Coenzyme A binding pocket [chemical binding]; other site 398767011244 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 398767011245 NeuB family; Region: NeuB; pfam03102 398767011246 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 398767011247 NeuB binding interface [polypeptide binding]; other site 398767011248 putative substrate binding site [chemical binding]; other site 398767011249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767011250 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 398767011251 active site 398767011252 phosphorylation site [posttranslational modification] 398767011253 intermolecular recognition site; other site 398767011254 dimerization interface [polypeptide binding]; other site 398767011255 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 398767011256 Walker A motif; other site 398767011257 ATP binding site [chemical binding]; other site 398767011258 Walker B motif; other site 398767011259 arginine finger; other site 398767011260 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767011261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767011262 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 398767011263 dimerization interface [polypeptide binding]; other site 398767011264 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 398767011265 dimer interface [polypeptide binding]; other site 398767011266 phosphorylation site [posttranslational modification] 398767011267 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 398767011268 ATP binding site [chemical binding]; other site 398767011269 Mg2+ binding site [ion binding]; other site 398767011270 G-X-G motif; other site 398767011271 Surface antigen; Region: Bac_surface_Ag; pfam01103 398767011272 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398767011273 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398767011274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398767011275 Walker A/P-loop; other site 398767011276 ATP binding site [chemical binding]; other site 398767011277 Q-loop/lid; other site 398767011278 ABC transporter signature motif; other site 398767011279 Walker B; other site 398767011280 D-loop; other site 398767011281 H-loop/switch region; other site 398767011282 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398767011283 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 398767011284 dimer interface [polypeptide binding]; other site 398767011285 ssDNA binding site [nucleotide binding]; other site 398767011286 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398767011287 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398767011288 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398767011289 putative acyl-acceptor binding pocket; other site 398767011290 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 398767011291 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767011292 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398767011293 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398767011294 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 398767011295 dimer interface [polypeptide binding]; other site 398767011296 acyl-activating enzyme (AAE) consensus motif; other site 398767011297 putative active site [active] 398767011298 AMP binding site [chemical binding]; other site 398767011299 putative CoA binding site [chemical binding]; other site 398767011300 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 398767011301 active site 398767011302 putative homodimer interface [polypeptide binding]; other site 398767011303 SAM binding site [chemical binding]; other site 398767011304 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 398767011305 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 398767011306 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398767011307 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398767011308 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398767011309 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398767011310 Walker A/P-loop; other site 398767011311 ATP binding site [chemical binding]; other site 398767011312 Q-loop/lid; other site 398767011313 ABC transporter signature motif; other site 398767011314 Walker B; other site 398767011315 D-loop; other site 398767011316 H-loop/switch region; other site 398767011317 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398767011318 Walker A/P-loop; other site 398767011319 ATP binding site [chemical binding]; other site 398767011320 Q-loop/lid; other site 398767011321 ABC transporter signature motif; other site 398767011322 Walker B; other site 398767011323 D-loop; other site 398767011324 H-loop/switch region; other site 398767011325 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398767011326 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 398767011327 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 398767011328 HlyD family secretion protein; Region: HlyD; pfam00529 398767011329 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767011330 PAS domain; Region: PAS_9; pfam13426 398767011331 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011332 putative active site [active] 398767011333 heme pocket [chemical binding]; other site 398767011334 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398767011335 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767011336 Zn2+ binding site [ion binding]; other site 398767011337 Mg2+ binding site [ion binding]; other site 398767011338 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 398767011339 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398767011340 NAD binding site [chemical binding]; other site 398767011341 homotetramer interface [polypeptide binding]; other site 398767011342 homodimer interface [polypeptide binding]; other site 398767011343 substrate binding site [chemical binding]; other site 398767011344 active site 398767011345 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398767011346 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398767011347 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 398767011348 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398767011349 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398767011350 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398767011351 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398767011352 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398767011353 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 398767011354 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767011355 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767011356 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 398767011357 dimerization interface [polypeptide binding]; other site 398767011358 substrate binding site [chemical binding]; other site 398767011359 active site 398767011360 calcium binding site [ion binding]; other site 398767011361 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398767011362 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398767011363 Protein export membrane protein; Region: SecD_SecF; cl14618 398767011364 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 398767011365 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767011366 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767011367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767011368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767011369 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767011370 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767011371 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398767011372 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398767011373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767011374 ligand binding site [chemical binding]; other site 398767011375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767011376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767011377 metal binding site [ion binding]; metal-binding site 398767011378 active site 398767011379 I-site; other site 398767011380 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 398767011381 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398767011382 G1 box; other site 398767011383 putative GEF interaction site [polypeptide binding]; other site 398767011384 GTP/Mg2+ binding site [chemical binding]; other site 398767011385 Switch I region; other site 398767011386 G2 box; other site 398767011387 G3 box; other site 398767011388 Switch II region; other site 398767011389 G4 box; other site 398767011390 G5 box; other site 398767011391 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 398767011392 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 398767011393 PAS domain S-box; Region: sensory_box; TIGR00229 398767011394 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011395 putative active site [active] 398767011396 heme pocket [chemical binding]; other site 398767011397 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767011398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767011399 metal binding site [ion binding]; metal-binding site 398767011400 active site 398767011401 I-site; other site 398767011402 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767011403 excinuclease ABC subunit B; Provisional; Region: PRK05298 398767011404 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 398767011405 ATP binding site [chemical binding]; other site 398767011406 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 398767011407 nucleotide binding region [chemical binding]; other site 398767011408 ATP-binding site [chemical binding]; other site 398767011409 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398767011410 UvrB/uvrC motif; Region: UVR; pfam02151 398767011411 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 398767011412 dimer interface [polypeptide binding]; other site 398767011413 phosphorylation site [posttranslational modification] 398767011414 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 398767011415 ATP binding site [chemical binding]; other site 398767011416 Mg2+ binding site [ion binding]; other site 398767011417 G-X-G motif; other site 398767011418 Response regulator receiver domain; Region: Response_reg; pfam00072 398767011419 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 398767011420 active site 398767011421 phosphorylation site [posttranslational modification] 398767011422 intermolecular recognition site; other site 398767011423 dimerization interface [polypeptide binding]; other site 398767011424 HDOD domain; Region: HDOD; pfam08668 398767011425 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767011426 Zn2+ binding site [ion binding]; other site 398767011427 Mg2+ binding site [ion binding]; other site 398767011428 hypothetical protein; Provisional; Region: PRK10410 398767011429 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398767011430 MULE transposase domain; Region: MULE; pfam10551 398767011431 PBP superfamily domain; Region: PBP_like_2; pfam12849 398767011432 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398767011433 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 398767011434 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 398767011435 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 398767011436 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 398767011437 Transglycosylase; Region: Transgly; pfam00912 398767011438 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398767011439 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398767011440 PLD-like domain; Region: PLDc_2; pfam13091 398767011441 putative active site [active] 398767011442 catalytic site [active] 398767011443 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 398767011444 PLD-like domain; Region: PLDc_2; pfam13091 398767011445 putative active site [active] 398767011446 catalytic site [active] 398767011447 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398767011448 active site 398767011449 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 398767011450 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 398767011451 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 398767011452 active site 398767011453 substrate-binding site [chemical binding]; other site 398767011454 metal-binding site [ion binding] 398767011455 GTP binding site [chemical binding]; other site 398767011456 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 398767011457 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 398767011458 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398767011459 Protein export membrane protein; Region: SecD_SecF; cl14618 398767011460 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 398767011461 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767011462 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767011463 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767011464 Outer membrane efflux protein; Region: OEP; pfam02321 398767011465 Outer membrane efflux protein; Region: OEP; pfam02321 398767011466 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398767011467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398767011468 ligand binding site [chemical binding]; other site 398767011469 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 398767011470 TolB amino-terminal domain; Region: TolB_N; pfam04052 398767011471 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398767011472 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398767011473 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398767011474 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398767011475 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398767011476 TolA protein; Region: tolA_full; TIGR02794 398767011477 TonB C terminal; Region: TonB_2; pfam13103 398767011478 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398767011479 TolR protein; Region: tolR; TIGR02801 398767011480 TolQ protein; Region: tolQ; TIGR02796 398767011481 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398767011482 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 398767011483 putative active site [active] 398767011484 catalytic triad [active] 398767011485 putative dimer interface [polypeptide binding]; other site 398767011486 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398767011487 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398767011488 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 398767011489 OsmC-like protein; Region: OsmC; pfam02566 398767011490 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 398767011491 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 398767011492 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 398767011493 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 398767011494 Ligand Binding Site [chemical binding]; other site 398767011495 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 398767011496 homotrimer interaction site [polypeptide binding]; other site 398767011497 zinc binding site [ion binding]; other site 398767011498 CDP-binding sites; other site 398767011499 Chromate transporter; Region: Chromate_transp; pfam02417 398767011500 Chromate transporter; Region: Chromate_transp; pfam02417 398767011501 Response regulator receiver domain; Region: Response_reg; pfam00072 398767011502 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 398767011503 active site 398767011504 phosphorylation site [posttranslational modification] 398767011505 intermolecular recognition site; other site 398767011506 dimerization interface [polypeptide binding]; other site 398767011507 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 398767011508 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767011509 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 398767011510 Walker A motif; other site 398767011511 ATP binding site [chemical binding]; other site 398767011512 Walker B motif; other site 398767011513 Stage III sporulation protein D; Region: SpoIIID; cl17560 398767011514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767011515 Integrase core domain; Region: rve; pfam00665 398767011516 Preprotein translocase subunit SecB; Region: SecB; pfam02556 398767011517 Preprotein binding site; other site 398767011518 SecA binding site; other site 398767011519 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 398767011520 non-specific DNA binding site [nucleotide binding]; other site 398767011521 salt bridge; other site 398767011522 sequence-specific DNA binding site [nucleotide binding]; other site 398767011523 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 398767011524 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 398767011525 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398767011526 active site 398767011527 DNA binding site [nucleotide binding] 398767011528 Int/Topo IB signature motif; other site 398767011529 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398767011530 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398767011531 Walker A/P-loop; other site 398767011532 ATP binding site [chemical binding]; other site 398767011533 Q-loop/lid; other site 398767011534 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 398767011535 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398767011536 Q-loop/lid; other site 398767011537 ABC transporter signature motif; other site 398767011538 Walker B; other site 398767011539 D-loop; other site 398767011540 H-loop/switch region; other site 398767011541 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 398767011542 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398767011543 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 398767011544 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 398767011545 GTP binding site [chemical binding]; other site 398767011546 Protein of unknown function (DUF904); Region: DUF904; pfam06005 398767011547 Cell division protein ZapA; Region: ZapA; pfam05164 398767011548 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 398767011549 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 398767011550 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 398767011551 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 398767011552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767011553 Zn2+ binding site [ion binding]; other site 398767011554 Mg2+ binding site [ion binding]; other site 398767011555 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 398767011556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398767011557 putative active site [active] 398767011558 metal binding site [ion binding]; metal-binding site 398767011559 homodimer binding site [polypeptide binding]; other site 398767011560 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 398767011561 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398767011562 active site 398767011563 HIGH motif; other site 398767011564 dimer interface [polypeptide binding]; other site 398767011565 KMSKS motif; other site 398767011566 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 398767011567 RNA binding surface [nucleotide binding]; other site 398767011568 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 398767011569 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398767011570 putative RNA binding site [nucleotide binding]; other site 398767011571 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767011572 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398767011573 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398767011574 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398767011575 Walker A/P-loop; other site 398767011576 ATP binding site [chemical binding]; other site 398767011577 Q-loop/lid; other site 398767011578 ABC transporter signature motif; other site 398767011579 Walker B; other site 398767011580 D-loop; other site 398767011581 H-loop/switch region; other site 398767011582 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 398767011583 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398767011584 Walker A/P-loop; other site 398767011585 ATP binding site [chemical binding]; other site 398767011586 Q-loop/lid; other site 398767011587 ABC transporter signature motif; other site 398767011588 Walker B; other site 398767011589 D-loop; other site 398767011590 H-loop/switch region; other site 398767011591 Membrane protein of unknown function; Region: DUF360; pfam04020 398767011592 RF-1 domain; Region: RF-1; pfam00472 398767011593 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398767011594 ABC transporter ATPase component; Reviewed; Region: PRK11147 398767011595 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767011596 ABC transporter; Region: ABC_tran_2; pfam12848 398767011597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767011598 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 398767011599 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 398767011600 ATP binding site [chemical binding]; other site 398767011601 putative Mg++ binding site [ion binding]; other site 398767011602 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 398767011603 GIY-YIG motif/motif A; other site 398767011604 putative active site [active] 398767011605 putative metal binding site [ion binding]; other site 398767011606 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 398767011607 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767011608 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398767011609 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 398767011610 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398767011611 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398767011612 HsdM N-terminal domain; Region: HsdM_N; pfam12161 398767011613 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767011614 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 398767011615 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 398767011616 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 398767011617 ATP binding site [chemical binding]; other site 398767011618 Mg++ binding site [ion binding]; other site 398767011619 motif III; other site 398767011620 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 398767011621 nucleotide binding region [chemical binding]; other site 398767011622 ATP-binding site [chemical binding]; other site 398767011623 CHASE domain; Region: CHASE; pfam03924 398767011624 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767011625 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011626 putative active site [active] 398767011627 heme pocket [chemical binding]; other site 398767011628 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011629 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767011630 putative active site [active] 398767011631 heme pocket [chemical binding]; other site 398767011632 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398767011633 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 398767011634 dimer interface [polypeptide binding]; other site 398767011635 phosphorylation site [posttranslational modification] 398767011636 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 398767011637 ATP binding site [chemical binding]; other site 398767011638 Mg2+ binding site [ion binding]; other site 398767011639 G-X-G motif; other site 398767011640 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767011641 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 398767011642 active site 398767011643 phosphorylation site [posttranslational modification] 398767011644 intermolecular recognition site; other site 398767011645 dimerization interface [polypeptide binding]; other site 398767011646 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 398767011647 Walker A motif; other site 398767011648 ATP binding site [chemical binding]; other site 398767011649 Walker B motif; other site 398767011650 arginine finger; other site 398767011651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767011652 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398767011653 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 398767011654 substrate binding pocket [chemical binding]; other site 398767011655 membrane-bound complex binding site; other site 398767011656 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011657 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398767011658 putative active site [active] 398767011659 heme pocket [chemical binding]; other site 398767011660 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398767011661 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011662 putative active site [active] 398767011663 heme pocket [chemical binding]; other site 398767011664 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 398767011665 dimer interface [polypeptide binding]; other site 398767011666 phosphorylation site [posttranslational modification] 398767011667 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 398767011668 ATP binding site [chemical binding]; other site 398767011669 Mg2+ binding site [ion binding]; other site 398767011670 G-X-G motif; other site 398767011671 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767011672 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 398767011673 active site 398767011674 phosphorylation site [posttranslational modification] 398767011675 intermolecular recognition site; other site 398767011676 dimerization interface [polypeptide binding]; other site 398767011677 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398767011678 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 398767011679 active site 398767011680 phosphorylation site [posttranslational modification] 398767011681 intermolecular recognition site; other site 398767011682 dimerization interface [polypeptide binding]; other site 398767011683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398767011684 Zn2+ binding site [ion binding]; other site 398767011685 Mg2+ binding site [ion binding]; other site 398767011686 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 398767011687 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398767011688 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398767011689 dimerization interface [polypeptide binding]; other site 398767011690 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767011691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767011692 dimer interface [polypeptide binding]; other site 398767011693 putative CheW interface [polypeptide binding]; other site 398767011694 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 398767011695 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767011696 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 398767011697 substrate binding pocket [chemical binding]; other site 398767011698 membrane-bound complex binding site; other site 398767011699 hinge residues; other site 398767011700 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 398767011701 dimer interface [polypeptide binding]; other site 398767011702 phosphorylation site [posttranslational modification] 398767011703 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 398767011704 ATP binding site [chemical binding]; other site 398767011705 Mg2+ binding site [ion binding]; other site 398767011706 G-X-G motif; other site 398767011707 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767011708 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 398767011709 active site 398767011710 phosphorylation site [posttranslational modification] 398767011711 intermolecular recognition site; other site 398767011712 dimerization interface [polypeptide binding]; other site 398767011713 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 398767011714 Walker A motif; other site 398767011715 ATP binding site [chemical binding]; other site 398767011716 Walker B motif; other site 398767011717 arginine finger; other site 398767011718 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767011719 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 398767011720 membrane-bound complex binding site; other site 398767011721 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 398767011722 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398767011723 mobile mystery protein A; Region: mob_myst_A; TIGR02612 398767011724 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 398767011725 non-specific DNA binding site [nucleotide binding]; other site 398767011726 salt bridge; other site 398767011727 sequence-specific DNA binding site [nucleotide binding]; other site 398767011728 mobile mystery protein B; Region: mob_myst_B; TIGR02613 398767011729 Fic/DOC family; Region: Fic; pfam02661 398767011730 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 398767011731 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 398767011732 dimer interface [polypeptide binding]; other site 398767011733 active site 398767011734 metal binding site [ion binding]; metal-binding site 398767011735 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398767011736 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398767011737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398767011738 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398767011739 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 398767011740 ligand binding site [chemical binding]; other site 398767011741 flexible hinge region; other site 398767011742 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767011743 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 398767011744 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 398767011745 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 398767011746 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 398767011747 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767011748 heme-binding residues [chemical binding]; other site 398767011749 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398767011750 L-aspartate oxidase; Provisional; Region: PRK06175 398767011751 H+ Antiporter protein; Region: 2A0121; TIGR00900 398767011752 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398767011753 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767011754 Histidine kinase; Region: His_kinase; pfam06580 398767011755 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 398767011756 ATP binding site [chemical binding]; other site 398767011757 Mg2+ binding site [ion binding]; other site 398767011758 G-X-G motif; other site 398767011759 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 398767011760 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 398767011761 active site 398767011762 phosphorylation site [posttranslational modification] 398767011763 intermolecular recognition site; other site 398767011764 dimerization interface [polypeptide binding]; other site 398767011765 LytTr DNA-binding domain; Region: LytTR; pfam04397 398767011766 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 398767011767 active site 398767011768 substrate binding site [chemical binding]; other site 398767011769 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 398767011770 FMN binding site [chemical binding]; other site 398767011771 putative catalytic residues [active] 398767011772 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 398767011773 PBP superfamily domain; Region: PBP_like_2; pfam12849 398767011774 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 398767011775 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 398767011776 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398767011777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398767011778 dimer interface [polypeptide binding]; other site 398767011779 putative CheW interface [polypeptide binding]; other site 398767011780 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398767011781 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 398767011782 putative [4Fe-4S] binding site [ion binding]; other site 398767011783 putative molybdopterin cofactor binding site [chemical binding]; other site 398767011784 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398767011785 molybdopterin cofactor binding site; other site 398767011786 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 398767011787 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 398767011788 NADP binding site [chemical binding]; other site 398767011789 homopentamer interface [polypeptide binding]; other site 398767011790 substrate binding site [chemical binding]; other site 398767011791 active site 398767011792 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 398767011793 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 398767011794 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 398767011795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767011796 homodimer interface [polypeptide binding]; other site 398767011797 catalytic residue [active] 398767011798 cobyric acid synthase; Provisional; Region: PRK00784 398767011799 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 398767011800 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398767011801 catalytic triad [active] 398767011802 Response regulator receiver domain; Region: Response_reg; pfam00072 398767011803 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 398767011804 active site 398767011805 phosphorylation site [posttranslational modification] 398767011806 intermolecular recognition site; other site 398767011807 dimerization interface [polypeptide binding]; other site 398767011808 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398767011809 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398767011810 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398767011811 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767011812 N-terminal plug; other site 398767011813 ligand-binding site [chemical binding]; other site 398767011814 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 398767011815 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398767011816 intersubunit interface [polypeptide binding]; other site 398767011817 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398767011818 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 398767011819 ABC-ATPase subunit interface; other site 398767011820 dimer interface [polypeptide binding]; other site 398767011821 putative PBP binding regions; other site 398767011822 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398767011823 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398767011824 Walker A/P-loop; other site 398767011825 ATP binding site [chemical binding]; other site 398767011826 Q-loop/lid; other site 398767011827 ABC transporter signature motif; other site 398767011828 Walker B; other site 398767011829 D-loop; other site 398767011830 H-loop/switch region; other site 398767011831 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398767011832 XPC-binding domain; Region: XPC-binding; pfam09280 398767011833 YaeQ protein; Region: YaeQ; pfam07152 398767011834 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 398767011835 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398767011836 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 398767011837 pyruvate phosphate dikinase; Provisional; Region: PRK09279 398767011838 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398767011839 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398767011840 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398767011841 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 398767011842 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398767011843 G1 box; other site 398767011844 putative GEF interaction site [polypeptide binding]; other site 398767011845 GTP/Mg2+ binding site [chemical binding]; other site 398767011846 Switch I region; other site 398767011847 G2 box; other site 398767011848 G3 box; other site 398767011849 Switch II region; other site 398767011850 G4 box; other site 398767011851 G5 box; other site 398767011852 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 398767011853 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 398767011854 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398767011855 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398767011856 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398767011857 active site 398767011858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398767011859 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 398767011860 active site 398767011861 phosphorylation site [posttranslational modification] 398767011862 intermolecular recognition site; other site 398767011863 dimerization interface [polypeptide binding]; other site 398767011864 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 398767011865 DNA binding site [nucleotide binding] 398767011866 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398767011867 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398767011868 FtsX-like permease family; Region: FtsX; pfam02687 398767011869 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 398767011870 putative ADP-ribose binding site [chemical binding]; other site 398767011871 putative active site [active] 398767011872 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398767011873 oligomeric interface; other site 398767011874 putative active site [active] 398767011875 homodimer interface [polypeptide binding]; other site 398767011876 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 398767011877 RDD family; Region: RDD; pfam06271 398767011878 Integral membrane protein DUF95; Region: DUF95; pfam01944 398767011879 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 398767011880 Protein of unknown function DUF58; Region: DUF58; pfam01882 398767011881 MoxR-like ATPases [General function prediction only]; Region: COG0714 398767011882 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 398767011883 Walker A motif; other site 398767011884 ATP binding site [chemical binding]; other site 398767011885 Walker B motif; other site 398767011886 arginine finger; other site 398767011887 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 398767011888 C2 domain; Region: C2; cl14603 398767011889 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 398767011890 RDD family; Region: RDD; pfam06271 398767011891 endonuclease IV; Provisional; Region: PRK01060 398767011892 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 398767011893 AP (apurinic/apyrimidinic) site pocket; other site 398767011894 DNA interaction; other site 398767011895 Metal-binding active site; metal-binding site 398767011896 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398767011897 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398767011898 dimer interface [polypeptide binding]; other site 398767011899 putative functional site; other site 398767011900 putative MPT binding site; other site 398767011901 Quinolinate synthetase A protein; Region: NadA; pfam02445 398767011902 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 398767011903 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 398767011904 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 398767011905 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398767011906 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398767011907 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398767011908 active site 398767011909 NTP binding site [chemical binding]; other site 398767011910 metal binding triad [ion binding]; metal-binding site 398767011911 antibiotic binding site [chemical binding]; other site 398767011912 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 398767011913 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 398767011914 phosphoglyceromutase; Provisional; Region: PRK05434 398767011915 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767011916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398767011917 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767011918 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 398767011919 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 398767011920 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 398767011921 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767011922 metal binding triad; other site 398767011923 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398767011924 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398767011925 metal binding triad; other site 398767011926 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398767011927 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398767011928 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398767011929 putative catalytic cysteine [active] 398767011930 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 398767011931 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398767011932 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398767011933 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 398767011934 active site 398767011935 phosphorylation site [posttranslational modification] 398767011936 intermolecular recognition site; other site 398767011937 dimerization interface [polypeptide binding]; other site 398767011938 Response regulator receiver domain; Region: Response_reg; pfam00072 398767011939 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 398767011940 active site 398767011941 phosphorylation site [posttranslational modification] 398767011942 intermolecular recognition site; other site 398767011943 dimerization interface [polypeptide binding]; other site 398767011944 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 398767011945 phosphorylation site [posttranslational modification] 398767011946 dimer interface [polypeptide binding]; other site 398767011947 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 398767011948 ATP binding site [chemical binding]; other site 398767011949 Mg2+ binding site [ion binding]; other site 398767011950 G-X-G motif; other site 398767011951 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398767011952 Ligand Binding Site [chemical binding]; other site 398767011953 Response regulator receiver domain; Region: Response_reg; pfam00072 398767011954 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 398767011955 active site 398767011956 phosphorylation site [posttranslational modification] 398767011957 intermolecular recognition site; other site 398767011958 dimerization interface [polypeptide binding]; other site 398767011959 Helix-turn-helix domain; Region: HTH_25; pfam13413 398767011960 TPR repeat; Region: TPR_11; pfam13414 398767011961 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 398767011962 binding surface 398767011963 TPR motif; other site 398767011964 TPR repeat; Region: TPR_11; pfam13414 398767011965 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 398767011966 binding surface 398767011967 TPR motif; other site 398767011968 TPR repeat; Region: TPR_11; pfam13414 398767011969 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 398767011970 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398767011971 substrate binding site [chemical binding]; other site 398767011972 ATP binding site [chemical binding]; other site 398767011973 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398767011974 PAS domain S-box; Region: sensory_box; TIGR00229 398767011975 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011976 putative active site [active] 398767011977 heme pocket [chemical binding]; other site 398767011978 PAS domain S-box; Region: sensory_box; TIGR00229 398767011979 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398767011980 putative active site [active] 398767011981 heme pocket [chemical binding]; other site 398767011982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767011983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767011984 metal binding site [ion binding]; metal-binding site 398767011985 active site 398767011986 I-site; other site 398767011987 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 398767011988 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398767011989 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 398767011990 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 398767011991 FeS/SAM binding site; other site 398767011992 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 398767011993 active site 398767011994 multimer interface [polypeptide binding]; other site 398767011995 16S rRNA methyltransferase B; Provisional; Region: PRK14902 398767011996 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 398767011997 putative RNA binding site [nucleotide binding]; other site 398767011998 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 398767011999 S-adenosylmethionine binding site [chemical binding]; other site 398767012000 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 398767012001 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 398767012002 substrate binding site [chemical binding]; other site 398767012003 hexamer interface [polypeptide binding]; other site 398767012004 metal binding site [ion binding]; metal-binding site 398767012005 Response regulator receiver domain; Region: Response_reg; pfam00072 398767012006 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 398767012007 active site 398767012008 phosphorylation site [posttranslational modification] 398767012009 intermolecular recognition site; other site 398767012010 dimerization interface [polypeptide binding]; other site 398767012011 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398767012012 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398767012013 metal binding site [ion binding]; metal-binding site 398767012014 active site 398767012015 I-site; other site 398767012016 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398767012017 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398767012018 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398767012019 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398767012020 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398767012021 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 398767012022 nucleotide binding site/active site [active] 398767012023 HIT family signature motif; other site 398767012024 catalytic residue [active] 398767012025 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398767012026 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 398767012027 dimer interface [polypeptide binding]; other site 398767012028 phosphorylation site [posttranslational modification] 398767012029 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 398767012030 ATP binding site [chemical binding]; other site 398767012031 Mg2+ binding site [ion binding]; other site 398767012032 G-X-G motif; other site 398767012033 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 398767012034 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 398767012035 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398767012036 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 398767012037 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398767012038 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398767012039 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 398767012040 substrate binding pocket [chemical binding]; other site 398767012041 membrane-bound complex binding site; other site 398767012042 hinge residues; other site 398767012043 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 398767012044 dimer interface [polypeptide binding]; other site 398767012045 phosphorylation site [posttranslational modification] 398767012046 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 398767012047 ATP binding site [chemical binding]; other site 398767012048 Mg2+ binding site [ion binding]; other site 398767012049 G-X-G motif; other site 398767012050 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398767012051 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 398767012052 active site 398767012053 phosphorylation site [posttranslational modification] 398767012054 intermolecular recognition site; other site 398767012055 dimerization interface [polypeptide binding]; other site 398767012056 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 398767012057 Walker A motif; other site 398767012058 ATP binding site [chemical binding]; other site 398767012059 Walker B motif; other site 398767012060 arginine finger; other site 398767012061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398767012062 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398767012063 heme-binding residues [chemical binding]; other site 398767012064 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398767012065 L-aspartate oxidase; Provisional; Region: PRK06175 398767012066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398767012067 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398767012068 putative substrate translocation pore; other site 398767012069 outer membrane porin, OprD family; Region: OprD; pfam03573 398767012070 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398767012071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767012072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767012073 ABC transporter; Region: ABC_tran_2; pfam12848 398767012074 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398767012075 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398767012076 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398767012077 Walker A/P-loop; other site 398767012078 ATP binding site [chemical binding]; other site 398767012079 Q-loop/lid; other site 398767012080 ABC transporter signature motif; other site 398767012081 Walker B; other site 398767012082 D-loop; other site 398767012083 H-loop/switch region; other site 398767012084 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 398767012085 Oligomerisation domain; Region: Oligomerisation; pfam02410 398767012086 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 398767012087 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 398767012088 active site 398767012089 (T/H)XGH motif; other site 398767012090 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 398767012091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398767012092 NAD(P) binding site [chemical binding]; other site 398767012093 active site 398767012094 putative formyltransferase; Provisional; Region: PRK06988 398767012095 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398767012096 active site 398767012097 substrate binding site [chemical binding]; other site 398767012098 cosubstrate binding site; other site 398767012099 catalytic site [active] 398767012100 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 398767012101 active site 398767012102 hexamer interface [polypeptide binding]; other site 398767012103 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398767012104 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398767012105 Ligand binding site; other site 398767012106 Putative Catalytic site; other site 398767012107 DXD motif; other site 398767012108 ribonuclease D; Region: rnd; TIGR01388 398767012109 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 398767012110 catalytic site [active] 398767012111 putative active site [active] 398767012112 putative substrate binding site [chemical binding]; other site 398767012113 HRDC domain; Region: HRDC; pfam00570 398767012114 HRDC domain; Region: HRDC; pfam00570 398767012115 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 398767012116 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 398767012117 active site 398767012118 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 398767012119 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 398767012120 S-adenosylmethionine binding site [chemical binding]; other site 398767012121 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398767012122 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 398767012123 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398767012124 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398767012125 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398767012126 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 398767012127 GTP/Mg2+ binding site [chemical binding]; other site 398767012128 G4 box; other site 398767012129 G5 box; other site 398767012130 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398767012131 G1 box; other site 398767012132 G1 box; other site 398767012133 GTP/Mg2+ binding site [chemical binding]; other site 398767012134 Switch I region; other site 398767012135 G2 box; other site 398767012136 Switch II region; other site 398767012137 G3 box; other site 398767012138 G4 box; other site 398767012139 G5 box; other site 398767012140 membrane protein insertase; Provisional; Region: PRK01318 398767012141 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 398767012142 Haemolytic domain; Region: Haemolytic; pfam01809 398767012143 Ribonuclease P; Region: Ribonuclease_P; pfam00825 398767012144 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 398767012145 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 398767012146 putative homodimer interface [polypeptide binding]; other site 398767012147 active site 398767012148 SAM binding site [chemical binding]; other site 398767012149 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 398767012150 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 398767012151 active site 398767012152 SAM binding site [chemical binding]; other site 398767012153 homodimer interface [polypeptide binding]; other site 398767012154 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 398767012155 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 398767012156 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 398767012157 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 398767012158 active site 398767012159 SAM binding site [chemical binding]; other site 398767012160 homodimer interface [polypeptide binding]; other site 398767012161 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 398767012162 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 398767012163 active site 398767012164 SAM binding site [chemical binding]; other site 398767012165 homodimer interface [polypeptide binding]; other site 398767012166 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 398767012167 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 398767012168 active site 398767012169 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 398767012170 active site 398767012171 Precorrin-8X methylmutase; Region: CbiC; pfam02570 398767012172 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 398767012173 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 398767012174 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 398767012175 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 398767012176 catalytic triad [active] 398767012177 siroheme synthase; Provisional; Region: cysG; PRK10637 398767012178 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 398767012179 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398767012180 active site 398767012181 SAM binding site [chemical binding]; other site 398767012182 homodimer interface [polypeptide binding]; other site 398767012183 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398767012184 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 398767012185 Walker A/P-loop; other site 398767012186 ATP binding site [chemical binding]; other site 398767012187 Q-loop/lid; other site 398767012188 ABC transporter signature motif; other site 398767012189 Walker B; other site 398767012190 D-loop; other site 398767012191 H-loop/switch region; other site 398767012192 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 398767012193 cobalt transport protein CbiN; Provisional; Region: PRK02898 398767012194 cobalt transport protein CbiM; Validated; Region: PRK08319 398767012195 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 398767012196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398767012197 HlyD family secretion protein; Region: HlyD_3; pfam13437 398767012198 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398767012199 Transposase; Region: HTH_Tnp_1; cl17663 398767012200 putative transposase OrfB; Reviewed; Region: PHA02517 398767012201 Integrase core domain; Region: rve; pfam00665 398767012202 Integrase core domain; Region: rve_3; pfam13683 398767012203 Transposase domain (DUF772); Region: DUF772; pfam05598 398767012204 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398767012205 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398767012206 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767012207 N-terminal plug; other site 398767012208 ligand-binding site [chemical binding]; other site 398767012209 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398767012210 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398767012211 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398767012212 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398767012213 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 398767012214 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398767012215 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 398767012216 major capsid protein; Provisional; Region: 23; PHA02541 398767012217 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 398767012218 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398767012219 Predicted transporter (DUF2162); Region: DUF2162; pfam09930 398767012220 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398767012221 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398767012222 N-terminal plug; other site 398767012223 ligand-binding site [chemical binding]; other site 398767012224 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 398767012225 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 398767012226 S-adenosylmethionine binding site [chemical binding]; other site 398767012227 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 398767012228 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 398767012229 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398767012230 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398767012231 putative dimer interface [polypeptide binding]; other site 398767012232 active site pocket [active] 398767012233 putative cataytic base [active] 398767012234 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 398767012235 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 398767012236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398767012237 homodimer interface [polypeptide binding]; other site 398767012238 catalytic residue [active] 398767012239 cobyric acid synthase; Provisional; Region: PRK00784 398767012240 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 398767012241 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 398767012242 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398767012243 catalytic triad [active] 398767012244 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; cl00257 398767012245 IHF - DNA interface [nucleotide binding]; other site 398767012246 IHF dimer interface [polypeptide binding]; other site 398767012247 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 398767012248 ParA-like protein; Provisional; Region: PHA02518 398767012249 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 398767012250 P-loop; other site 398767012251 Magnesium ion binding site [ion binding]; other site 398767012252 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 398767012253 IHF dimer interface [polypeptide binding]; other site 398767012254 IHF - DNA interface [nucleotide binding]; other site 398767012255 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 398767012256 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398767012257 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398767012258 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 398767012259 non-specific DNA binding site [nucleotide binding]; other site 398767012260 salt bridge; other site 398767012261 sequence-specific DNA binding site [nucleotide binding]; other site 398767012262 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398767012263 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398767012264 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398767012265 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398767012266 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 398767012267 non-specific DNA binding site [nucleotide binding]; other site 398767012268 salt bridge; other site 398767012269 sequence-specific DNA binding site [nucleotide binding]; other site 398767012270 HipA N-terminal domain; Region: Couple_hipA; cl11853 398767012271 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398767012272 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398767012273 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 398767012274 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 398767012275 active site 398767012276 catalytic residues [active] 398767012277 DNA binding site [nucleotide binding] 398767012278 Int/Topo IB signature motif; other site 398767012279 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 398767012280 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 398767012281 active site 398767012282 DNA binding site [nucleotide binding] 398767012283 Int/Topo IB signature motif; other site 398767012284 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 398767012285 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 398767012286 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767012287 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767012288 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398767012289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398767012290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398767012291 Protein of unknown function (DUF1516); Region: DUF1516; pfam07457 398767012292 MTH865-like family; Region: MTH865; cl01962 398767012293 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767012294 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767012295 Winged helix-turn helix; Region: HTH_29; pfam13551 398767012296 Integrase core domain; Region: rve; pfam00665 398767012297 DDE domain; Region: DDE_Tnp_IS240; pfam13610 398767012298 Integrase core domain; Region: rve_3; pfam13683 398767012299 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 398767012300 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 398767012301 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 398767012302 putative catalytic residue [active] 398767012303 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398767012304 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 398767012305 putative NAD(P) binding site [chemical binding]; other site 398767012306 active site 398767012307 Transposase; Region: HTH_Tnp_1; cl17663 398767012308 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398767012309 putative transposase OrfB; Reviewed; Region: PHA02517 398767012310 HTH-like domain; Region: HTH_21; pfam13276 398767012311 Integrase core domain; Region: rve; pfam00665 398767012312 Integrase core domain; Region: rve_3; pfam13683 398767012313 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398767012314 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 398767012315 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 398767012316 Walker A motif; other site 398767012317 ATP binding site [chemical binding]; other site 398767012318 Walker B motif; other site 398767012319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767012320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398767012321 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398767012322 Switch II region; other site 398767012323 G4 box; other site 398767012324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398767012325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398767012326 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 398767012327 dimerization interface [polypeptide binding]; other site 398767012328 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 398767012329 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 398767012330 homodimer interface [polypeptide binding]; other site 398767012331 Walker A motif; other site 398767012332 ATP binding site [chemical binding]; other site 398767012333 hydroxycobalamin binding site [chemical binding]; other site 398767012334 Walker B motif; other site 398767012335 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 398767012336 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 398767012337 TPP-binding site [chemical binding]; other site 398767012338 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 398767012339 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398767012340 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 398767012341 dimer interface [polypeptide binding]; other site 398767012342 PYR/PP interface [polypeptide binding]; other site 398767012343 TPP binding site [chemical binding]; other site 398767012344 substrate binding site [chemical binding]; other site 398767012345 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 398767012346 substrate binding site [chemical binding]; other site 398767012347 THF binding site; other site 398767012348 zinc-binding site [ion binding]; other site 398767012349 GTPase RsgA; Reviewed; Region: PRK01889 398767012350 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 398767012351 RNA binding site [nucleotide binding]; other site 398767012352 homodimer interface [polypeptide binding]; other site 398767012353 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398767012354 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398767012355 GTP/Mg2+ binding site [chemical binding]; other site 398767012356 G4 box; other site 398767012357 G5 box; other site 398767012358 G1 box; other site 398767012359 Switch I region; other site 398767012360 G2 box; other site 398767012361 G3 box; other site 398767012362 Switch II region; other site 398767012363 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398767012364 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398767012365 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398767012366 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 398767012367 ligand binding site [chemical binding]; other site 398767012368 flexible hinge region; other site 398767012369 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 398767012370 putative switch regulator; other site 398767012371 non-specific DNA interactions [nucleotide binding]; other site 398767012372 DNA binding site [nucleotide binding] 398767012373 sequence specific DNA binding site [nucleotide binding]; other site 398767012374 putative cAMP binding site [chemical binding]; other site 398767012375 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398767012376 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 398767012377 motif II; other site