-- dump date 20111121_014500 -- class Genbank::misc_feature -- table misc_feature_note -- id note 146919000001 CHC2 zinc finger; Region: zf-CHC2; cl02597 146919000002 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication...; Region: TOPRIM_primases; cd01029 146919000003 active site 146919000004 metal-binding site 146919000005 interdomain interaction site; other site 146919000006 C-terminal domain; Region: primase_Cterm; TIGR01613 146919000007 large terminase protein; Provisional; Region: 17; PHA02533 146919000008 chromosome segregation protein; Provisional; Region: PRK03918 146919000009 ParA-like protein; Provisional; Region: PHA02518 146919000010 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919000011 P-loop; other site 146919000012 Magnesium ion binding site; other site 146919000013 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 146919000014 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 146919000015 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 146919000016 catalytic residues; other site 146919000017 catalytic nucleophile; other site 146919000018 Presynaptic Site I dimer interface; other site 146919000019 Synaptic Antiparallel dimer interface; other site 146919000020 Synaptic Flat tetramer interface; other site 146919000021 Synaptic Site I dimer interface; other site 146919000022 DNA binding site 146919000023 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 146919000024 DNA-binding interface; DNA binding site 146919000025 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 146919000026 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 146919000027 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 146919000028 non-specific DNA binding site; other site 146919000029 salt bridge; other site 146919000030 sequence-specific DNA binding site; other site 146919000031 Domain of unknown function (DUF955); Region: DUF955; cl01076 146919000032 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 146919000033 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 146919000034 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919000035 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 146919000036 DHH family; Region: DHH; pfam01368 146919000037 DHHA1 domain; Region: DHHA1; pfam02272 146919000038 Predicted transcriptional regulators [Transcription]; Region: COG1510 146919000039 DEAD-like helicases superfamily; Region: DEXDc; smart00487 146919000040 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl12029 146919000041 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 146919000042 nucleotide binding region; other site 146919000043 ATP-binding site; other site 146919000044 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 146919000045 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 146919000046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919000047 Protein of unknown function DUF45; Region: DUF45; cl00636 146919000048 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 146919000049 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 146919000050 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 146919000051 ATP binding site; other site 146919000052 putative Mg++ binding site; other site 146919000053 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000054 ATP binding site; other site 146919000055 Mg2+ binding site; other site 146919000056 G-X-G motif; other site 146919000057 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 146919000058 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 146919000059 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 146919000060 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 146919000061 HsdM N-terminal domain; Region: HsdM_N; pfam12161 146919000062 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919000063 ParA-like protein; Provisional; Region: PHA02518 146919000064 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919000065 P-loop; other site 146919000066 Magnesium ion binding site; other site 146919000067 Protein of unknown function (DUF497); Region: DUF497; cl01108 146919000068 DNA polymerase IV; Validated; Region: PRK02406 146919000069 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 146919000070 active site 146919000071 DNA binding site 146919000072 Staphylococcal nuclease homologues; Region: SNc; smart00318 146919000073 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 146919000074 Catalytic site; other site 146919000075 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 146919000076 Uncharacterized conserved protein [Function unknown]; Region: COG1479 146919000077 Protein of unknown function DUF262; Region: DUF262; pfam03235 146919000078 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 146919000079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 146919000080 Transposase; Region: Transposase_12; pfam01610 146919000081 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 146919000082 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 146919000083 catalytic residues; other site 146919000084 catalytic nucleophile; other site 146919000085 Presynaptic Site I dimer interface; other site 146919000086 Synaptic Antiparallel dimer interface; other site 146919000087 Synaptic Flat tetramer interface; other site 146919000088 Synaptic Site I dimer interface; other site 146919000089 DNA binding site 146919000090 The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the...; Region: DnaQ_like_exo; cl10012 146919000091 active site 146919000092 catalytic site; other site 146919000093 substrate binding site; other site 146919000094 O-Antigen ligase; Region: Wzy_C; cl04850 146919000095 ParA-like protein; Provisional; Region: PHA02518 146919000096 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919000097 P-loop; other site 146919000098 Magnesium ion binding site; other site 146919000099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919000100 Transposase DDE domain; Region: Transposase_11; pfam01609 146919000101 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000102 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000103 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000104 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000105 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000106 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000107 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 146919000108 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 146919000109 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 146919000110 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 146919000111 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 146919000112 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 146919000113 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 146919000114 Phage integrase family; Region: Phage_integrase; pfam00589 146919000115 DNA binding site 146919000116 Int/Topo IB signature motif; other site 146919000117 active site 146919000118 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 146919000119 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919000120 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919000121 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919000122 Domain of unknown function (DUF74); Region: DUF74; cl00426 146919000123 Integrase core domain; Region: rve; cl01316 146919000124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919000126 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 146919000127 Walker A motif; other site 146919000128 ATP binding site; other site 146919000129 Walker B motif; other site 146919000130 arginine finger; other site 146919000131 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 146919000132 DnaA box-binding interface; other site 146919000133 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 146919000134 DNA polymerase III subunit beta; Validated; Region: PRK05643 146919000135 putative DNA binding surface; other site 146919000136 dimer interface; other site 146919000137 beta-clamp/clamp loader binding surface; other site 146919000138 beta-clamp/translesion DNA polymerase binding surface; other site 146919000139 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 146919000140 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919000141 DNA binding residues 146919000142 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 146919000143 Cu(I) binding site; other site 146919000144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000145 short chain dehydrogenase; Provisional; Region: PRK06197 146919000146 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 146919000147 substrate binding site; other site 146919000148 hexamer interface; other site 146919000149 metal-binding site 146919000150 Uncharacterized BCR, COG1937; Region: DUF156; cl00846 146919000151 Preprotein translocase subunit; Region: YajC; cl00806 146919000152 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 146919000153 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 146919000154 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 146919000155 dimerization interface; other site 146919000156 active site 146919000157 Competence protein; Region: Competence; cl00471 146919000158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919000159 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 146919000160 putative RNA binding site; other site 146919000161 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 146919000162 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 146919000163 active site 146919000164 metal-binding site 146919000165 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 146919000166 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 146919000167 G1 box; other site 146919000168 GTP/Mg2+ binding site; other site 146919000169 Switch I region; other site 146919000170 G2 box; other site 146919000171 Switch II region; other site 146919000172 G3 box; other site 146919000173 G4 box; other site 146919000174 G5 box; other site 146919000175 GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but...; Region: TGS; cl03735 146919000176 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 146919000177 Predicted permease; Region: FtsX; cl11418 146919000178 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 146919000179 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 146919000180 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 146919000181 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 146919000182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000183 Walker A motif; other site 146919000184 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 146919000185 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 146919000186 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 146919000187 ATP binding site; other site 146919000188 Walker B motif; other site 146919000189 DNA binding loops 146919000190 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 146919000191 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 146919000192 Flavoprotein; Region: Flavoprotein; cl08021 146919000193 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 146919000194 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 146919000195 catalytic site; other site 146919000196 G-X2-G-X-G-K; other site 146919000197 hypothetical protein; Provisional; Region: PRK11820 146919000198 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 146919000199 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 146919000200 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 146919000201 hinge region; other site 146919000202 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 146919000203 putative nucleotide binding site; other site 146919000204 uridine monophosphate binding site; other site 146919000205 homohexameric interface; other site 146919000206 elongation factor Ts; Provisional; Region: tsf; PRK09377 146919000207 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 146919000208 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 146919000209 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 146919000210 rRNA interaction site; other site 146919000211 S8 interaction site; other site 146919000212 putative laminin-1 binding site; other site 146919000213 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 146919000214 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 146919000215 23S rRNA interface; other site 146919000216 L3 interface; other site 146919000217 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 146919000218 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 146919000219 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 146919000220 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 146919000221 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 146919000222 dimer interface; other site 146919000223 active site 146919000224 CoA binding pocket; other site 146919000225 Acyl transferase domain; Region: Acyl_transf_1; cl08282 146919000226 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 146919000227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000228 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 146919000229 helicase 45; Provisional; Region: PTZ00424 146919000230 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 146919000231 ATP binding site; other site 146919000232 Mg++ binding site; other site 146919000233 motif III; other site 146919000234 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 146919000235 nucleotide binding region; other site 146919000236 ATP-binding site; other site 146919000237 DoxX; Region: DoxX; cl00976 146919000238 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 146919000239 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (...; Region: PI3Kc_like; cl00119 146919000240 catalytic loop; other site 146919000241 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 146919000242 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919000243 Sporulation related domain; Region: SPOR; cl10051 146919000244 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 146919000245 Ribonuclease P; Region: Ribonuclease_P; cl00457 146919000246 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 146919000247 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 146919000248 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 146919000249 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 146919000250 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 146919000251 G1 box; other site 146919000252 GTP/Mg2+ binding site; other site 146919000253 Switch I region; other site 146919000254 G2 box; other site 146919000255 Switch II region; other site 146919000256 G3 box; other site 146919000257 G4 box; other site 146919000258 G5 box; other site 146919000259 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 146919000260 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 146919000261 active site 146919000262 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 146919000263 active site 2 146919000264 active site 1 146919000265 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 146919000266 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 146919000267 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 146919000268 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 146919000269 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919000270 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 146919000271 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919000272 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 146919000273 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 146919000274 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 146919000275 ATP binding site; other site 146919000276 putative Mg++ binding site; other site 146919000277 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 146919000278 nucleotide binding region; other site 146919000279 ATP-binding site; other site 146919000280 TRCF domain; Region: TRCF; pfam03461 146919000281 HEPN domain; Region: HEPN; cl00824 146919000282 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 146919000283 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 146919000284 putative active site; other site 146919000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 146919000286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000287 Walker A/P-loop; other site 146919000288 ATP binding site; other site 146919000289 Q-loop/lid; other site 146919000290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000291 ABC transporter signature motif; other site 146919000292 Walker B; other site 146919000293 D-loop; other site 146919000294 H-loop/switch region; other site 146919000295 Peptidase family M48; Region: Peptidase_M48; cl12018 146919000296 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of...; Region: R_hydratase; cd03449 146919000297 dimer interaction site; other site 146919000298 substrate-binding tunnel; other site 146919000299 active site 146919000300 catalytic site; other site 146919000301 substrate binding site; other site 146919000302 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 146919000303 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 146919000304 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 146919000305 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 146919000306 Phage integrase family; Region: Phage_integrase; pfam00589 146919000307 DNA binding site 146919000308 Int/Topo IB signature motif; other site 146919000309 active site 146919000310 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 146919000311 PIN domain; Region: PIN; cl09128 146919000312 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 146919000313 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 146919000314 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000315 dimer interface; other site 146919000316 phosphorylation site 146919000317 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919000318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919000319 active site 146919000320 phosphorylation site 146919000321 intermolecular recognition site; other site 146919000322 dimerization interface; other site 146919000323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 146919000324 mercuric reductase; Validated; Region: PRK06370 146919000325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000326 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 146919000327 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 146919000328 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 146919000329 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 146919000330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000331 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 146919000332 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 146919000333 Transaldolase-like proteins from plants and bacteria. Transaldolase is found in the non-oxidative branch of the pentose phosphate pathway, that catalyze the reversible transfer of a dihydroxyacetone group from fructose-6-phosphate to erythrose-4-...; Region: Transaldolase_like; cd00955 146919000334 putative active site; other site 146919000335 catalytic residue; other site 146919000336 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 146919000337 active site 146919000338 dimer interface; other site 146919000339 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a C-...; Region: SIS_TAL_PGI; cd05798 146919000340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919000341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919000342 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 146919000343 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 146919000344 Outer membrane efflux protein; Region: OEP; pfam02321 146919000345 Outer membrane efflux protein; Region: OEP; pfam02321 146919000346 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919000347 Quinolinate phosphoribosyl transferase, N-terminal domain; Region: QRPTase_N; pfam02749 146919000348 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919000349 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919000350 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000351 dimer interface; other site 146919000352 phosphorylation site 146919000353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000354 ATP binding site; other site 146919000355 Mg2+ binding site; other site 146919000356 G-X-G motif; other site 146919000357 PAS fold; Region: PAS_4; pfam08448 146919000358 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 146919000359 putative active site; other site 146919000360 heme pocket; other site 146919000361 PAS fold; Region: PAS; pfam00989 146919000362 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 146919000363 putative active site; other site 146919000364 heme pocket; other site 146919000365 GAF domain; Region: GAF; cl00853 146919000366 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000367 dimer interface; other site 146919000368 phosphorylation site 146919000369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000370 ATP binding site; other site 146919000371 Mg2+ binding site; other site 146919000372 G-X-G motif; other site 146919000373 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 146919000374 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 146919000375 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 146919000376 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl00255 146919000377 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919000378 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000379 ATP binding site; other site 146919000380 Mg2+ binding site; other site 146919000381 G-X-G motif; other site 146919000382 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 146919000383 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 146919000384 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 146919000385 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 146919000386 GAF domain; Region: GAF; cl00853 146919000387 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 146919000388 PAS fold; Region: PAS_4; pfam08448 146919000389 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 146919000390 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 146919000391 putative active site; other site 146919000392 heme pocket; other site 146919000393 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 146919000394 putative active site; other site 146919000395 heme pocket; other site 146919000396 PAS domain S-box; Region: sensory_box; TIGR00229 146919000397 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 146919000398 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919000399 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000400 dimer interface; other site 146919000401 phosphorylation site 146919000402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000403 ATP binding site; other site 146919000404 Mg2+ binding site; other site 146919000405 G-X-G motif; other site 146919000406 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 146919000407 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919000408 LemA family; Region: LemA; cl00742 146919000409 Domain of unknown function (DUF477); Region: DUF477; cl01535 146919000410 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 146919000411 TPR motif; other site 146919000412 binding surface 146919000413 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 146919000414 putative peptidoglycan binding site; other site 146919000415 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 146919000416 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 146919000417 Peptidase family M48; Region: Peptidase_M48; cl12018 146919000418 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 146919000419 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 146919000420 Cu(I) binding site; other site 146919000421 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 146919000422 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 146919000423 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 146919000424 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919000425 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 146919000426 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 146919000427 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 146919000428 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000429 dimer interface; other site 146919000430 phosphorylation site 146919000431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000432 ATP binding site; other site 146919000433 Mg2+ binding site; other site 146919000434 G-X-G motif; other site 146919000435 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 146919000436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919000437 active site 146919000438 phosphorylation site 146919000439 intermolecular recognition site; other site 146919000440 dimerization interface; other site 146919000441 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 146919000442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 146919000443 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 146919000444 NlpC/P60 family; Region: NLPC_P60; cl11438 146919000445 Bor protein; Region: Lambda_Bor; pfam06291 146919000446 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 receptors), as well as...; Region: IPT; cl09935 146919000447 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 146919000448 Interdomain contacts; other site 146919000449 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 receptors), as well as...; Region: IPT; cl09935 146919000450 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 146919000451 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 146919000452 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 146919000453 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 146919000454 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 146919000455 dimerization interface; other site 146919000456 putative DNA binding site; other site 146919000457 putative Zn2+ binding site; other site 146919000458 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 146919000459 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 146919000460 VCBS repeat; Region: VCBS_repeat; TIGR01965 146919000461 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 146919000462 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 146919000463 active site 146919000464 PEGA domain; Region: PEGA; pfam08308 146919000465 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919000466 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...; Region: OM_channels; cl00284 146919000467 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 146919000468 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 146919000469 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 146919000470 GAF domain; Region: GAF; cl00853 146919000471 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000472 dimer interface; other site 146919000473 phosphorylation site 146919000474 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000475 ATP binding site; other site 146919000476 G-X-G motif; other site 146919000477 GumN protein; Region: GumN; cl12050 146919000478 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 146919000479 dimer interface; other site 146919000480 putative radical transfer pathway; other site 146919000481 diiron center; other site 146919000482 tyrosyl radical; other site 146919000483 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 146919000484 Class I ribonucleotide reductase; Region: RNR_I; cd01679 146919000485 active site 146919000486 dimer interface; other site 146919000487 catalytic residues; other site 146919000488 effector binding site; other site 146919000489 R2 peptide binding site; other site 146919000490 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...; Region: BFIT_BACH; cd03442 146919000491 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 146919000492 FMN reductase; Validated; Region: fre; PRK08051 146919000493 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...; Region: FNR_like; cl06868 146919000494 FAD binding pocket; other site 146919000495 conserved FAD binding motif; other site 146919000496 phosphate binding motif; other site 146919000497 beta-alpha-beta structure motif; other site 146919000498 NAD binding pocket; other site 146919000499 Predicted transcriptional regulator [Transcription]; Region: COG2345 146919000500 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 146919000501 dimerization interface; other site 146919000502 putative DNA binding site; other site 146919000503 putative Zn2+ binding site; other site 146919000504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919000505 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 146919000506 PAS fold; Region: PAS_3; pfam08447 146919000507 putative active site; other site 146919000508 heme pocket; other site 146919000509 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919000510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919000511 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919000512 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 146919000513 Ligand Binding Site; other site 146919000514 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 146919000515 Ligand Binding Site; other site 146919000516 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 146919000517 putative sensor protein; Provisional; Region: PRK09776 146919000518 GAF domain; Region: GAF; cl00853 146919000519 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 146919000520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000521 ATP binding site; other site 146919000522 Mg2+ binding site; other site 146919000523 G-X-G motif; other site 146919000524 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 146919000525 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 146919000526 PAS fold; Region: PAS_3; pfam08447 146919000527 putative active site; other site 146919000528 heme pocket; other site 146919000529 PAS fold; Region: PAS_3; pfam08447 146919000530 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 146919000531 putative active site; other site 146919000532 heme pocket; other site 146919000533 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 146919000534 putative active site; other site 146919000535 PAS fold; Region: PAS_3; pfam08447 146919000536 heme pocket; other site 146919000537 PAS domain S-box; Region: sensory_box; TIGR00229 146919000538 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 146919000539 putative active site; other site 146919000540 heme pocket; other site 146919000541 PAS domain S-box; Region: sensory_box; TIGR00229 146919000542 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 146919000543 putative active site; other site 146919000544 heme pocket; other site 146919000545 PAS fold; Region: PAS_3; pfam08447 146919000546 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919000547 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000548 dimer interface; other site 146919000549 phosphorylation site 146919000550 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000551 ATP binding site; other site 146919000552 Mg2+ binding site; other site 146919000553 G-X-G motif; other site 146919000554 GAF domain; Region: GAF; cl00853 146919000555 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 146919000556 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919000557 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 146919000558 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 146919000559 Walker A/P-loop; other site 146919000560 ATP binding site; other site 146919000561 Q-loop/lid; other site 146919000562 ABC transporter signature motif; other site 146919000563 Walker B; other site 146919000564 D-loop; other site 146919000565 H-loop/switch region; other site 146919000566 CAAX amino terminal protease family; Region: Abi; cl00558 146919000567 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 146919000568 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 146919000569 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_HprK; cl00270 146919000570 active site 146919000571 metal-binding site 146919000572 nucleotide-binding site; other site 146919000573 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 146919000574 catalytic motif; other site 146919000575 Catalytic residue; other site 146919000576 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...; Region: TlpA_like_family; cd02966 146919000577 catalytic residues; other site 146919000578 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919000579 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919000580 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919000581 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919000582 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919000583 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 146919000584 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919000585 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...; Region: OM_channels; cl00284 146919000586 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 146919000587 PAS domain S-box; Region: sensory_box; TIGR00229 146919000588 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 146919000589 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 146919000590 putative active site; other site 146919000591 heme pocket; other site 146919000592 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919000593 dimer interface; other site 146919000594 phosphorylation site 146919000595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919000596 ATP binding site; other site 146919000597 Mg2+ binding site; other site 146919000598 G-X-G motif; other site 146919000599 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 146919000600 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 146919000601 Walker A/P-loop; other site 146919000602 ATP binding site; other site 146919000603 Q-loop/lid; other site 146919000604 ABC transporter signature motif; other site 146919000605 Walker B; other site 146919000606 D-loop; other site 146919000607 H-loop/switch region; other site 146919000608 ABC-2 type transporter; Region: ABC2_membrane; cl11417 146919000609 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 146919000610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 146919000611 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 146919000612 putative transposase OrfB; Reviewed; Region: PHA02517 146919000613 Integrase core domain; Region: rve; cl01316 146919000614 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 146919000615 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-...; Region: HprK_C; cd01918 146919000616 active site 146919000617 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 146919000618 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 146919000619 active site 146919000620 dimer interface; other site 146919000621 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 146919000622 Ligand Binding Site; other site 146919000623 Molecular Tunnel; other site 146919000624 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 146919000625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919000626 Transposase DDE domain; Region: Transposase_11; pfam01609 146919000627 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 146919000628 Transposase DDE domain; Region: Transposase_11; pfam01609 146919000629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919000630 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919000631 FecR protein; Region: FecR; pfam04773 146919000632 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 146919000633 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 146919000634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919000635 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919000636 DNA binding residues 146919000637 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 146919000638 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 146919000639 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 146919000640 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 146919000641 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 146919000642 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 146919000643 PIN domain; Region: PIN; cl09128 146919000644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919000645 Probable transposase; Region: Transposase_2; pfam01385 146919000646 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919000647 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 146919000648 active site 146919000649 NTP binding site; other site 146919000650 metal binding triad; metal-binding site 146919000651 antibiotic binding site; other site 146919000652 HEPN domain; Region: HEPN; cl00824 146919000653 RES domain; Region: RES; cl02411 146919000654 RES domain; Region: RES; cl02411 146919000655 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 146919000656 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 146919000657 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 146919000658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919000659 Probable transposase; Region: Transposase_2; pfam01385 146919000660 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919000661 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 146919000662 Chain length determinant protein; Region: Wzz; cl01623 146919000663 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 146919000664 GDP-D-mannose-3',5'-epimerase; Region: PLN02695 146919000665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000666 putative glycosyl transferase; Provisional; Region: PRK10307 146919000667 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 146919000668 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 146919000669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919000670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000671 Walker A/P-loop; other site 146919000672 ATP binding site; other site 146919000673 Q-loop/lid; other site 146919000674 ABC transporter signature motif; other site 146919000675 Walker B; other site 146919000676 D-loop; other site 146919000677 H-loop/switch region; other site 146919000678 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 146919000679 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 146919000680 active site 146919000681 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 146919000682 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 146919000683 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 146919000684 active site 146919000685 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 146919000686 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919000687 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919000688 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919000689 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 146919000690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919000691 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 146919000692 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919000693 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 146919000694 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919000695 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 146919000696 putative ADP-binding pocket; other site 146919000697 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 146919000698 putative metal binding site; other site 146919000699 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 146919000700 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 146919000701 active site 146919000702 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 146919000703 dimer interface; other site 146919000704 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 146919000705 Ligand Binding Site; other site 146919000706 Molecular Tunnel; other site 146919000707 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 146919000708 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919000709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000710 Walker A/P-loop; other site 146919000711 ATP binding site; other site 146919000712 Q-loop/lid; other site 146919000713 ABC transporter signature motif; other site 146919000714 Walker B; other site 146919000715 D-loop; other site 146919000716 H-loop/switch region; other site 146919000717 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 146919000718 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 146919000719 active site 146919000720 dimer interface; other site 146919000721 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 146919000722 Ligand Binding Site; other site 146919000723 Molecular Tunnel; other site 146919000724 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_HprK; cl00270 146919000725 active site 146919000726 metal-binding site 146919000727 nucleotide-binding site; other site 146919000728 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 146919000729 Pectinesterase; Region: Pectinesterase; cl01911 146919000730 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 146919000731 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 146919000732 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919000733 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 146919000734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 146919000735 ligand binding site; other site 146919000736 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 146919000737 putative active site; other site 146919000738 potential frameshift: common BLAST hit: gi|83815541|ref|YP_444988.1| ISSru4, transposase 146919000739 PIN domain; Region: PIN; cl09128 146919000740 Helix-turn-helix domain; Region: HTH_14; pfam12323 146919000741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919000742 Probable transposase; Region: Transposase_2; pfam01385 146919000743 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919000744 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 146919000745 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 146919000746 ring oligomerisation interface; other site 146919000747 ATP/Mg binding site; other site 146919000748 stacking interactions; other site 146919000749 hinge regions; other site 146919000750 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; cd00016 146919000751 dimer interface; other site 146919000752 Alkaline phosphatase homologues; Region: alkPPc; smart00098 146919000753 active site 146919000754 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; cl12039 146919000755 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 146919000756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919000757 active site 146919000758 phosphorylation site 146919000759 intermolecular recognition site; other site 146919000760 dimerization interface; other site 146919000761 LytTr DNA-binding domain; Region: LytTR; cl04498 146919000762 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 146919000763 Histidine kinase; Region: His_kinase; pfam06580 146919000764 IS1 transposase; Region: Transposase_27; cl00721 146919000765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 146919000766 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 146919000767 DNA-binding interface; DNA binding site 146919000768 Beta-lactamase; Region: Beta-lactamase; cl01009 146919000769 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919000770 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919000771 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919000772 active site 146919000773 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 146919000774 TPR motif; other site 146919000775 binding surface 146919000776 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 146919000777 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 146919000778 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 146919000779 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 146919000780 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 146919000781 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 146919000782 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 146919000783 Ferredoxin [Energy production and conversion]; Region: COG1146 146919000784 4Fe-4S binding domain; Region: Fer4; pfam00037 146919000785 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 146919000786 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 146919000787 dimerization interface; other site 146919000788 putative DNA binding site; other site 146919000789 Predicted transcriptional regulator [Transcription]; Region: COG2345 146919000790 putative Zn2+ binding site; other site 146919000791 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 146919000792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919000793 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 146919000794 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919000795 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...; Region: OM_channels; cl00284 146919000796 SusD family; Region: SusD; pfam07980 146919000797 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...; Region: TlpA_like_family; cd02966 146919000798 catalytic residues; other site 146919000799 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...; Region: OM_channels; cl00284 146919000800 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...; Region: OM_channels; cl00284 146919000801 SusD family; Region: SusD; pfam07980 146919000802 RES domain; Region: RES; cl02411 146919000803 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 146919000804 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919000805 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 146919000806 Mg++ binding site; other site 146919000807 putative catalytic motif; other site 146919000808 PEGA domain; Region: PEGA; pfam08308 146919000809 PEGA domain; Region: PEGA; pfam08308 146919000810 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 146919000811 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-...; Region: RecG_wedge_OBF; cd04488 146919000812 ssDNA binding site; other site 146919000813 generic binding surface II; other site 146919000814 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 146919000815 ATP binding site; other site 146919000816 putative Mg++ binding site; other site 146919000817 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 146919000818 nucleotide binding region; other site 146919000819 ATP-binding site; other site 146919000820 Predicted membrane protein [Function unknown]; Region: COG2119 146919000821 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 146919000822 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 146919000823 active site 146919000824 metal-binding site 146919000825 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 146919000826 putative active site; other site 146919000827 putative metal binding site; other site 146919000828 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 146919000829 S-adenosylmethionine binding site; other site 146919000830 transketolase; Reviewed; Region: PRK05899 146919000831 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 146919000832 TPP-binding site; other site 146919000833 dimer interface; other site 146919000834 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 146919000835 PYR/PP interface; other site 146919000836 dimer interface; other site 146919000837 TPP binding site; other site 146919000838 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 146919000839 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-...; Region: Transaldolase_FSA; cd00956 146919000840 active site 146919000841 intersubunit interactions; other site 146919000842 catalytic residue; other site 146919000843 Sodium:solute symporter family; Region: SSF; cl00456 146919000844 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 146919000845 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 146919000846 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 146919000847 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 146919000848 active site 146919000849 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 146919000850 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919000851 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919000852 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 146919000853 TM2 domain; Region: TM2; cl00984 146919000854 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 146919000855 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 146919000856 N-acetyl-D-glucosamine binding site; other site 146919000857 catalytic residue; other site 146919000858 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 146919000859 putative peptidoglycan binding site; other site 146919000860 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 146919000861 putative peptidoglycan binding site; other site 146919000862 Cation efflux family; Region: Cation_efflux; cl00316 146919000863 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 146919000864 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 146919000865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919000866 Walker A/P-loop; other site 146919000867 ATP binding site; other site 146919000868 Q-loop/lid; other site 146919000869 ABC transporter signature motif; other site 146919000870 Walker B; other site 146919000871 D-loop; other site 146919000872 H-loop/switch region; other site 146919000873 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919000874 C-terminal peptidase (prc); Region: prc; TIGR00225 146919000875 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919000876 Active site serine; active site 146919000877 Peptidase family M48; Region: Peptidase_M48; cl12018 146919000878 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919000879 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919000880 Active site serine; active site 146919000881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919000882 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 146919000883 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 146919000884 ATP binding site; other site 146919000885 putative Mg++ binding site; other site 146919000886 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 146919000887 nucleotide binding region; other site 146919000888 ATP-binding site; other site 146919000889 RQC domain; Region: RQC; pfam09382 146919000890 HRDC domain; Region: HRDC; cl02578 146919000891 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 146919000892 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 146919000893 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 146919000894 dimer interface; other site 146919000895 active site 146919000896 effector binding site; other site 146919000897 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 146919000898 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 146919000899 AAK_AK-DapDC: Amino Acid Kinase Superfamily (AAK), AK-DapDC; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the bifunctional enzyme AK - DAP decarboxylase (DapDC) found in some bacteria. Aspartokinase is the first enzyme in the...; Region: AAK_AK-DapDC; cd04259 146919000900 putative catalytic residues; other site 146919000901 putative nucleotide binding site; other site 146919000902 putative aspartate binding site; other site 146919000903 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 146919000904 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC); Region: ACT_AKiii-DAPDC_2; cd04920 146919000905 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase; Region: PLPDE_III_Bif_AspK_DapDC; cd06840 146919000906 active site 146919000907 pyridoxal 5'-phosphate (PLP) binding site; other site 146919000908 substrate binding site; other site 146919000909 catalytic residues; other site 146919000910 dimer interface; other site 146919000911 Protein of unknown function DUF124; Region: DUF124; cl00884 146919000912 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 146919000913 Catalytic site; other site 146919000914 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 146919000915 umuC subunit of DNA Polymerase V; Region: Pol_V_umuC; cd01700 146919000916 active site 146919000917 DNA binding site 146919000918 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 146919000919 Domain of unknown function (DUF814); Region: DUF814; pfam05670 146919000920 Plant Basic Secretory Protein; Region: BSP; pfam04450 146919000921 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 146919000922 translocation protein TolB; Provisional; Region: tolB; PRK04922 146919000923 Surface antigen; Region: Bac_surface_Ag; cl03097 146919000924 nitrous-oxide reductase; Validated; Region: PRK02888 146919000925 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 146919000926 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 146919000927 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 146919000928 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 146919000929 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 146919000930 Walker A/P-loop; other site 146919000931 ATP binding site; other site 146919000932 Q-loop/lid; other site 146919000933 ABC transporter signature motif; other site 146919000934 Walker B; other site 146919000935 D-loop; other site 146919000936 H-loop/switch region; other site 146919000937 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 146919000938 ligand binding site; other site 146919000939 flexible hinge region; other site 146919000940 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-...; Region: SirA_YedF_YeeD; cl00436 146919000941 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 146919000942 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 146919000943 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 146919000944 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 146919000945 Putative D-pathway homolog; other site 146919000946 Low-spin heme binding site; other site 146919000947 Subunit I/II interface; other site 146919000948 Putative Q-pathway; other site 146919000949 Putative alternate electron transfer pathway; other site 146919000950 Putative water exit pathway; other site 146919000951 Binuclear center (active site); other site 146919000952 Putative K-pathway homolog; other site 146919000953 Putative proton exit pathway; other site 146919000954 Subunit I/IIa interface; other site 146919000955 Electron transfer pathway; other site 146919000956 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 146919000957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 146919000958 DNA binding site 146919000959 UTRA domain; Region: UTRA; cl06649 146919000960 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 146919000961 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 146919000962 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 146919000963 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 146919000964 Low-spin heme binding site; other site 146919000965 D-pathway; other site 146919000966 Putative water exit pathway; other site 146919000967 Binuclear center (active site); other site 146919000968 K-pathway; other site 146919000969 Putative proton exit pathway; other site 146919000970 Cytochrome c; Region: Cytochrom_C; cl11414 146919000971 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 146919000972 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 146919000973 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919000974 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919000975 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 146919000976 active site residue 146919000977 Sulfite exporter TauE/SafE; Region: TauE; cl00498 146919000978 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 146919000979 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 146919000980 Ferritin-like domain; Region: Ferritin; pfam00210 146919000981 dimerization interface; other site 146919000982 DPS ferroxidase diiron center; other site 146919000983 ion pore; other site 146919000984 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919000985 Protein export membrane protein; Region: SecD_SecF; cl14618 146919000986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 146919000987 DsrE/DsrF-like family; Region: DrsE; cl00672 146919000988 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl00527 146919000989 PAS domain S-box; Region: sensory_box; TIGR00229 146919000990 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 146919000991 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 146919000992 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 146919000993 putative active site; other site 146919000994 heme pocket; other site 146919000995 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 146919000996 PAS fold; Region: PAS_3; pfam08447 146919000997 putative active site; other site 146919000998 heme pocket; other site 146919000999 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919001000 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001001 dimer interface; other site 146919001002 phosphorylation site 146919001003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001004 ATP binding site; other site 146919001005 Mg2+ binding site; other site 146919001006 G-X-G motif; other site 146919001007 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 146919001008 active site 146919001009 metal-binding site 146919001010 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 146919001011 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 146919001012 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 146919001013 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919001014 CheB methylesterase; Region: CheB_methylest; pfam01339 146919001015 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 146919001016 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 146919001017 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919001018 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 146919001019 PAS fold; Region: PAS_4; pfam08448 146919001020 PAS fold; Region: PAS; pfam00989 146919001021 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 146919001022 putative active site; other site 146919001023 heme pocket; other site 146919001024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 146919001025 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919001026 Bacitracin resistance protein BacA; Region: BacA; cl00858 146919001027 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 146919001028 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 146919001029 G1 box; other site 146919001030 GTP/Mg2+ binding site; other site 146919001031 Switch I region; other site 146919001032 G2 box; other site 146919001033 Switch II region; other site 146919001034 G3 box; other site 146919001035 G4 box; other site 146919001036 G5 box; other site 146919001037 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 146919001038 G1 box; other site 146919001039 GTP/Mg2+ binding site; other site 146919001040 Switch I region; other site 146919001041 G2 box; other site 146919001042 G3 box; other site 146919001043 Switch II region; other site 146919001044 G4 box; other site 146919001045 G5 box; other site 146919001046 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 146919001047 Protein of unknown function (DUF330); Region: DUF330; cl01135 146919001048 mce related protein; Region: MCE; pfam02470 146919001049 paraquat-inducible protein B; Provisional; Region: PRK10807 146919001050 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 146919001051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919001052 Walker A/P-loop; other site 146919001053 ATP binding site; other site 146919001054 Q-loop/lid; other site 146919001055 ABC transporter signature motif; other site 146919001056 Walker B; other site 146919001057 D-loop; other site 146919001058 H-loop/switch region; other site 146919001059 Domain of unknown function DUF140; Region: DUF140; cl00510 146919001060 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 146919001061 ligand binding site; other site 146919001062 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 146919001063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001064 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 146919001065 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: NAPRTase_A; cd01570 146919001066 active site 146919001067 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 146919001068 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 146919001069 active site 146919001070 Predicted transcriptional regulators [Transcription]; Region: COG1510 146919001071 DNA helicase, putative; Region: TIGR00376 146919001072 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919001073 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 146919001074 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...; Region: OM_channels; cl00284 146919001075 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...; Region: OM_channels; cl00284 146919001076 GAF domain; Region: GAF; cl00853 146919001077 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 146919001078 PAS fold; Region: PAS_4; pfam08448 146919001079 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 146919001080 putative active site; other site 146919001081 heme pocket; other site 146919001082 PAS fold; Region: PAS_4; pfam08448 146919001083 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919001084 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001085 dimer interface; other site 146919001086 phosphorylation site 146919001087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001088 ATP binding site; other site 146919001089 Mg2+ binding site; other site 146919001090 G-X-G motif; other site 146919001091 putative symporter YidK; Provisional; Region: PRK10484 146919001092 Sodium:solute symporter family; Region: SSF; cl00456 146919001093 Transcriptional regulators [Transcription]; Region: PurR; COG1609 146919001094 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 146919001095 DNA binding site 146919001096 domain linker motif; other site 146919001097 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs; Region: PBP1_LacI_like_12; cd06297 146919001098 putative dimerization interface; other site 146919001099 putative ligand binding site; other site 146919001100 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...; Region: OM_channels; cl00284 146919001101 SusD family; Region: SusD; pfam07980 146919001102 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 146919001103 Major Facilitator Superfamily; Region: MFS_1; pfam07690 146919001104 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 146919001105 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919001106 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...; Region: OM_channels; cl00284 146919001107 Putative carbohydrate binding domain; Region: CHB_HEX; pfam03173 146919001108 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_Sm-chitobiase-like; cd06569 146919001109 active site 146919001110 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919001111 Transcriptional regulators [Transcription]; Region: PurR; COG1609 146919001112 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 146919001113 DNA binding site 146919001114 domain linker motif; other site 146919001115 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 146919001116 ligand binding site; other site 146919001117 dimerization interface; other site 146919001118 Family 9 carbohydrate-binding module (CBM), plays a role in microbial degradation of cellulose and hemicellulose found in plants; previously called cellulose-binding domain; the binding sites of the CBMs for which structures have been determined are...; Region: CBM9; cl00024 146919001119 Ca2+ binding sites; other site 146919001120 carbohydrate binding site; other site 146919001121 Sodium:solute symporter family; Region: SSF; cl00456 146919001122 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 146919001123 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 146919001124 Beta-lactamase; Region: Beta-lactamase; cl01009 146919001125 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 146919001126 ROK family; Region: ROK; cl09121 146919001127 Sodium:solute symporter family; Region: SSF; cl00456 146919001128 FOG: CBS domain [General function prediction only]; Region: COG0517 146919001129 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 146919001130 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 146919001131 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 146919001132 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 146919001133 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), 8-amino-7-...; Region: KBL_like; cd06454 146919001134 substrate-cofactor binding pocket; other site 146919001135 pyridoxal 5'-phosphate binding site; other site 146919001136 catalytic residue; other site 146919001137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001139 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 146919001140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919001141 glutamine synthetase, type I; Region: GlnA; TIGR00653 146919001142 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 146919001143 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 146919001144 adenylosuccinate lyase; Provisional; Region: PRK07492 146919001145 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 146919001146 tetramer interface; other site 146919001147 active site 146919001148 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 146919001149 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 146919001150 Peroxin-3; Region: Peroxin-3; pfam04882 146919001151 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics...; Region: rDP_like; cd01301 146919001152 active site 146919001153 dimer interface; other site 146919001154 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 146919001155 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 146919001156 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 146919001157 N-terminal plug; other site 146919001158 ligand-binding site; other site 146919001159 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 146919001160 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 146919001161 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 146919001162 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 146919001163 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 146919001164 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 146919001165 putative dimer interface; other site 146919001166 [2Fe-2S] cluster binding site; other site 146919001167 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 146919001168 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 146919001169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919001170 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 146919001171 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 146919001172 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 146919001173 catalytic loop; other site 146919001174 iron binding site; other site 146919001175 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 146919001176 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 146919001177 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 146919001178 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 146919001179 Protein of unknown function (DUF421); Region: DUF421; cl00990 146919001180 NAD synthetase; Provisional; Region: PRK13981 146919001181 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 146919001182 multimer interface; other site 146919001183 active site 146919001184 catalytic triad; other site 146919001185 protein interface 1; other site 146919001186 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to...; Region: NAD_synthase; cd00553 146919001187 homodimer interface; other site 146919001188 NAD binding pocket; other site 146919001189 ATP binding pocket; other site 146919001190 Mg binding site; other site 146919001191 active-site loop 146919001192 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 146919001193 GTP-binding protein LepA; Provisional; Region: PRK05433 146919001194 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 146919001195 G1 box; other site 146919001196 putative GEF interaction site; other site 146919001197 GTP/Mg2+ binding site; other site 146919001198 Switch I region; other site 146919001199 G2 box; other site 146919001200 G3 box; other site 146919001201 Switch II region; other site 146919001202 G4 box; other site 146919001203 G5 box; other site 146919001204 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-...; Region: lepA_II; cd03699 146919001205 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 146919001206 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 146919001207 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 146919001208 Catalytic site; other site 146919001209 signal peptidase I; Provisional; Region: PRK10861 146919001210 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 146919001211 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 146919001212 Ion channel; Region: Ion_trans_2; cl11596 146919001213 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919001214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001215 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919001216 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 146919001217 nucleophile elbow; other site 146919001218 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 146919001219 folate binding site; other site 146919001220 NADP+ binding site; other site 146919001221 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 146919001222 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 146919001223 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 146919001224 Histidine kinase; Region: His_kinase; pfam06580 146919001225 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 146919001226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919001227 active site 146919001228 phosphorylation site 146919001229 intermolecular recognition site; other site 146919001230 dimerization interface; other site 146919001231 LytTr DNA-binding domain; Region: LytTR; cl04498 146919001232 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 146919001233 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919001234 Surface antigen; Region: Bac_surface_Ag; cl03097 146919001235 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 146919001236 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 146919001237 dimerization interface; other site 146919001238 active site 146919001239 Protein of unknown function (DUF525); Region: DUF525; cl01119 146919001240 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 146919001241 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 146919001242 Active Sites; active site 146919001243 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 146919001244 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 146919001245 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 146919001246 dimer interface; other site 146919001247 PYR/PP interface; other site 146919001248 TPP binding site; other site 146919001249 substrate binding site; other site 146919001250 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 146919001251 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 146919001252 TPP-binding site; other site 146919001253 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 146919001254 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 146919001255 conserved cys residue; other site 146919001256 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 146919001257 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 146919001258 Walker A/P-loop; other site 146919001259 ATP binding site; other site 146919001260 Q-loop/lid; other site 146919001261 ABC transporter signature motif; other site 146919001262 Walker B; other site 146919001263 D-loop; other site 146919001264 H-loop/switch region; other site 146919001265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919001266 dimer interface; other site 146919001267 conserved gate region; other site 146919001268 putative PBP binding loops; other site 146919001269 ABC-ATPase subunit interface; other site 146919001270 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919001271 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 146919001272 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 146919001273 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919001274 Domain of unknown function (DUF389); Region: DUF389; cl00781 146919001275 Domain of unknown function (DUF389); Region: DUF389; cl00781 146919001276 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 146919001277 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 146919001278 putative substrate translocation pore; other site 146919001279 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...; Region: OM_channels; cl00284 146919001280 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...; Region: OM_channels; cl00284 146919001281 conserved hypothetical protein; Region: MJ1255; TIGR00661 146919001282 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 146919001283 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919001284 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 146919001285 PhoU domain; Region: PhoU; pfam01895 146919001286 PhoU domain; Region: PhoU; pfam01895 146919001287 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_2; cd03814 146919001288 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase; Region: PLN02871 146919001289 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 146919001290 active site 146919001291 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 146919001292 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 146919001293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919001294 ABC transporter signature motif; other site 146919001295 Walker B; other site 146919001296 D-loop; other site 146919001297 H-loop/switch region; other site 146919001298 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 146919001299 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 146919001300 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 146919001301 Peptidase family M23; Region: Peptidase_M23; pfam01551 146919001302 Flavin Reductases; Region: FlaRed; cl00801 146919001303 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919001304 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 146919001305 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 146919001306 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 146919001307 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 146919001308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919001309 HIGH motif; other site 146919001310 active site 146919001311 nucleotide binding site; other site 146919001312 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 146919001313 active site 146919001314 KMSKS motif; other site 146919001315 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 146919001316 tRNA binding surface; other site 146919001317 anticodon binding site; other site 146919001318 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 146919001319 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 146919001320 RuvA N terminal domain; Region: RuvA_N; pfam01330 146919001321 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 146919001322 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919001323 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 146919001324 Protein of unknown function DUF72; Region: DUF72; cl00777 146919001325 Predicted ATPase [General function prediction only]; Region: COG1485 146919001326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919001327 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 146919001328 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 146919001329 G1 box; other site 146919001330 putative GEF interaction site; other site 146919001331 GTP/Mg2+ binding site; other site 146919001332 Switch I region; other site 146919001333 G2 box; other site 146919001334 G3 box; other site 146919001335 Switch II region; other site 146919001336 G4 box; other site 146919001337 G5 box; other site 146919001338 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 146919001339 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 146919001340 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 146919001341 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 146919001342 HSP70 interaction site; other site 146919001343 DnaJ C terminal region; Region: DnaJ_C; pfam01556 146919001344 DnaJ C terminal region; Region: DnaJ_C; pfam01556 146919001345 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 146919001346 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 146919001347 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919001348 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 146919001349 Protein of unknown function, DUF583; Region: DUF583; cl09137 146919001350 GAF domain; Region: GAF; cl00853 146919001351 putative sensor protein; Provisional; Region: PRK09776 146919001352 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 146919001353 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 146919001354 putative active site; other site 146919001355 heme pocket; other site 146919001356 putative sensor protein; Provisional; Region: PRK09776 146919001357 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 146919001358 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 146919001359 PAS fold; Region: PAS_3; pfam08447 146919001360 putative active site; other site 146919001361 heme pocket; other site 146919001362 PAS domain S-box; Region: sensory_box; TIGR00229 146919001363 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 146919001364 PAS domain S-box; Region: sensory_box; TIGR00229 146919001365 PAS domain S-box; Region: sensory_box; TIGR00229 146919001366 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 146919001367 putative active site; other site 146919001368 heme pocket; other site 146919001369 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 146919001370 PAS fold; Region: PAS_3; pfam08447 146919001371 putative active site; other site 146919001372 heme pocket; other site 146919001373 bacterio-opsin activator; Provisional; Region: PRK13558 146919001374 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 146919001375 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001376 dimer interface; other site 146919001377 phosphorylation site 146919001378 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001379 ATP binding site; other site 146919001380 Mg2+ binding site; other site 146919001381 G-X-G motif; other site 146919001382 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 146919001383 PAS fold; Region: PAS_4; pfam08448 146919001384 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 146919001385 PAS fold; Region: PAS_4; pfam08448 146919001386 PAS domain S-box; Region: sensory_box; TIGR00229 146919001387 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 146919001388 putative active site; other site 146919001389 heme pocket; other site 146919001390 sensory histidine kinase AtoS; Provisional; Region: PRK11360 146919001391 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001392 dimer interface; other site 146919001393 phosphorylation site 146919001394 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001395 ATP binding site; other site 146919001396 Mg2+ binding site; other site 146919001397 G-X-G motif; other site 146919001398 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919001399 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 146919001400 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919001401 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 146919001402 Outer membrane efflux protein; Region: OEP; pfam02321 146919001403 Outer membrane efflux protein; Region: OEP; pfam02321 146919001404 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 146919001405 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919001406 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 146919001407 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 146919001408 active site 146919001409 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 146919001410 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 146919001411 homodimer interface; other site 146919001412 substrate-cofactor binding pocket; other site 146919001413 pyridoxal 5'-phosphate binding site; other site 146919001414 catalytic residue; other site 146919001415 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 146919001416 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919001417 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 146919001418 nucleotide binding site; other site 146919001419 substrate binding site; other site 146919001420 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 146919001421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001422 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 146919001423 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 146919001424 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 146919001425 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001426 dimer interface; other site 146919001427 phosphorylation site 146919001428 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001429 ATP binding site; other site 146919001430 Mg2+ binding site; other site 146919001431 G-X-G motif; other site 146919001432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919001433 active site 146919001434 phosphorylation site 146919001435 intermolecular recognition site; other site 146919001436 dimerization interface; other site 146919001437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919001438 active site 146919001439 phosphorylation site 146919001440 intermolecular recognition site; other site 146919001441 dimerization interface; other site 146919001442 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 146919001443 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl00255 146919001444 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 146919001445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001446 domain; Region: Succ_DH_flav_C; pfam02910 146919001447 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 146919001448 putative Iron-sulfur protein interface; other site 146919001449 putative proximal heme binding site; other site 146919001450 putative SdhC-like subunit interface; other site 146919001451 putative distal heme binding site; other site 146919001452 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase C (SdhC)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhC_like; cd03501 146919001453 putative Iron-sulfur protein interface; other site 146919001454 putative proximal heme binding site; other site 146919001455 putative SdhD-like interface; other site 146919001456 putative distal heme binding site; other site 146919001457 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes...; Region: BSuCS-II_like; cd06110 146919001458 dimer interface; other site 146919001459 Citrate synthase; Region: Citrate_synt; pfam00285 146919001460 active site 146919001461 citrylCoA binding site; other site 146919001462 oxalacetate/citrate binding site; other site 146919001463 coenzyme A binding site; other site 146919001464 catalytic triad; other site 146919001465 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 146919001466 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 146919001467 homodimer interface; other site 146919001468 oligonucleotide binding site; other site 146919001469 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919001470 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 146919001471 active site 146919001472 trimer interface; other site 146919001473 dimer interface; other site 146919001474 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 146919001475 integral membrane protein MviN; Region: mviN; TIGR01695 146919001476 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 146919001477 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 146919001478 4Fe-4S binding domain; Region: Fer4; pfam00037 146919001479 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 146919001480 DNA polymerase III, delta subunit; Region: holA; TIGR01128 146919001481 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 146919001482 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 146919001483 Low molecular weight phosphatase family; Region: LMWPc; cl00105 146919001484 active site 146919001485 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 146919001486 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 146919001487 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 146919001488 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 146919001489 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 146919001490 NAD(P) binding site; other site 146919001491 hypothetical protein; Provisional; Region: PRK10565 146919001492 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 146919001493 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 146919001494 putative substrate binding site; other site 146919001495 putative ATP binding site; other site 146919001496 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919001497 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 146919001498 tetramer (dimer of dimers) interface; other site 146919001499 active site 146919001500 dimer interface; other site 146919001501 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 146919001502 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 146919001503 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 146919001504 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919001505 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 146919001506 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919001507 P-loop; other site 146919001508 Magnesium ion binding site; other site 146919001509 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919001510 Magnesium ion binding site; other site 146919001511 ParB-like partition proteins; Region: parB_part; TIGR00180 146919001512 ParB-like nuclease domain; Region: ParBc; cl02129 146919001513 KorB domain; Region: KorB; pfam08535 146919001514 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 146919001515 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919001516 pyridoxal 5'-phosphate binding pocket; other site 146919001517 catalytic residue; other site 146919001518 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 146919001519 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 146919001520 active site 146919001521 motif I; other site 146919001522 motif II; other site 146919001523 Rhomboid family; Region: Rhomboid; cl11446 146919001524 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 146919001525 putative active site; other site 146919001526 catalytic triad; other site 146919001527 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 146919001528 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 146919001529 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 146919001530 active site 146919001531 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 146919001532 dimer interface; other site 146919001533 ssDNA binding site; other site 146919001534 tetramer (dimer of dimers) interface; other site 146919001535 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 146919001536 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919001537 Protein of unknown function (DUF328); Region: DUF328; cl01143 146919001538 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 146919001539 ATP-binding site; other site 146919001540 Sugar specificity; other site 146919001541 Pyrimidine base specificity; other site 146919001542 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 146919001543 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 146919001544 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 146919001545 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 146919001546 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 146919001547 active site 146919001548 dimerization interface; other site 146919001549 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 146919001550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001551 phosphoglycolate phosphatase; Provisional; Region: PRK01158 146919001552 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919001553 Bacterial SH3 domain; Region: SH3_3; cl02551 146919001554 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 146919001555 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919001556 nucleoside transporter; Region: nupC; TIGR00804 146919001557 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 146919001558 Nucleoside recognition; Region: Gate; cl00486 146919001559 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 146919001560 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 146919001561 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 146919001562 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919001563 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 146919001564 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919001565 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...; Region: HIT_like; cl00228 146919001566 nucleotide binding site/active site; other site 146919001567 HIT family signature motif; other site 146919001568 catalytic residue; other site 146919001569 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 146919001570 S-adenosylmethionine binding site; other site 146919001571 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919001572 Helix-turn-helix domain; Region: HTH_14; pfam12323 146919001573 Probable transposase; Region: Transposase_2; pfam01385 146919001574 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919001575 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-...; Region: D-AAT_like; cd01558 146919001576 homodimer interface; other site 146919001577 substrate-cofactor binding pocket; other site 146919001578 pyridoxal 5'-phosphate binding site; other site 146919001579 Aminotransferase class IV; Region: Aminotran_4; pfam01063 146919001580 catalytic residue; other site 146919001581 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 146919001582 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 146919001583 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 146919001584 Protein of unknown function (DUF429); Region: DUF429; cl12046 146919001585 Proline dehydrogenase; Region: Pro_dh; cl03282 146919001586 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 146919001587 putative ADP-ribose binding site; other site 146919001588 putative active site; other site 146919001589 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 146919001590 S-adenosylmethionine binding site; other site 146919001591 FOG: CBS domain [General function prediction only]; Region: COG0517 146919001592 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair_24; cd04637 146919001593 CTP synthetase; Validated; Region: pyrG; PRK05380 146919001594 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 146919001595 Catalytic site; other site 146919001596 active site 146919001597 UTP binding site; other site 146919001598 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 146919001599 active site 146919001600 putative oxyanion hole; other site 146919001601 catalytic triad; other site 146919001602 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919001603 LexA repressor; Validated; Region: PRK00215 146919001604 cell division protein MraZ; Reviewed; Region: PRK00326 146919001605 MraZ protein; Region: MraZ; pfam02381 146919001606 MraZ protein; Region: MraZ; pfam02381 146919001607 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919001608 Septum formation initiator; Region: DivIC; cl11433 146919001609 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 146919001610 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 146919001611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 146919001612 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 146919001613 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 146919001614 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 146919001615 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919001616 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 146919001617 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 146919001618 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 146919001619 Mg++ binding site; other site 146919001620 putative catalytic motif; other site 146919001621 putative substrate binding site; other site 146919001622 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 146919001623 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919001624 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 146919001625 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 146919001626 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 146919001627 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 146919001628 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919001629 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 146919001630 Cell division protein FtsQ; Region: FtsQ; pfam03799 146919001631 cell division protein FtsA; Region: ftsA; TIGR01174 146919001632 Cell division protein FtsA; Region: FtsA; cl11496 146919001633 Cell division protein FtsA; Region: FtsA; cl11496 146919001634 cell division protein FtsZ; Validated; Region: PRK09330 146919001635 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 146919001636 nucleotide binding site; other site 146919001637 SulA interaction site; other site 146919001638 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 146919001639 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 146919001640 active site 146919001641 catalytic triad; other site 146919001642 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 146919001643 Flagellar hook capping protein; Region: FlgD; cl04347 146919001644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919001645 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 146919001646 putative ADP-binding pocket; other site 146919001647 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 146919001648 putative ADP-binding pocket; other site 146919001649 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 146919001650 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 146919001651 active site 146919001652 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 146919001653 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 146919001654 Substrate binding site; other site 146919001655 Cupin domain; Region: Cupin_2; cl09118 146919001656 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919001657 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 146919001658 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...; Region: GT1_TPS; cd03788 146919001659 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 146919001660 active site 146919001661 homotetramer interface; other site 146919001662 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 146919001663 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 146919001664 active site 146919001665 catalytic site; other site 146919001666 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 146919001667 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919001668 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 146919001669 alanine racemase; Reviewed; Region: alr; PRK00053 146919001670 active site 146919001671 pyridoxal 5'-phosphate (PLP) binding site; other site 146919001672 dimer interface; other site 146919001673 substrate binding site; other site 146919001674 catalytic residues; other site 146919001675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 146919001676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919001677 active site 146919001678 phosphorylation site 146919001679 intermolecular recognition site; other site 146919001680 dimerization interface; other site 146919001681 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919001682 DNA binding site 146919001683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 146919001684 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919001685 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001686 dimer interface; other site 146919001687 phosphorylation site 146919001688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001689 ATP binding site; other site 146919001690 Mg2+ binding site; other site 146919001691 G-X-G motif; other site 146919001692 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 146919001693 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 146919001694 tetramer interface; other site 146919001695 TPP-binding site; other site 146919001696 heterodimer interface; other site 146919001697 phosphorylation loop region 146919001698 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 146919001699 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 146919001700 alpha subunit interface; other site 146919001701 TPP binding site; other site 146919001702 heterodimer interface; other site 146919001703 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 146919001704 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 146919001705 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 146919001706 Active Sites; active site 146919001707 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 146919001708 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 146919001709 CysD dimerization site; other site 146919001710 G1 box; other site 146919001711 putative GEF interaction site; other site 146919001712 GTP/Mg2+ binding site; other site 146919001713 Switch I region; other site 146919001714 G2 box; other site 146919001715 G3 box; other site 146919001716 Switch II region; other site 146919001717 G4 box; other site 146919001718 G5 box; other site 146919001719 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...; Region: CysN_NodQ_II; cd03695 146919001720 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...; Region: CysN_NoDQ_III; cd04095 146919001721 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 important for the assimilation...; Region: APSK; cd02027 146919001722 ligand-binding site; other site 146919001723 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 146919001724 active site 146919001725 NTP binding site; other site 146919001726 metal binding triad; metal-binding site 146919001727 antibiotic binding site; other site 146919001728 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919001729 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919001730 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919001731 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919001732 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 146919001733 active site 146919001734 NTP binding site; other site 146919001735 metal binding triad; metal-binding site 146919001736 antibiotic binding site; other site 146919001737 HEPN domain; Region: HEPN; cl00824 146919001738 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 146919001739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001740 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 146919001741 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 146919001742 substrate binding site; other site 146919001743 tetramer interface; other site 146919001744 Cupin domain; Region: Cupin_2; cl09118 146919001745 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 146919001746 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 146919001747 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 146919001748 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919001749 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 146919001750 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 146919001751 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919001752 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 146919001753 Transposase DDE domain; Region: Transposase_11; pfam01609 146919001754 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 146919001755 Phage integrase family; Region: Phage_integrase; pfam00589 146919001756 DNA binding site 146919001757 Int/Topo IB signature motif; other site 146919001758 active site 146919001759 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 146919001760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001761 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 146919001762 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 146919001763 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 146919001764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919001765 Walker A/P-loop; other site 146919001766 ATP binding site; other site 146919001767 Q-loop/lid; other site 146919001768 ABC transporter signature motif; other site 146919001769 Walker B; other site 146919001770 D-loop; other site 146919001771 H-loop/switch region; other site 146919001772 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919001773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001774 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 146919001775 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 146919001776 inhibitor-cofactor binding pocket; inhibition site 146919001777 pyridoxal 5'-phosphate binding site; other site 146919001778 catalytic residue; other site 146919001779 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 146919001780 NeuB family; Region: NeuB; cl00496 146919001781 SAF domain; Region: SAF; cl00555 146919001782 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 146919001783 active site 146919001784 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 146919001785 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 146919001786 NeuB family; Region: NeuB; cl00496 146919001787 SAF domain; Region: SAF; cl00555 146919001788 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 146919001789 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 146919001790 putative trimer interface; other site 146919001791 putative CoA binding site; other site 146919001792 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 146919001793 FOG: CBS domain [General function prediction only]; Region: COG0517 146919001794 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 146919001795 Substrate binding site; other site 146919001796 metal-binding site 146919001797 potential frameshift: common BLAST hit: gi|118444511|ref|YP_877635.1| alginate O-acetylation protein 146919001798 MBOAT family; Region: MBOAT; cl00738 146919001799 potential frameshift: common BLAST hit: gi|85858262|ref|YP_460464.1| membrane-bound O-acyltransferase 146919001800 MBOAT family; Region: MBOAT; cl00738 146919001801 MBOAT family; Region: MBOAT; cl00738 146919001802 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919001803 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 146919001804 active site 146919001805 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919001806 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 146919001807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919001808 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919001809 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919001810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001811 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919001812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001813 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 146919001814 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 146919001815 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 146919001816 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 146919001817 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; cl10495 146919001818 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 146919001819 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 146919001820 active site 146919001821 NTP binding site; other site 146919001822 metal binding triad; metal-binding site 146919001823 antibiotic binding site; other site 146919001824 Protein of unknown function DUF86; Region: DUF86; cl01031 146919001825 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 146919001826 PIN domain; Region: PIN; cl09128 146919001827 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 146919001828 Phage integrase family; Region: Phage_integrase; pfam00589 146919001829 DNA binding site 146919001830 Int/Topo IB signature motif; other site 146919001831 active site 146919001832 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 146919001833 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 146919001834 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 146919001835 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; cl02021 146919001836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 146919001837 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 146919001838 PIN domain; Region: PIN; cl09128 146919001839 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 146919001840 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 146919001841 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 146919001842 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 146919001843 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 146919001844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919001845 Probable transposase; Region: Transposase_2; pfam01385 146919001846 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919001847 Transposase IS200 like; Region: Transposase_17; cl00848 146919001848 Transposase; Region: Transposase_9; pfam01548 146919001849 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 146919001850 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 146919001851 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 146919001852 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 146919001853 DNA-binding interface; DNA binding site 146919001854 IS1 transposase; Region: Transposase_27; cl00721 146919001855 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 146919001856 Protein of unknown function (DUF433); Region: DUF433; cl01030 146919001857 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 146919001858 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 146919001859 PemK-like protein; Region: PemK; cl00995 146919001860 HicB family; Region: HicB; pfam05534 146919001861 IS1 transposase; Region: Transposase_27; cl00721 146919001862 transcription initiation factor IIB; Reviewed; Region: tfb; PRK00423 146919001863 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 146919001864 DNA-binding interface; DNA binding site 146919001865 PIN domain; Region: PIN; cl09128 146919001866 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 146919001867 putative active site; other site 146919001868 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 146919001869 DNA binding site 146919001870 dimer interface; other site 146919001871 Int/Topo IB signature motif; other site 146919001872 active site 146919001873 Transposase DDE domain; Region: Transposase_11; pfam01609 146919001874 Bacterial sugar transferase; Region: Bac_transf; cl00939 146919001875 Probable transposase; Region: Transposase_2; pfam01385 146919001876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919001877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001878 Integrase core domain; Region: rve; cl01316 146919001879 Transposase DDE domain; Region: Transposase_11; pfam01609 146919001880 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 146919001881 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 146919001882 transcriptional activator RfaH; Region: RfaH; TIGR01955 146919001883 Transcription termination factor nusG; Region: NusG; cl02766 146919001884 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 146919001885 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919001886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001887 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 146919001888 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 146919001889 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 146919001890 Protein of unknown function (DUF433); Region: DUF433; cl01030 146919001891 Phd_YefM; Region: PhdYeFM; cl09153 146919001892 Transposase IS200 like; Region: Transposase_17; cl00848 146919001893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919001894 Probable transposase; Region: Transposase_2; pfam01385 146919001895 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919001896 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 146919001897 active site 146919001898 NTP binding site; other site 146919001899 metal binding triad; metal-binding site 146919001900 antibiotic binding site; other site 146919001901 Protein of unknown function DUF86; Region: DUF86; cl01031 146919001902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001903 Protein of unknown function (DUF433); Region: DUF433; cl01030 146919001904 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 146919001905 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 146919001906 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 146919001907 putative active site; other site 146919001908 Chorismate mutase type II; Region: CM_2; cl00693 146919001909 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 146919001910 binding surface 146919001911 TPR motif; other site 146919001912 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 146919001913 TPR motif; other site 146919001914 binding surface 146919001915 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 146919001916 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 146919001917 active site 146919001918 Substrate binding site; other site 146919001919 Mg++ binding site; other site 146919001920 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 rate-...; Region: LbH_G1P_AT_C; cd04651 146919001921 dimer interface; other site 146919001922 N-terminal domain interface; other site 146919001923 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 146919001924 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 146919001925 Walker A/P-loop; other site 146919001926 ATP binding site; other site 146919001927 Q-loop/lid; other site 146919001928 ABC transporter signature motif; other site 146919001929 Walker B; other site 146919001930 D-loop; other site 146919001931 H-loop/switch region; other site 146919001932 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 146919001933 Smr domain; Region: Smr; cl02619 146919001934 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 146919001935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001936 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 146919001937 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 146919001938 dimerization interface; other site 146919001939 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919001940 dimer interface; other site 146919001941 phosphorylation site 146919001942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919001943 ATP binding site; other site 146919001944 Mg2+ binding site; other site 146919001945 G-X-G motif; other site 146919001946 Peptidase family M48; Region: Peptidase_M48; cl12018 146919001947 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 146919001948 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 146919001949 Helix-turn-helix domain; Region: HTH_14; pfam12323 146919001950 Probable transposase; Region: Transposase_2; pfam01385 146919001951 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 146919001952 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 146919001953 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 146919001954 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 146919001955 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919001956 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 146919001957 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 146919001958 Predicted membrane protein [Function unknown]; Region: COG3428 146919001959 Bacterial membrane flanked domain; Region: DUF304; cl01348 146919001960 Bacterial membrane flanked domain; Region: DUF304; cl01348 146919001961 Bacterial membrane flanked domain; Region: DUF304; cl01348 146919001962 Bacterial membrane flanked domain; Region: DUF304; cl01348 146919001963 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 146919001964 ADP binding site; other site 146919001965 magnesium binding site; other site 146919001966 putative shikimate binding site; other site 146919001967 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 146919001968 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 146919001969 dimerization interface 3.5A; other site 146919001970 active site 146919001971 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 146919001972 Amidinotransferase; Region: Amidinotransf; cl12043 146919001973 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 146919001974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001975 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 146919001976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001977 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 146919001978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919001979 CoA-ligase; Region: Ligase_CoA; pfam00549 146919001980 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 146919001981 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 146919001982 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 146919001983 adenosine deaminase; Provisional; Region: PRK09358 146919001984 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 146919001985 active site 146919001986 purine riboside binding site; other site 146919001987 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 146919001988 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 146919001989 hinge; other site 146919001990 active site 146919001991 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 146919001992 Ligand Binding Site; other site 146919001993 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 146919001994 Ligand Binding Site; other site 146919001995 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 146919001996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919001997 active site 146919001998 phosphorylation site 146919001999 intermolecular recognition site; other site 146919002000 dimerization interface; other site 146919002001 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 146919002002 DNA binding residues 146919002003 dimerization interface; other site 146919002004 PAS domain S-box; Region: sensory_box; TIGR00229 146919002005 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 146919002006 putative active site; other site 146919002007 heme pocket; other site 146919002008 Histidine kinase; Region: HisKA_3; pfam07730 146919002009 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002010 ATP binding site; other site 146919002011 Mg2+ binding site; other site 146919002012 G-X-G motif; other site 146919002013 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 146919002014 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 146919002015 dimer interface; other site 146919002016 NAD binding site; other site 146919002017 substrate binding site; other site 146919002018 tetramer (dimer of dimers) interface; other site 146919002019 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; cl11686 146919002020 GcpE protein; Region: GcpE; pfam04551 146919002021 Rhomboid family; Region: Rhomboid; cl11446 146919002022 Rhomboid family; Region: Rhomboid; cl11446 146919002023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 146919002024 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 146919002025 putative active site; other site 146919002026 putative metal binding site; other site 146919002027 Transglycosylase; Region: Transgly; cl07896 146919002028 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 146919002029 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 146919002030 active site 146919002031 metal-binding site 146919002032 DNA binding site 146919002033 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 146919002034 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 146919002035 homoserine kinase; Provisional; Region: PRK01212 146919002036 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 146919002037 bifunctional aspartokinase I/homeserine dehydrogenase I; Provisional; Region: thrA; PRK09436 146919002038 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 146919002039 putative catalytic residues; other site 146919002040 putative nucleotide binding site; other site 146919002041 putative aspartate binding site; other site 146919002042 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 146919002043 dimer interface; other site 146919002044 putative threonine allosteric regulatory site; other site 146919002045 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 146919002046 putative threonine allosteric regulatory site; other site 146919002047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002048 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 146919002049 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 146919002050 DivIVA protein; Region: DivIVA; pfam05103 146919002051 DivIVA domain; Region: DivI1A_domain; TIGR03544 146919002052 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 146919002053 pyridoxal 5'-phosphate (PLP) binding site; other site 146919002054 catalytic residue; other site 146919002055 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 146919002056 Predicted permease; Region: FtsX; cl11418 146919002057 GAF domain; Region: GAF; cl00853 146919002058 Domain of unknown function (DUF427); Region: DUF427; cl00998 146919002059 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 146919002060 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919002061 FMN reductase; Validated; Region: fre; PRK08051 146919002062 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...; Region: FNR_like; cl06868 146919002063 FAD binding pocket; other site 146919002064 conserved FAD binding motif; other site 146919002065 phosphate binding motif; other site 146919002066 beta-alpha-beta structure motif; other site 146919002067 NAD binding pocket; other site 146919002068 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919002069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002070 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 146919002071 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 146919002072 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 146919002073 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 146919002074 catalytic Zn binding site; other site 146919002075 NAD(P) binding site; other site 146919002076 structural Zn binding site; other site 146919002077 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 146919002078 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 146919002079 putative NAD(P) binding site; other site 146919002080 catalytic Zn binding site; other site 146919002081 structural Zn binding site; other site 146919002082 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 146919002083 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 146919002084 active site 146919002085 substrate binding site; other site 146919002086 catalytic site; other site 146919002087 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 146919002088 dimer interface; other site 146919002089 ssDNA binding site; other site 146919002090 tetramer (dimer of dimers) interface; other site 146919002091 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 146919002092 active sites 146919002093 tetramer interface; other site 146919002094 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 146919002095 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919002096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002097 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 146919002098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002099 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 146919002100 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 146919002101 active sites 146919002102 tetramer interface; other site 146919002103 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 146919002104 conserved hypothetical protein TIGR01777; Region: yfcH 146919002105 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 146919002106 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919002107 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 146919002108 Outer membrane efflux protein; Region: OEP; pfam02321 146919002109 Outer membrane efflux protein; Region: OEP; pfam02321 146919002110 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 146919002111 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919002112 HisG, C-terminal domain; Region: HisG_C; cl06867 146919002113 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 146919002114 BioY family; Region: BioY; cl00560 146919002115 Phd_YefM; Region: PhdYeFM; cl09153 146919002116 DsrE/DsrF-like family; Region: DrsE; cl00672 146919002117 PEGA domain; Region: PEGA; pfam08308 146919002118 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 146919002119 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919002120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002121 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 146919002122 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 146919002123 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 146919002124 generic binding surface II; other site 146919002125 generic binding surface I; other site 146919002126 Low molecular weight phosphatase family; Region: LMWPc; cd00115 146919002127 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 146919002128 active site 146919002129 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919002130 Phosphotransferase enzyme family; Region: APH; pfam01636 146919002131 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 146919002132 catalytic loop; other site 146919002133 iron binding site; other site 146919002134 Brp/Blh family; Region: blh_monoox; TIGR03753 146919002135 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 146919002136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002137 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 146919002138 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 146919002139 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 146919002140 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 146919002141 FeS/SAM binding site; other site 146919002142 HemN C-terminal region; Region: HemN_C; pfam06969 146919002143 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 146919002144 phosphate binding site; other site 146919002145 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 146919002146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919002147 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 146919002148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919002149 active site 146919002150 phosphorylation site 146919002151 intermolecular recognition site; other site 146919002152 dimerization interface; other site 146919002153 LytTr DNA-binding domain; Region: LytTR; cl04498 146919002154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 146919002155 Histidine kinase; Region: His_kinase; pfam06580 146919002156 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919002157 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 146919002158 ABC-2 type transporter; Region: ABC2_membrane; cl11417 146919002159 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 146919002160 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 146919002161 Walker A/P-loop; other site 146919002162 ATP binding site; other site 146919002163 Q-loop/lid; other site 146919002164 ABC transporter signature motif; other site 146919002165 Walker B; other site 146919002166 D-loop; other site 146919002167 H-loop/switch region; other site 146919002168 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 146919002169 TPR motif; other site 146919002170 binding surface 146919002171 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 146919002172 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...; Region: OM_channels; cl00284 146919002173 biotin synthase; Validated; Region: PRK06256 146919002174 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 146919002175 FeS/SAM binding site; other site 146919002176 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 146919002177 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919002178 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919002179 dimer interface; other site 146919002180 phosphorylation site 146919002181 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002182 ATP binding site; other site 146919002183 Mg2+ binding site; other site 146919002184 G-X-G motif; other site 146919002185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 146919002186 Integrase core domain; Region: rve; cl01316 146919002187 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 146919002188 substrate binding site; other site 146919002189 ATP binding site; other site 146919002190 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 146919002191 homooctamer interface; other site 146919002192 active site 146919002193 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 146919002194 catalytic triad; other site 146919002195 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 146919002196 active site 146919002197 dimer interface; other site 146919002198 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 146919002199 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919002200 P-loop; other site 146919002201 Magnesium ion binding site; other site 146919002202 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919002203 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 146919002204 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 146919002205 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919002206 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919002207 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 146919002208 Uncharacterized conserved protein [Function unknown]; Region: COG2850 146919002209 Cupin superfamily protein; Region: Cupin_4; pfam08007 146919002210 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 146919002211 dimer interface; other site 146919002212 glycine-pyridoxal phosphate binding site; other site 146919002213 active site 146919002214 folate binding site; other site 146919002215 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919002216 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 146919002217 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919002218 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 146919002219 protein binding site; other site 146919002220 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 146919002221 Catalytic dyad; other site 146919002222 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919002223 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_30; cd04689 146919002224 nudix motif; other site 146919002225 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 146919002226 Ligand Binding Site; other site 146919002227 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 146919002228 Ligand Binding Site; other site 146919002229 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 146919002230 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 146919002231 ROK family; Region: ROK; cl09121 146919002232 Septum formation initiator; Region: DivIC; cl11433 146919002233 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 146919002234 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 146919002235 dimer interface; other site 146919002236 metal-binding site 146919002237 substrate binding pocket; other site 146919002238 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 146919002239 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 146919002240 binding surface 146919002241 TPR motif; other site 146919002242 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 146919002243 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 146919002244 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 146919002245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919002246 Walker A/P-loop; other site 146919002247 ATP binding site; other site 146919002248 Q-loop/lid; other site 146919002249 ABC transporter signature motif; other site 146919002250 lipoyl synthase; Provisional; Region: PRK05481 146919002251 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 146919002252 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 146919002253 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 146919002254 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 146919002255 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 146919002256 active site 146919002257 L-lysine 6-transaminase; Region: LAT_fam; TIGR03251 146919002258 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 146919002259 inhibitor-cofactor binding pocket; inhibition site 146919002260 pyridoxal 5'-phosphate binding site; other site 146919002261 catalytic residue; other site 146919002262 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 146919002263 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 146919002264 Walker A/P-loop; other site 146919002265 ATP binding site; other site 146919002266 Q-loop/lid; other site 146919002267 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 146919002268 Q-loop/lid; other site 146919002269 ABC transporter signature motif; other site 146919002270 Walker B; other site 146919002271 D-loop; other site 146919002272 H-loop/switch region; other site 146919002273 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 146919002274 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 146919002275 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 146919002276 nucleotide binding region; other site 146919002277 ATP-binding site; other site 146919002278 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 146919002279 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 146919002280 Ligand Binding Site; other site 146919002281 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 146919002282 Ligand Binding Site; other site 146919002283 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 146919002284 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 146919002285 DNA binding site 146919002286 Int/Topo IB signature motif; other site 146919002287 active site 146919002288 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 146919002289 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 146919002290 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 146919002291 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919002292 Protein of unknown function (DUF432); Region: DUF432; cl01027 146919002293 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919002294 transmembrane helices; other site 146919002295 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919002296 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919002297 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 146919002298 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 146919002299 E3 interaction surface; other site 146919002300 lipoyl attachment site; other site 146919002301 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 146919002302 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 146919002303 E3 interaction surface; other site 146919002304 lipoyl attachment site; other site 146919002305 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 146919002306 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 146919002307 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 146919002308 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 146919002309 putative active site; other site 146919002310 catalytic residue; other site 146919002311 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 146919002312 5S rRNA interface; other site 146919002313 CTC domain interface; other site 146919002314 L16 interface; other site 146919002315 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 146919002316 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919002317 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 146919002318 nudix motif; other site 146919002319 Initiation factor 2 subunit family; Region: IF-2B; pfam01008 146919002320 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 146919002321 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 146919002322 TPR motif; other site 146919002323 binding surface 146919002324 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 146919002325 binding surface 146919002326 TPR motif; other site 146919002327 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 146919002328 binding surface 146919002329 TPR motif; other site 146919002330 NifU-like domain; Region: NifU; cl00484 146919002331 putative ATPase; Provisional; Region: PRK11670 146919002332 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 146919002333 Walker A motif; other site 146919002334 exopolyphosphatase; Region: exo_poly_only; TIGR03706 146919002335 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 146919002336 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 146919002337 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 146919002338 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919002339 6-phosphofructokinase; Provisional; Region: PRK03202 146919002340 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 146919002341 active site 146919002342 ADP/pyrophosphate binding site; other site 146919002343 dimerization interface; other site 146919002344 allosteric effector site; other site 146919002345 fructose-1,6-bisphosphate binding site; other site 146919002346 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 146919002347 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 146919002348 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 146919002349 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 146919002350 carboxyltransferase (CT) interaction site; other site 146919002351 biotinylation site; other site 146919002352 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 146919002353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002354 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919002355 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 146919002356 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919002357 PAS domain S-box; Region: sensory_box; TIGR00229 146919002358 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 146919002359 PAS domain S-box; Region: sensory_box; TIGR00229 146919002360 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 146919002361 putative active site; other site 146919002362 heme pocket; other site 146919002363 PAS domain S-box; Region: sensory_box; TIGR00229 146919002364 PAS domain S-box; Region: sensory_box; TIGR00229 146919002365 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919002366 dimer interface; other site 146919002367 phosphorylation site 146919002368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002369 ATP binding site; other site 146919002370 Mg2+ binding site; other site 146919002371 G-X-G motif; other site 146919002372 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 146919002373 putative active site; other site 146919002374 heme pocket; other site 146919002375 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 146919002376 PAS fold; Region: PAS_4; pfam08448 146919002377 PAS domain S-box; Region: sensory_box; TIGR00229 146919002378 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 146919002379 putative active site; other site 146919002380 heme pocket; other site 146919002381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 146919002382 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002383 ATP binding site; other site 146919002384 Mg2+ binding site; other site 146919002385 G-X-G motif; other site 146919002386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 146919002387 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002388 ATP binding site; other site 146919002389 Mg2+ binding site; other site 146919002390 G-X-G motif; other site 146919002391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919002392 active site 146919002393 phosphorylation site 146919002394 intermolecular recognition site; other site 146919002395 dimerization interface; other site 146919002396 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919002397 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919002398 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919002399 pyridoxal 5'-phosphate binding pocket; other site 146919002400 catalytic residue; other site 146919002401 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 146919002402 active site 146919002403 phosphorylation site 146919002404 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 146919002405 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 146919002406 dimer interface; other site 146919002407 motif 1; other site 146919002408 active site 146919002409 motif 2; other site 146919002410 motif 3; other site 146919002411 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 146919002412 anticodon binding site; other site 146919002413 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919002414 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 146919002415 hypothetical protein; Provisional; Region: PRK07208 146919002416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002417 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919002418 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 146919002419 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 146919002420 N-terminal plug; other site 146919002421 ligand-binding site; other site 146919002422 glycogen branching enzyme; Provisional; Region: PRK12313 146919002423 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 146919002424 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919002425 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 146919002426 trehalose synthase; Region: treS_nterm; TIGR02456 146919002427 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919002428 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 146919002429 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 146919002430 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 146919002431 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919002432 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 146919002433 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 146919002434 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919002435 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 146919002436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002437 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 146919002438 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 146919002439 putative active site; other site 146919002440 Zn-binding site; other site 146919002441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919002442 active site 146919002443 phosphorylation site 146919002444 intermolecular recognition site; other site 146919002445 dimerization interface; other site 146919002446 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919002447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002448 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919002449 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 146919002450 DNA polymerase III subunit delta'; Validated; Region: PRK05564 146919002451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919002452 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 146919002453 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919002454 active site 146919002455 substrate binding site; other site 146919002456 ATP binding site; other site 146919002457 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 146919002458 oligomerisation interface; other site 146919002459 mobile loop; other site 146919002460 roof hairpin; other site 146919002461 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 146919002462 putative active site; other site 146919002463 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919002464 dimer interface; other site 146919002465 phosphorylation site 146919002466 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002467 ATP binding site; other site 146919002468 Mg2+ binding site; other site 146919002469 G-X-G motif; other site 146919002470 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 146919002471 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 146919002472 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 146919002473 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 146919002474 cobalamin binding residues; other site 146919002475 putative BtuC binding residues; other site 146919002476 dimer interface; other site 146919002477 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 146919002478 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 146919002479 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 146919002480 N-terminal plug; other site 146919002481 ligand-binding site; other site 146919002482 Phage shock protein B; Region: PspB; cl05946 146919002483 phosphonate C-P lyase system protein PhnK; Region: CP_lyasePhnK; TIGR02323 146919002484 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 146919002485 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 146919002486 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919002487 dimer interface; other site 146919002488 phosphorylation site 146919002489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919002490 ATP binding site; other site 146919002491 Mg2+ binding site; other site 146919002492 G-X-G motif; other site 146919002493 haloalkane dehalogenase; Provisional; Region: PRK03204 146919002494 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919002495 Predicted transcriptional regulator [Transcription]; Region: COG2378 146919002496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919002497 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 146919002498 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 146919002499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002500 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919002501 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 146919002502 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 146919002503 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 146919002504 putative RNA binding site; other site 146919002505 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 146919002506 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919002507 Protein of unknown function (DUF421); Region: DUF421; cl00990 146919002508 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 146919002509 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 146919002510 Phage integrase family; Region: Phage_integrase; pfam00589 146919002511 DNA binding site 146919002512 Int/Topo IB signature motif; other site 146919002513 active site 146919002514 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 146919002515 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 146919002516 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 146919002517 nucleotide binding pocket; other site 146919002518 K-X-D-G motif; other site 146919002519 catalytic site; other site 146919002520 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 146919002521 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 146919002522 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 146919002523 Dimer interface; other site 146919002524 BRCT sequence motif; other site 146919002525 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 146919002526 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 146919002527 Walker A/P-loop; other site 146919002528 ATP binding site; other site 146919002529 Q-loop/lid; other site 146919002530 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 146919002531 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 146919002532 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 146919002533 ABC transporter signature motif; other site 146919002534 Walker B; other site 146919002535 D-loop; other site 146919002536 H-loop/switch region; other site 146919002537 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919002538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 146919002539 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 146919002540 dimerization interface; other site 146919002541 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 146919002542 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919002543 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 146919002544 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 146919002545 Beta-lactamase; Region: Beta-lactamase; cl01009 146919002546 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 146919002547 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 146919002548 amidophosphoribosyltransferase; Provisional; Region: PRK09123 146919002549 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 146919002550 active site 146919002551 tetramer interface; other site 146919002552 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919002553 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 146919002554 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 146919002555 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 146919002556 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 146919002557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002559 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 146919002560 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 146919002561 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 146919002562 dimer interface; other site 146919002563 putative anticodon binding site; other site 146919002564 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 146919002565 motif 1; other site 146919002566 active site 146919002567 motif 2; other site 146919002568 motif 3; other site 146919002569 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919002570 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919002571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 146919002572 ligand binding site; other site 146919002573 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 146919002574 Peptidase family M23; Region: Peptidase_M23; pfam01551 146919002575 Protein of unknown function, DUF583; Region: DUF583; cl09137 146919002576 ATP synthase A chain; Region: ATP-synt_A; cl00413 146919002577 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 146919002578 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 146919002579 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 146919002580 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 146919002581 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 146919002582 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 146919002583 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 146919002584 beta subunit interaction interface; other site 146919002585 Walker A motif; other site 146919002586 ATP binding site; other site 146919002587 Walker B motif; other site 146919002588 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 146919002589 ATP synthase; Region: ATP-synt; cl00365 146919002590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002591 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 146919002592 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 146919002593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919002594 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919002595 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics...; Region: rDP_like; cd01301 146919002596 active site 146919002597 dimer interface; other site 146919002598 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 146919002599 intersubunit interface; other site 146919002600 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 146919002601 substrate binding site; other site 146919002602 THF binding site; other site 146919002603 zinc-binding site; other site 146919002604 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 146919002605 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 146919002606 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919002607 Domain of unknown function DUF21; Region: DUF21; pfam01595 146919002608 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 146919002609 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919002610 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919002611 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919002612 Outer membrane efflux protein; Region: OEP; pfam02321 146919002613 Outer membrane efflux protein; Region: OEP; pfam02321 146919002614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919002615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919002616 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919002617 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 146919002618 ATP binding site; other site 146919002619 active site 146919002620 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 146919002621 active site residue 146919002622 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 146919002623 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 146919002624 active site residue 146919002625 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 146919002626 active site residue 146919002627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002628 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 146919002629 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 146919002630 HIGH motif; other site 146919002631 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919002632 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919002633 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919002634 KMSKS motif; other site 146919002635 active site 146919002636 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 146919002637 tRNA binding surface; other site 146919002638 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 146919002639 translation elongation factor P; Region: efp; TIGR00038 146919002640 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 146919002641 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 146919002642 RNA binding site; other site 146919002643 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 146919002644 RNA binding site; other site 146919002645 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 146919002646 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 146919002647 carboxyltransferase (CT) interaction site; other site 146919002648 biotinylation site; other site 146919002649 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 146919002650 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 146919002651 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919002652 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 146919002653 aspartate aminotransferase; Provisional; Region: PRK06108 146919002654 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 146919002655 pyridoxal 5'-phosphate binding site; other site 146919002656 homodimer interface; other site 146919002657 catalytic residue; other site 146919002658 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 146919002659 active site 146919002660 putative substrate binding region; other site 146919002661 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 146919002662 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...; Region: OM_channels; cl00284 146919002663 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 146919002664 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 146919002665 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919002666 hypothetical protein; Provisional; Region: PRK10673 146919002667 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919002668 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919002669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002670 hydrolase; Region: PLN02578 146919002671 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 146919002672 active site 146919002673 substrate binding site; other site 146919002674 catalytic site; other site 146919002675 exodeoxyribonuclease X; Provisional; Region: PRK07983 146919002676 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 146919002677 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919002678 P-loop; other site 146919002679 Magnesium ion binding site; other site 146919002680 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919002681 Magnesium ion binding site; other site 146919002682 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919002683 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 146919002684 catalytic center binding site; other site 146919002685 ATP binding site; other site 146919002686 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 146919002687 Substrate-binding site; other site 146919002688 Substrate specificity; other site 146919002689 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919002690 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 146919002691 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 146919002692 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 146919002693 catalytic site; other site 146919002694 subunit interface; other site 146919002695 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 146919002696 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 146919002697 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919002698 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 146919002699 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 146919002700 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 146919002701 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919002702 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 146919002703 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 146919002704 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 146919002705 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 146919002706 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 146919002707 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 146919002708 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 146919002709 DNA binding site 146919002710 RNA-binding motif; other site 146919002711 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 146919002712 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 146919002713 trimer interface; other site 146919002714 active site 146919002715 substrate binding site; other site 146919002716 CoA binding site; other site 146919002717 DNA primase; Validated; Region: dnaG; PRK05667 146919002718 CHC2 zinc finger; Region: zf-CHC2; cl02597 146919002719 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 146919002720 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 146919002721 active site 146919002722 metal-binding site 146919002723 interdomain interaction site; other site 146919002724 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 146919002725 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 146919002726 Peptidase C26; Region: Peptidase_C26; pfam07722 146919002727 catalytic triad; other site 146919002728 Smr domain; Region: Smr; cl02619 146919002729 Uncharacterized conserved protein [Function unknown]; Region: COG4279 146919002730 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 146919002731 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 146919002732 catalytic triad; other site 146919002733 Surface antigen; Region: Bac_surface_Ag; cl03097 146919002734 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 146919002735 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 146919002736 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 146919002737 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 146919002738 generic binding surface II; other site 146919002739 generic binding surface I; other site 146919002740 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 146919002741 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 146919002742 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 146919002743 Protein of unknown function (DUF819); Region: DUF819; cl02317 146919002744 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 146919002745 binding surface 146919002746 TPR motif; other site 146919002747 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 146919002748 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 146919002749 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 146919002750 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919002751 HIGH motif; other site 146919002752 active site 146919002753 nucleotide binding site; other site 146919002754 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 146919002755 KMSK motif region; other site 146919002756 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 146919002757 tRNA binding surface; other site 146919002758 anticodon binding site; other site 146919002759 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 146919002760 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 146919002761 Catalytic site; other site 146919002762 Cupin domain; Region: Cupin_2; cl09118 146919002763 recombination factor protein RarA; Reviewed; Region: PRK13342 146919002764 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919002765 Walker A motif; other site 146919002766 ATP binding site; other site 146919002767 Walker B motif; other site 146919002768 arginine finger; other site 146919002769 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 146919002770 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 146919002771 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...; Region: TST_Repeat_1; cd01448 146919002772 active site residue 146919002773 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 146919002774 active site residue 146919002775 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 146919002776 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919002777 DctM-like transporters; Region: DctM; pfam06808 146919002778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002779 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919002780 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 146919002781 S-adenosylmethionine binding site; other site 146919002782 Predicted integral membrane protein [Function unknown]; Region: COG5617 146919002783 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 146919002784 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 146919002785 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919002786 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 146919002787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919002788 Walker A/P-loop; other site 146919002789 ATP binding site; other site 146919002790 Q-loop/lid; other site 146919002791 ABC transporter signature motif; other site 146919002792 Walker B; other site 146919002793 D-loop; other site 146919002794 H-loop/switch region; other site 146919002795 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919002796 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 146919002797 active site 146919002798 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 146919002799 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919002800 putative ADP-binding pocket; other site 146919002801 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919002802 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 146919002803 DHH family; Region: DHH; pfam01368 146919002804 DHHA1 domain; Region: DHHA1; pfam02272 146919002805 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 146919002806 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 146919002807 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 146919002808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919002809 Walker A/P-loop; other site 146919002810 ATP binding site; other site 146919002811 Q-loop/lid; other site 146919002812 ABC transporter signature motif; other site 146919002813 Walker B; other site 146919002814 D-loop; other site 146919002815 H-loop/switch region; other site 146919002816 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 146919002817 Peptidase S8 family domain, uncharacterized subfamily 10; Region: Peptidases_S8_10; cd07494 146919002818 active site 146919002819 catalytic triad; other site 146919002820 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919002821 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_aspartate_rich; cd04823 146919002822 dimer interface; other site 146919002823 active site 146919002824 aspartate-rich active site metal binding site; other site 146919002825 allosteric magnesium binding site; other site 146919002826 Schiff base residues; other site 146919002827 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 146919002828 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919002829 HIGH motif; other site 146919002830 active site 146919002831 nucleotide binding site; other site 146919002832 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 146919002833 KMSKS motif; other site 146919002834 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 146919002835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919002836 Domain of unknown function DUF37; Region: DUF37; cl00506 146919002837 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 146919002838 Sodium:solute symporter family; Region: SSF; cl00456 146919002839 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 146919002840 S-adenosylmethionine binding site; other site 146919002841 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919002842 TspO/MBR family; Region: TspO_MBR; cl01379 146919002843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002844 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 146919002845 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 146919002846 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 146919002847 active site 146919002848 putative substrate binding region; other site 146919002849 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 146919002850 pyruvate kinase; Provisional; Region: PRK05826 146919002851 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl10032 146919002852 domain interfaces; other site 146919002853 active site 146919002854 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 146919002855 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 146919002856 binding surface 146919002857 TPR motif; other site 146919002858 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 146919002859 FtsH Extracellular; Region: FtsH_ext; pfam06480 146919002860 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 146919002861 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919002862 Walker A motif; other site 146919002863 ATP binding site; other site 146919002864 Walker B motif; other site 146919002865 arginine finger; other site 146919002866 Peptidase family M41; Region: Peptidase_M41; pfam01434 146919002867 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 146919002868 S17 interaction site; other site 146919002869 S8 interaction site; other site 146919002870 16S rRNA interaction site; other site 146919002871 streptomycin interaction site; other site 146919002872 23S rRNA interaction site; other site 146919002873 aminoacyl-tRNA interaction site (A-site); other site 146919002874 elongation factor G; Reviewed; Region: PRK00007 146919002875 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 146919002876 G1 box; other site 146919002877 putative GEF interaction site; other site 146919002878 GTP/Mg2+ binding site; other site 146919002879 Switch I region; other site 146919002880 G2 box; other site 146919002881 G3 box; other site 146919002882 Switch II region; other site 146919002883 G4 box; other site 146919002884 G5 box; other site 146919002885 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 146919002886 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 146919002887 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 146919002888 elongation factor Tu; Reviewed; Region: PRK00049 146919002889 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 146919002890 G1 box; other site 146919002891 GEF interaction site; other site 146919002892 GTP/Mg2+ binding site; other site 146919002893 Switch I region; other site 146919002894 G2 box; other site 146919002895 G3 box; other site 146919002896 Switch II region; other site 146919002897 G4 box; other site 146919002898 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 146919002899 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 146919002900 Antibiotic Binding Site; other site 146919002901 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 146919002902 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 146919002903 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 146919002904 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 146919002905 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 146919002906 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 146919002907 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 146919002908 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 146919002909 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 146919002910 protein-rRNA interface; other site 146919002911 putative translocon binding site; other site 146919002912 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 146919002913 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 146919002914 G-X-X-G motif; other site 146919002915 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 146919002916 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 146919002917 23S rRNA interface; other site 146919002918 5S rRNA interface; other site 146919002919 putative antibiotic binding site; other site 146919002920 L25 interface; other site 146919002921 L27 interface; other site 146919002922 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cl09943 146919002923 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 146919002924 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 146919002925 KOW motif; Region: KOW; cl00354 146919002926 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 146919002927 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 146919002928 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 146919002929 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 146919002930 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 146919002931 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 146919002932 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 146919002933 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 146919002934 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 146919002935 5S rRNA interface; other site 146919002936 L27 interface; other site 146919002937 23S rRNA interface; other site 146919002938 L5 interface; other site 146919002939 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 146919002940 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 146919002941 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 146919002942 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 146919002943 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 146919002944 eubacterial secY protein; Region: SecY; pfam00344 146919002945 methionine aminopeptidase; Reviewed; Region: PRK07281 146919002946 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 146919002947 active site 146919002948 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 146919002949 rRNA binding site; other site 146919002950 predicted 30S ribosome binding site; other site 146919002951 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 146919002952 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 146919002953 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 146919002954 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 146919002955 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 146919002956 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 146919002957 RNA binding surface; other site 146919002958 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 146919002959 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 146919002960 alphaNTD homodimer interface; other site 146919002961 alphaNTD - beta interaction site; other site 146919002962 alphaNTD - beta' interaction site; other site 146919002963 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 146919002964 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 146919002965 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 146919002966 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919002967 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 146919002968 synthetase active site; other site 146919002969 NTP binding site; other site 146919002970 metal-binding site 146919002971 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 146919002972 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 146919002973 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 146919002974 IHF - DNA interface; other site 146919002975 IHF dimer interface; other site 146919002976 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 146919002977 Protein of unknown function DUF72; Region: DUF72; cl00777 146919002978 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 146919002979 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 146919002980 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 146919002981 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 146919002982 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919002983 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 146919002984 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 146919002985 active site 146919002986 multimer interface; other site 146919002987 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 146919002988 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 146919002989 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 146919002990 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 146919002991 dihydrodipicolinate synthase; Region: dapA; TIGR00674 146919002992 dimer interface; other site 146919002993 active site 146919002994 catalytic residue; other site 146919002995 dihydrodipicolinate reductase; Provisional; Region: PRK00048 146919002996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919002997 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 146919002998 DNA photolyase; Region: DNA_photolyase; pfam00875 146919002999 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 146919003000 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 146919003001 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 146919003002 Cupin domain; Region: Cupin_2; cl09118 146919003003 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 146919003004 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 146919003005 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 146919003006 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 146919003007 active site 146919003008 Ferritin-like domain; Region: Ferritin; pfam00210 146919003009 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 146919003010 dimerization interface; other site 146919003011 DPS ferroxidase diiron center; other site 146919003012 ion pore; other site 146919003013 DNA topoisomerase I; Validated; Region: PRK07561 146919003014 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 146919003015 active site 146919003016 interdomain interaction site; other site 146919003017 putative metal-binding site; other site 146919003018 nucleotide binding site; other site 146919003019 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cl11986 146919003020 domain I; other site 146919003021 phosphate binding site; other site 146919003022 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 146919003023 domain II; other site 146919003024 domain III; other site 146919003025 nucleotide binding site; other site 146919003026 DNA binding groove 146919003027 catalytic site; other site 146919003028 domain IV; other site 146919003029 ribosome-associated GTPase; Reviewed; Region: PRK00098 146919003030 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 146919003031 GTPase/OB domain interface; other site 146919003032 GTPase/Zn-binding domain interface; other site 146919003033 GTP/Mg2+ binding site; other site 146919003034 G4 box; other site 146919003035 G5 box; other site 146919003036 G1 box; other site 146919003037 Switch I region; other site 146919003038 G2 box; other site 146919003039 G3 box; other site 146919003040 Switch II region; other site 146919003041 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 146919003042 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919003043 dimer interface; other site 146919003044 phosphorylation site 146919003045 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919003046 ATP binding site; other site 146919003047 Mg2+ binding site; other site 146919003048 G-X-G motif; other site 146919003049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003050 active site 146919003051 phosphorylation site 146919003052 intermolecular recognition site; other site 146919003053 dimerization interface; other site 146919003054 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 146919003055 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 146919003056 dimer interface; other site 146919003057 pyridoxal 5'-phosphate binding site; other site 146919003058 catalytic residue; other site 146919003059 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as...; Region: CBS_pair_PALP_assoc2; cd04609 146919003060 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 146919003061 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 146919003062 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919003063 CoA-ligase; Region: Ligase_CoA; pfam00549 146919003064 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919003065 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 146919003066 active site 146919003067 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919003068 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919003069 active site 146919003070 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 146919003071 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 146919003072 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the...; Region: Mth938; cd05126 146919003073 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 146919003074 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 146919003075 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 146919003076 FeS/SAM binding site; other site 146919003077 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 146919003078 Protein of unknown function (DUF433); Region: DUF433; cl01030 146919003079 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919003080 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 146919003081 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919003082 phosphoenolpyruvate synthase; Validated; Region: PRK06464 146919003083 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 146919003084 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 146919003085 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 146919003086 Helix-turn-helix domain; Region: HTH_14; pfam12323 146919003087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 146919003088 Probable transposase; Region: Transposase_2; pfam01385 146919003089 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 146919003090 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 146919003091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003092 oligomerization interface; other site 146919003093 active site 146919003094 NAD+ binding site; other site 146919003095 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 146919003096 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 146919003097 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 146919003098 Predicted archaeal kinase (sugar kinase superfamily) [General function prediction only]; Region: COG1829 146919003099 Penicillin amidase; Region: Penicil_amidase; pfam01804 146919003100 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 146919003101 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_CA; cd01936 146919003102 active site 146919003103 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 146919003104 DoxX; Region: DoxX; cl00976 146919003105 B subunit; Region: rnfB; TIGR01944 146919003106 dihydropyrimidine dehydrogenase; Validated; Region: PRK08318 146919003107 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 146919003108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003109 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 146919003110 replicative DNA helicase; Validated; Region: PRK07773 146919003111 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; cl09966 146919003112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003113 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 146919003114 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 146919003115 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 146919003116 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 146919003117 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003118 pyridoxal 5'-phosphate binding pocket; other site 146919003119 catalytic residue; other site 146919003120 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 146919003121 elongation factor G; Reviewed; Region: PRK12740 146919003122 G1 box; other site 146919003123 putative GEF interaction site; other site 146919003124 GTP/Mg2+ binding site; other site 146919003125 Switch I region; other site 146919003126 G2 box; other site 146919003127 G3 box; other site 146919003128 Switch II region; other site 146919003129 G4 box; other site 146919003130 G5 box; other site 146919003131 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 146919003132 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 146919003133 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 146919003134 Protein of unknown function, DUF; Region: DUF411; cl01142 146919003135 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 146919003136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003137 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 146919003138 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 146919003139 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 146919003140 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 146919003141 Uncharacterized conserved protein [Function unknown]; Region: COG5276 146919003142 Uncharacterized conserved protein [Function unknown]; Region: COG3391 146919003143 excinuclease ABC subunit B; Provisional; Region: PRK05298 146919003144 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 146919003145 ATP binding site; other site 146919003146 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 146919003147 nucleotide binding region; other site 146919003148 ATP-binding site; other site 146919003149 Ultra-violet resistance protein B; Region: UvrB; pfam12344 146919003150 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 146919003151 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 146919003152 homodimer interface; other site 146919003153 substrate-cofactor binding pocket; other site 146919003154 pyridoxal 5'-phosphate binding site; other site 146919003155 catalytic residue; other site 146919003156 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 146919003157 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 146919003158 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 146919003159 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 146919003160 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 146919003161 PspA/IM30 family; Region: PspA_IM30; pfam04012 146919003162 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 146919003163 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 146919003164 trimer interface; other site 146919003165 dimer interface; other site 146919003166 putative active site; other site 146919003167 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 146919003168 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 146919003169 active site 146919003170 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 146919003171 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The N-...; Region: GltS; cd00713 146919003172 active site 146919003173 dimer interface; other site 146919003174 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 146919003175 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 146919003176 active site 146919003177 FMN binding site; other site 146919003178 substrate binding site; other site 146919003179 3Fe-4S cluster binding site; other site 146919003180 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 146919003181 domain interface; other site 146919003182 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 146919003183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003184 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 146919003185 putative active site; other site 146919003186 dimerization interface; other site 146919003187 putative tRNAtyr binding site; other site 146919003188 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 146919003189 active site 146919003190 dimerization interface; other site 146919003191 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 146919003192 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 146919003193 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 146919003194 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 146919003195 TPP-binding site; other site 146919003196 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 146919003197 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919003198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003200 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 146919003201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003202 active site 146919003203 phosphorylation site 146919003204 intermolecular recognition site; other site 146919003205 dimerization interface; other site 146919003206 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919003207 DNA binding site 146919003208 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919003209 Recombination protein O N terminal; Region: RecO_N; pfam11967 146919003210 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 146919003211 Recombination protein O C terminal; Region: RecO_C; pfam02565 146919003212 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919003213 LexA repressor; Validated; Region: PRK00215 146919003214 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 146919003215 Catalytic site; other site 146919003216 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 146919003217 DNA photolyase; Region: DNA_photolyase; pfam00875 146919003218 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 146919003219 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 146919003220 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 146919003221 S-adenosylmethionine binding site; other site 146919003222 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919003223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919003224 Uncharacterized conserved protein [Function unknown]; Region: COG1739 146919003225 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 146919003226 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 146919003227 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 146919003228 RNA/DNA hybrid binding site; other site 146919003229 active site 146919003230 GTPase ObgE; Reviewed; Region: obgE; PRK12299 146919003231 GTP1/OBG; Region: GTP1_OBG; pfam01018 146919003232 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 146919003233 G1 box; other site 146919003234 GTP/Mg2+ binding site; other site 146919003235 Switch I region; other site 146919003236 G2 box; other site 146919003237 G3 box; other site 146919003238 Switch II region; other site 146919003239 G4 box; other site 146919003240 G5 box; other site 146919003241 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 146919003242 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 146919003243 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003244 pyridoxal 5'-phosphate binding pocket; other site 146919003245 catalytic residue; other site 146919003246 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 146919003247 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 146919003248 RNA binding surface; other site 146919003249 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 146919003250 active site 146919003251 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 146919003252 active site 146919003253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919003254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919003255 Peptidase family M48; Region: Peptidase_M48; cl12018 146919003256 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919003257 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919003258 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 146919003259 Probable Catalytic site; other site 146919003260 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 146919003261 Amidinotransferase; Region: Amidinotransf; cl12043 146919003262 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 146919003263 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 146919003264 Walker A/P-loop; other site 146919003265 ATP binding site; other site 146919003266 Q-loop/lid; other site 146919003267 ABC transporter signature motif; other site 146919003268 Walker B; other site 146919003269 D-loop; other site 146919003270 H-loop/switch region; other site 146919003271 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919003272 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 146919003273 substrate binding site; other site 146919003274 hinge regions; other site 146919003275 ADP binding site; other site 146919003276 catalytic site; other site 146919003277 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 146919003278 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 146919003279 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 146919003280 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 146919003281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003282 active site 146919003283 phosphorylation site 146919003284 intermolecular recognition site; other site 146919003285 dimerization interface; other site 146919003286 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003287 Walker A motif; other site 146919003288 ATP binding site; other site 146919003289 Walker B motif; other site 146919003290 arginine finger; other site 146919003291 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919003292 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 146919003293 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 146919003294 Walker A/P-loop; other site 146919003295 ATP binding site; other site 146919003296 Q-loop/lid; other site 146919003297 ABC transporter signature motif; other site 146919003298 Walker B; other site 146919003299 D-loop; other site 146919003300 H-loop/switch region; other site 146919003301 Found in ATP-dependent protease La (LON); Region: LON; cl01056 146919003302 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 146919003303 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919003304 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 146919003305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919003306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919003307 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 146919003308 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919003309 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 146919003310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003311 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 146919003312 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 146919003313 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 146919003314 substrate binding site; other site 146919003315 oxyanion hole (OAH) forming residues; other site 146919003316 trimer interface; other site 146919003317 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 146919003318 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 146919003319 dimer interface; other site 146919003320 active site 146919003321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003322 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919003323 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 146919003324 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 146919003325 active site 146919003326 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 146919003327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003328 short chain dehydrogenase; Provisional; Region: PRK07677 146919003329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003330 protoporphyrinogen oxidase; Region: PLN02576 146919003331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919003332 Transposase DDE domain; Region: Transposase_11; pfam01609 146919003333 3-methylcrotonyl-CoA carboxylase; Region: PLN02820 146919003334 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 146919003335 OsmC-like protein; Region: OsmC; cl00767 146919003336 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 146919003337 Haemolysin-III related; Region: HlyIII; cl03831 146919003338 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919003339 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 146919003340 substrate binding pocket; other site 146919003341 chain length determination region; other site 146919003342 substrate-Mg2+ binding site; other site 146919003343 catalytic residues; other site 146919003344 aspartate-rich region 1; other site 146919003345 active site lid residues 146919003346 aspartate-rich region 2; other site 146919003347 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 146919003348 ABC-ATPase subunit interface; other site 146919003349 dimer interface; other site 146919003350 putative PBP binding regions; other site 146919003351 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 146919003352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003353 active site 146919003354 phosphorylation site 146919003355 intermolecular recognition site; other site 146919003356 dimerization interface; other site 146919003357 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003358 Walker A motif; other site 146919003359 ATP binding site; other site 146919003360 Walker B motif; other site 146919003361 arginine finger; other site 146919003362 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919003363 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 146919003364 intersubunit interface; other site 146919003365 active site 146919003366 catalytic residue; other site 146919003367 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 146919003368 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 146919003369 NAD(P) binding site; other site 146919003370 catalytic residues; other site 146919003371 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 146919003372 NAD(P) binding site; other site 146919003373 Transposase DDE domain; Region: Transposase_11; pfam01609 146919003374 Sporulation related domain; Region: SPOR; cl10051 146919003375 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003376 pyridoxal 5'-phosphate binding pocket; other site 146919003377 catalytic residue; other site 146919003378 FAD dependent oxidoreductase; Region: DAO; pfam01266 146919003379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003380 FAD dependent oxidoreductase; Region: DAO; pfam01266 146919003381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003382 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 146919003383 thiS-thiF/thiG interaction site; other site 146919003384 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 146919003385 ThiS interaction site; other site 146919003386 putative active site; other site 146919003387 tetramer interface; other site 146919003388 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 146919003389 thiamine phosphate binding site; other site 146919003390 active site 146919003391 pyrophosphate binding site; other site 146919003392 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 146919003393 dimer interface; other site 146919003394 substrate binding site; other site 146919003395 ATP binding site; other site 146919003396 PAS domain S-box; Region: sensory_box; TIGR00229 146919003397 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 146919003398 putative active site; other site 146919003399 heme pocket; other site 146919003400 GAF domain; Region: GAF; cl00853 146919003401 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919003402 dimer interface; other site 146919003403 phosphorylation site 146919003404 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919003405 ATP binding site; other site 146919003406 Mg2+ binding site; other site 146919003407 G-X-G motif; other site 146919003408 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 146919003409 active site residue 146919003410 Protein of unknown function (DUF493); Region: DUF493; cl01102 146919003411 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 146919003412 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 146919003413 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 146919003414 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 146919003415 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 146919003416 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 146919003417 active site 146919003418 catalytic residues; other site 146919003419 metal-binding site 146919003420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 146919003421 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 146919003422 putative active site; other site 146919003423 putative metal binding site; other site 146919003424 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 146919003425 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 146919003426 ABC-2 type transporter; Region: ABC2_membrane; cl11417 146919003427 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 146919003428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003429 Walker A/P-loop; other site 146919003430 ATP binding site; other site 146919003431 Q-loop/lid; other site 146919003432 ABC transporter signature motif; other site 146919003433 Walker B; other site 146919003434 D-loop; other site 146919003435 H-loop/switch region; other site 146919003436 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 146919003437 nucleotide binding site; other site 146919003438 PUA domain; Region: PUA; cl00607 146919003439 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 146919003440 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 146919003441 putative catalytic cysteine; other site 146919003442 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 146919003443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003444 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919003445 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919003446 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919003447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003448 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919003449 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 146919003450 ADP-ribose binding site; other site 146919003451 glycine dehydrogenase; Provisional; Region: PRK05367 146919003452 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 146919003453 tetramer interface; other site 146919003454 pyridoxal 5'-phosphate binding site; other site 146919003455 catalytic residue; other site 146919003456 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 146919003457 tetramer interface; other site 146919003458 pyridoxal 5'-phosphate binding site; other site 146919003459 catalytic residue; other site 146919003460 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 146919003461 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003462 pyridoxal 5'-phosphate binding pocket; other site 146919003463 catalytic residue; other site 146919003464 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 146919003465 putative substrate translocation pore; other site 146919003466 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 146919003467 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919003468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 146919003469 Family of unknown function (DUF490); Region: DUF490; pfam04357 146919003470 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919003471 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919003472 Surface antigen; Region: Bac_surface_Ag; cl03097 146919003473 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 146919003474 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 146919003475 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 146919003476 Substrate-binding site; other site 146919003477 Substrate specificity; other site 146919003478 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 146919003479 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 146919003480 active site 146919003481 catalytic tetrad; other site 146919003482 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 146919003483 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 146919003484 pyridoxal 5'-phosphate binding pocket; other site 146919003485 catalytic residue; other site 146919003486 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 146919003487 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 146919003488 THF binding site; other site 146919003489 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 146919003490 substrate binding site; other site 146919003491 THF binding site; other site 146919003492 zinc-binding site; other site 146919003493 serine racemase; Region: PLN02970 146919003494 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 146919003495 tetramer interface; other site 146919003496 pyridoxal 5'-phosphate binding site; other site 146919003497 catalytic residue; other site 146919003498 O-Antigen ligase; Region: Wzy_C; cl04850 146919003499 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 146919003500 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 146919003501 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 146919003502 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 146919003503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003504 Walker A motif; other site 146919003505 ATP binding site; other site 146919003506 Walker B motif; other site 146919003507 Sulfatase; Region: Sulfatase; cl10460 146919003508 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 146919003509 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003510 Walker A motif; other site 146919003511 ATP binding site; other site 146919003512 Walker B motif; other site 146919003513 Septum formation initiator; Region: DivIC; cl11433 146919003514 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 146919003515 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 146919003516 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 146919003517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919003518 galactose-1-phosphate uridylyltransferase; Region: PLN02643 146919003519 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...; Region: HIT_like; cl00228 146919003520 nucleotide binding site/active site; other site 146919003521 HIT family signature motif; other site 146919003522 catalytic residue; other site 146919003523 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 146919003524 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 146919003525 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919003526 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 146919003527 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 146919003528 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919003529 Cupin domain; Region: Cupin_2; cl09118 146919003530 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 146919003531 active site 146919003532 catalytic residues; other site 146919003533 metal-binding site 146919003534 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 146919003535 S-adenosylmethionine binding site; other site 146919003536 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 146919003537 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 146919003538 hypothetical protein; Provisional; Region: PRK11649 146919003539 Peptidase family M23; Region: Peptidase_M23; pfam01551 146919003540 A subfamily of the L-Asparaginase type 2-like enzymes. The wider family, a member of the Ntn-hydrolase superfamily, includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. The proenzymes undergo autoproteolytic cleavage before a...; Region: Asparaginase_2_like; cd04703 146919003541 catalytic nucleophile; other site 146919003542 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 146919003543 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 146919003544 N-terminal plug; other site 146919003545 ligand-binding site; other site 146919003546 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 146919003547 Stage II sporulation protein; Region: SpoIID; cl07201 146919003548 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 146919003549 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 146919003550 active site 146919003551 Transposase; Region: Transposase_9; pfam01548 146919003552 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 146919003553 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 146919003554 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 146919003555 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919003556 competence damage-inducible protein A; Provisional; Region: PRK00549 146919003557 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 146919003558 putative MPT binding site; other site 146919003559 Competence-damaged protein; Region: CinA; cl00666 146919003560 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 146919003561 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 146919003562 NAD(P) binding site; other site 146919003563 OsmC-like protein; Region: OsmC; cl00767 146919003564 Conserved TM helix; Region: TM_helix; pfam05552 146919003565 mechanosensitive channel MscS; Provisional; Region: PRK10334 146919003566 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919003567 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 146919003568 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...; Region: TlpA_like_family; cd02966 146919003569 catalytic residues; other site 146919003570 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 146919003571 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 146919003572 Oligopeptidase F; Region: Peptidase_M3_N; pfam08439 146919003573 Peptidase family M3B Oligopeptidase F (PepF; Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and includes oligoendopeptidase F from Lactococcus lactis. This enzyme hydrolyzes peptides containing between 7 and 17 amino acids with fairly broad...; Region: M3B_Oligoendopeptidase_F; cd06459 146919003574 active site 146919003575 zinc binding site; other site 146919003576 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 146919003577 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 146919003578 Ligand Binding Site; other site 146919003579 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 146919003580 Ligand Binding Site; other site 146919003581 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 146919003582 Ligand Binding Site; other site 146919003583 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 146919003584 Ligand Binding Site; other site 146919003585 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_IV; cd01994 146919003586 Ligand Binding Site; other site 146919003587 Clp protease ATP binding subunit; Region: clpC; CHL00095 146919003588 Clp amino terminal domain; Region: Clp_N; pfam02861 146919003589 Clp amino terminal domain; Region: Clp_N; pfam02861 146919003590 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003591 Walker A motif; other site 146919003592 ATP binding site; other site 146919003593 Walker B motif; other site 146919003594 arginine finger; other site 146919003595 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003596 Walker A motif; other site 146919003597 ATP binding site; other site 146919003598 Walker B motif; other site 146919003599 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 146919003600 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 146919003601 translocation protein TolB; Provisional; Region: tolB; PRK02889 146919003602 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 146919003603 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919003604 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 146919003605 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 146919003606 nucleoside/Zn binding site; other site 146919003607 dimer interface; other site 146919003608 catalytic motif; other site 146919003609 hypothetical protein; Provisional; Region: PRK08912 146919003610 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 146919003611 pyridoxal 5'-phosphate binding site; other site 146919003612 homodimer interface; other site 146919003613 catalytic residue; other site 146919003614 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 146919003615 active site 146919003616 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 146919003617 active site 146919003618 putative lithium-binding site; other site 146919003619 substrate binding site; other site 146919003620 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 146919003621 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 146919003622 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 146919003623 Predicted permease; Region: FtsX; cl11418 146919003624 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 146919003625 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 146919003626 Walker A/P-loop; other site 146919003627 ATP binding site; other site 146919003628 Q-loop/lid; other site 146919003629 ABC transporter signature motif; other site 146919003630 Walker B; other site 146919003631 D-loop; other site 146919003632 H-loop/switch region; other site 146919003633 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 146919003634 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 146919003635 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 146919003636 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919003637 Protein of unknown function DUF58; Region: DUF58; pfam01882 146919003638 Protein of unknown function DUF89; Region: DUF89; cl00680 146919003639 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 146919003640 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919003641 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 146919003642 active site 146919003643 ribonuclease III; Reviewed; Region: rnc; PRK00102 146919003644 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 146919003645 dimerization interface; other site 146919003646 active site 146919003647 metal-binding site 146919003648 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 146919003649 dsRNA binding site; other site 146919003650 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 146919003651 NAD(P) binding site; other site 146919003652 catalytic residues; other site 146919003653 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 146919003654 catalytic core; other site 146919003655 chorismate binding enzyme; Region: Chorismate_bind; cl10555 146919003656 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 146919003657 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 146919003658 dimer interface; other site 146919003659 tetramer interface; other site 146919003660 PYR/PP interface; other site 146919003661 TPP binding site; other site 146919003662 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 146919003663 TPP-binding site; other site 146919003664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919003665 UbiA prenyltransferase family; Region: UbiA; cl00337 146919003666 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 146919003667 o-succinylbenzoic acid (OSB) synthetase; Region: menC_gamma/gm+; TIGR01927 146919003668 metal-binding site 146919003669 substrate binding pocket; other site 146919003670 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919003671 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 146919003672 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 146919003673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003674 active site 146919003675 phosphorylation site 146919003676 intermolecular recognition site; other site 146919003677 dimerization interface; other site 146919003678 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 146919003679 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919003680 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 146919003681 anti sigma factor interaction site; other site 146919003682 regulatory phosphorylation site; other site 146919003683 Protein of unknown function (DUF1239); Region: DUF1239; pfam06835 146919003684 OstA-like protein; Region: OstA; cl00844 146919003685 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 146919003686 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 146919003687 Walker A/P-loop; other site 146919003688 ATP binding site; other site 146919003689 Q-loop/lid; other site 146919003690 ABC transporter signature motif; other site 146919003691 Walker B; other site 146919003692 D-loop; other site 146919003693 H-loop/switch region; other site 146919003694 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 146919003695 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 146919003696 glutaminase active site; other site 146919003697 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 146919003698 dimer interface; other site 146919003699 active site 146919003700 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 146919003701 dimer interface; other site 146919003702 active site 146919003703 peptide chain release factor 1; Validated; Region: prfA; PRK00591 146919003704 RF-1 domain; Region: RF-1; cl02875 146919003705 RF-1 domain; Region: RF-1; cl02875 146919003706 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 146919003707 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 146919003708 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 146919003709 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 146919003710 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 146919003711 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 146919003712 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003713 pyridoxal 5'-phosphate binding pocket; other site 146919003714 catalytic residue; other site 146919003715 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 146919003716 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003717 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 146919003718 Walker A motif; other site 146919003719 ATP binding site; other site 146919003720 Walker B motif; other site 146919003721 arginine finger; other site 146919003722 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 146919003723 DnaA box-binding interface; other site 146919003724 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 146919003725 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919003726 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919003727 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919003728 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 146919003729 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 146919003730 NADP binding site; other site 146919003731 dimer interface; other site 146919003732 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 146919003733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003734 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 146919003735 Peptidase family M1; Region: Peptidase_M1; pfam01433 146919003736 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 146919003737 IHF dimer interface; other site 146919003738 IHF - DNA interface; other site 146919003739 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 146919003740 TPR motif; other site 146919003741 binding surface 146919003742 Domain of unknown function (DUF477); Region: DUF477; cl01535 146919003743 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919003744 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003745 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 146919003746 Walker A motif; other site 146919003747 ATP binding site; other site 146919003748 Walker B motif; other site 146919003749 arginine finger; other site 146919003750 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919003751 Domain of unknown function DUF59; Region: DUF59; cl00941 146919003752 Fe-S metabolism associated domain; Region: SufE; cl00951 146919003753 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003754 pyridoxal 5'-phosphate binding pocket; other site 146919003755 catalytic residue; other site 146919003756 FeS assembly protein SufD, group 1; Region: sufD; TIGR01981 146919003757 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 146919003758 FeS assembly ATPase SufC; Region: sufC; TIGR01978 146919003759 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 146919003760 Walker A/P-loop; other site 146919003761 ATP binding site; other site 146919003762 Q-loop/lid; other site 146919003763 ABC transporter signature motif; other site 146919003764 Walker B; other site 146919003765 D-loop; other site 146919003766 H-loop/switch region; other site 146919003767 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 146919003768 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 146919003769 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 146919003770 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 146919003771 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 146919003772 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 146919003773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 146919003774 Coenzyme A binding pocket; other site 146919003775 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 146919003776 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 146919003777 HemN C-terminal region; Region: HemN_C; pfam06969 146919003778 NurA domain; Region: NurA; cl09134 146919003779 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical...; Region: CHS_like; cd00831 146919003780 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 146919003781 malonyl-CoA binding site; other site 146919003782 dimer interface; other site 146919003783 active site 146919003784 product binding site; other site 146919003785 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 146919003786 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 146919003787 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919003788 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 146919003789 metal ion-dependent adhesion site (MIDAS); other site 146919003790 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 146919003791 active site 146919003792 catalytic residues; other site 146919003793 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 146919003794 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 146919003795 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 146919003796 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 146919003797 active site 146919003798 catalytic motif; other site 146919003799 Zn binding site; other site 146919003800 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 146919003801 active site 146919003802 catalytic motif; other site 146919003803 Zn binding site; other site 146919003804 Outer membrane efflux protein; Region: OEP; pfam02321 146919003805 Outer membrane efflux protein; Region: OEP; pfam02321 146919003806 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 146919003807 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 146919003808 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919003809 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 146919003810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919003811 Walker A/P-loop; other site 146919003812 ATP binding site; other site 146919003813 Q-loop/lid; other site 146919003814 ABC transporter signature motif; other site 146919003815 Walker B; other site 146919003816 D-loop; other site 146919003817 H-loop/switch region; other site 146919003818 pantoate--beta-alanine ligase; Region: panC; TIGR00018 146919003819 Pantoate-beta-alanine ligase; Region: PanC; cd00560 146919003820 active site 146919003821 ATP-binding site; other site 146919003822 pantoate-binding site; other site 146919003823 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 146919003824 tetramerization interface; other site 146919003825 active site 146919003826 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 146919003827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003828 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 146919003829 PhoH-like protein; Region: PhoH; cl12134 146919003830 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 146919003831 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 146919003832 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 146919003833 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 146919003834 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919003835 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 146919003836 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 146919003837 kynureninase; Region: kynureninase; TIGR01814 146919003838 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003839 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919003840 pyridoxal 5'-phosphate binding pocket; other site 146919003841 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 146919003842 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 146919003843 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 146919003844 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 146919003845 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 146919003846 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 146919003847 tetramer interface; other site 146919003848 pyridoxal 5'-phosphate binding site; other site 146919003849 catalytic residue; other site 146919003850 domain; Region: GreA_GreB_N; pfam03449 146919003851 C-term; Region: GreA_GreB; pfam01272 146919003852 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 146919003853 dimer interface; other site 146919003854 catalytic triad; other site 146919003855 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 146919003856 hopene-associated glycosyltransferase HpnB; Region: HonB; TIGR03469 146919003857 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 146919003858 active site 146919003859 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 146919003860 putative acyl-acceptor binding pocket; other site 146919003861 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 146919003862 active site lid residues 146919003863 substrate binding pocket; other site 146919003864 catalytic residues; other site 146919003865 substrate-Mg2+ binding site; other site 146919003866 aspartate-rich region 1; other site 146919003867 aspartate-rich region 2; other site 146919003868 Protein of unknown function (DUF422); Region: DUF422; cl00991 146919003869 WbqC-like protein family; Region: WbqC; pfam08889 146919003870 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 146919003871 trimer interface; other site 146919003872 active site 146919003873 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 146919003874 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 146919003875 inhibitor site; inhibition site 146919003876 active site 146919003877 dimer interface; other site 146919003878 catalytic residue; other site 146919003879 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 146919003880 ZIP Zinc transporter; Region: Zip; pfam02535 146919003881 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 146919003882 oligomer interface; other site 146919003883 active site residues 146919003884 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919003885 hypothetical protein; Validated; Region: PRK07883 146919003886 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 146919003887 active site 146919003888 substrate binding site; other site 146919003889 catalytic site; other site 146919003890 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 146919003891 UvrB/uvrC motif; Region: UVR; pfam02151 146919003892 exopolyphosphatase; Region: exo_poly_only; TIGR03706 146919003893 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 146919003894 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 146919003895 Zn2+ binding site; other site 146919003896 Mg2+ binding site; other site 146919003897 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl00676 146919003898 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 146919003899 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 146919003900 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 146919003901 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919003902 NADH-Ubiquinone oxidoreductase (complex I), chain 5 C-terminus; Region: Oxidored_q1_C; pfam01010 146919003903 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 146919003904 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919003905 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 146919003906 aromatic arch; other site 146919003907 DCoH dimer interaction site; other site 146919003908 DCoH /HNF-1 dimer interaction site; other site 146919003909 DCoH tetramer interaction site; other site 146919003910 substrate binding site; other site 146919003911 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 146919003912 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919003913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919003914 active site 146919003915 phosphorylation site 146919003916 intermolecular recognition site; other site 146919003917 dimerization interface; other site 146919003918 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 146919003919 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919003920 Walker A motif; other site 146919003921 ATP binding site; other site 146919003922 Walker B motif; other site 146919003923 arginine finger; other site 146919003924 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919003925 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 146919003926 dimerization interface; other site 146919003927 Histidine kinase; Region: HisKA_2; cl06527 146919003928 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919003929 Protein kinase; unclassified specificity; Region: STYKc; smart00221 146919003930 Catalytic domain of Protein Kinases; Region: PKc; cd00180 146919003931 active site 146919003932 ATP binding site; other site 146919003933 substrate binding site; other site 146919003934 activation loop (A-loop); other site 146919003935 PEGA domain; Region: PEGA; pfam08308 146919003936 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 146919003937 NAD(P) binding site; other site 146919003938 catalytic residues; other site 146919003939 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 146919003940 Isochorismatase family; Region: Isochorismatase; pfam00857 146919003941 catalytic triad; other site 146919003942 metal-binding site 146919003943 conserved cis-peptide bond; other site 146919003944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 146919003945 Predicted kinase [General function prediction only]; Region: COG0645 146919003946 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 146919003947 active site 146919003948 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 146919003949 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 146919003950 substrate binding site; other site 146919003951 oxyanion hole (OAH) forming residues; other site 146919003952 trimer interface; other site 146919003953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003954 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 146919003955 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 146919003956 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 146919003957 dimer interface; other site 146919003958 active site 146919003959 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 146919003960 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 146919003961 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 146919003962 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919003963 glycerol-3-phosphate dehydrogenase; Region: PLN02464 146919003964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919003965 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 146919003966 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 146919003967 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919003968 dimer interface; other site 146919003969 conserved gate region; other site 146919003970 putative PBP binding loops; other site 146919003971 ABC-ATPase subunit interface; other site 146919003972 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919003973 conserved gate region; other site 146919003974 dimer interface; other site 146919003975 putative PBP binding loops; other site 146919003976 ABC-ATPase subunit interface; other site 146919003977 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 146919003978 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 146919003979 Walker A/P-loop; other site 146919003980 ATP binding site; other site 146919003981 Q-loop/lid; other site 146919003982 ABC transporter signature motif; other site 146919003983 Walker B; other site 146919003984 D-loop; other site 146919003985 H-loop/switch region; other site 146919003986 TOBE domain; Region: TOBE_2; cl01440 146919003987 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 146919003988 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 146919003989 Walker A/P-loop; other site 146919003990 ATP binding site; other site 146919003991 Q-loop/lid; other site 146919003992 ABC transporter signature motif; other site 146919003993 Walker B; other site 146919003994 D-loop; other site 146919003995 H-loop/switch region; other site 146919003996 glycerol kinase; Provisional; Region: glpK; PRK00047 146919003997 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 146919003998 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 146919003999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 146919004000 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 146919004001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 146919004002 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 146919004003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004004 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 146919004005 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-1,7-...; Region: FBPase; cd00354 146919004006 AMP binding site; other site 146919004007 metal-binding site 146919004008 active site 146919004009 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 146919004010 enoyl-CoA hydratase; Provisional; Region: PRK06142 146919004011 substrate binding site; other site 146919004012 oxyanion hole (OAH) forming residues; other site 146919004013 trimer interface; other site 146919004014 aconitate hydratase; Validated; Region: PRK07229 146919004015 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 146919004016 substrate binding site; other site 146919004017 ligand binding site; other site 146919004018 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 146919004019 substrate binding site; other site 146919004020 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 146919004021 aspartate-rich region 2; other site 146919004022 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 146919004023 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 146919004024 dimerization interface; other site 146919004025 putative ATP binding site; other site 146919004026 Domain of unknown function (DUF205); Region: DUF205; cl00410 146919004027 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 146919004028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004029 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 146919004030 Divergent AAA domain; Region: AAA_4; pfam04326 146919004031 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 146919004032 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 146919004033 CAP-like domain; other site 146919004034 active site 146919004035 primary dimer interface; other site 146919004036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919004037 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 146919004038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919004039 Mg2+ binding site; other site 146919004040 G-X-G motif; other site 146919004041 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 146919004042 anchoring element; other site 146919004043 dimer interface; other site 146919004044 ATP binding site; other site 146919004045 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 146919004046 active site 146919004047 putative metal-binding site; other site 146919004048 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 146919004049 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 146919004050 UMP phosphatase; Provisional; Region: PRK10444 146919004051 active site 146919004052 motif I; other site 146919004053 motif II; other site 146919004054 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 146919004055 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 146919004056 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 146919004057 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 146919004058 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 146919004059 RNA binding surface; other site 146919004060 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 146919004061 active site 146919004062 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 146919004063 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 146919004064 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 146919004065 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 146919004066 active site 146919004067 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 146919004068 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 146919004069 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 146919004070 active site 146919004071 IPP transferase; Region: IPPT; cl00403 146919004072 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 146919004073 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 146919004074 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 146919004075 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 146919004076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004077 Putative cyclase; Region: Cyclase; cl00814 146919004078 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 146919004079 Int/Topo IB signature motif; other site 146919004080 active site 146919004081 DNA binding site 146919004082 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 146919004083 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 146919004084 DNA binding site 146919004085 Int/Topo IB signature motif; other site 146919004086 active site 146919004087 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 146919004088 S-adenosylmethionine binding site; other site 146919004089 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 146919004090 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 146919004091 putative NAD(P) binding site; other site 146919004092 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 146919004093 dimerization interface; other site 146919004094 active site 146919004095 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 146919004096 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 146919004097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 146919004098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 146919004099 DNA binding site 146919004100 domain linker motif; other site 146919004101 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 146919004102 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 146919004103 ATP binding site; other site 146919004104 active site 146919004105 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 146919004106 substrate binding site; other site 146919004107 Predicted amidohydrolase [General function prediction only]; Region: COG0388 146919004108 Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Ph0642_like; cd07577 146919004109 putative active site; other site 146919004110 catalytic triad; other site 146919004111 putative tetramer interface; other site 146919004112 dimer interface; other site 146919004113 Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-...; Region: PRX_family; cd02971 146919004114 catalytic triad; other site 146919004115 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 146919004116 Predicted permease; Region: FtsX; cl11418 146919004117 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 146919004118 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 146919004119 Glutamate binding site; other site 146919004120 NAD binding site; other site 146919004121 catalytic residues; other site 146919004122 Predicted transcriptional regulators [Transcription]; Region: COG1725 146919004123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 146919004124 DNA binding site 146919004125 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 146919004126 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 146919004127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 146919004128 Zn2+ binding site; other site 146919004129 Mg2+ binding site; other site 146919004130 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 146919004131 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919004132 OsmC-like protein; Region: OsmC; cl00767 146919004133 Protein of unknown function (DUF833); Region: DUF833; cl01315 146919004134 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919004135 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 146919004136 active site 146919004137 dimer interface; other site 146919004138 metal-binding site 146919004139 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 146919004140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 146919004141 Family of unknown function (DUF490); Region: DUF490; pfam04357 146919004142 ribonuclease R; Region: RNase_R; TIGR02063 146919004143 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 146919004144 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 146919004145 RNB domain; Region: RNB; pfam00773 146919004146 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 146919004147 RNA binding site; other site 146919004148 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 146919004149 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 146919004150 active site 146919004151 recombinase A; Provisional; Region: recA; PRK09354 146919004152 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 146919004153 hexamer interface; other site 146919004154 Walker A motif; other site 146919004155 ATP binding site; other site 146919004156 Walker B motif; other site 146919004157 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 146919004158 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 146919004159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919004160 active site 146919004161 phosphorylation site 146919004162 intermolecular recognition site; other site 146919004163 dimerization interface; other site 146919004164 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 146919004165 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 146919004166 putative active site; other site 146919004167 catalytic site; other site 146919004168 putative metal binding site; other site 146919004169 oligomer interface; other site 146919004170 DNA polymerase IV; Validated; Region: PRK02406 146919004171 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 146919004172 active site 146919004173 DNA binding site 146919004174 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 146919004175 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 146919004176 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 146919004177 motif 1; other site 146919004178 active site 146919004179 motif 2; other site 146919004180 motif 3; other site 146919004181 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 146919004182 Alkyladenine DNA glycosylase (AAG), also known as 3-methyladenine DNA glycosylase, catalyzes the first step in base excision repair (BER) by cleaving damaged DNA bases within double-stranded DNA to produce an abasic site. AAG bends DNA by intercalating...; Region: AAG; cd00540 146919004183 active site 146919004184 Active site - hydrogen bonding network; active site 146919004185 Glycosylase - DNA interaction site; other site 146919004186 Active site - substrate stacking residues; active site 146919004187 Active site - intercalating residue; active site 146919004188 acetyl-CoA acetyltransferase; Provisional; Region: PRK05790 146919004189 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 146919004190 dimer interface; other site 146919004191 active site 146919004192 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 146919004193 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 146919004194 catalytic residues; other site 146919004195 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 146919004196 putative active site; other site 146919004197 Zn-binding site; other site 146919004198 MOFRL family; Region: MOFRL; cl01013 146919004199 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 146919004200 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 146919004201 thiamine phosphate binding site; other site 146919004202 active site 146919004203 pyrophosphate binding site; other site 146919004204 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 146919004205 active site 146919004206 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 146919004207 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 146919004208 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 146919004209 domain interfaces; other site 146919004210 active site 146919004211 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 146919004212 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 146919004213 tRNA; other site 146919004214 putative tRNA binding site; other site 146919004215 putative NADP binding site; other site 146919004216 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 146919004217 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 146919004218 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 146919004219 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 146919004220 active site 146919004221 HIGH motif; other site 146919004222 KMSKS motif; other site 146919004223 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 146919004224 tRNA binding surface; other site 146919004225 anticodon binding site; other site 146919004226 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 146919004227 dimer interface; other site 146919004228 putative tRNA-binding site; other site 146919004229 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 146919004230 4-fold oligomerization interface; other site 146919004231 putative active site pocket; other site 146919004232 metal binding residues; metal-binding site 146919004233 3-fold/trimer interface; other site 146919004234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004235 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 146919004236 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 146919004237 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 146919004238 putative active site; other site 146919004239 oxyanion strand; other site 146919004240 catalytic triad; other site 146919004241 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 146919004242 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 146919004243 catalytic residues; other site 146919004244 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 146919004245 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 146919004246 substrate binding site; other site 146919004247 glutamase interaction surface; other site 146919004248 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 146919004249 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 146919004250 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 146919004251 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 146919004252 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 146919004253 malate dehydrogenase; Reviewed; Region: PRK06223 146919004254 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 146919004255 NAD(P) binding site; other site 146919004256 dimer interface; other site 146919004257 tetramer (dimer of dimers) interface; other site 146919004258 substrate binding site; other site 146919004259 Cation efflux family; Region: Cation_efflux; cl00316 146919004260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919004261 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 146919004262 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919004263 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 146919004264 active site 146919004265 catalytic tetrad; other site 146919004266 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 146919004267 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919004268 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 146919004269 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 146919004270 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 146919004271 UvrB/uvrC motif; Region: UVR; pfam02151 146919004272 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 146919004273 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919004274 large tegument protein UL36; Provisional; Region: PHA03245 146919004275 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 146919004276 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 146919004277 binding surface 146919004278 TPR motif; other site 146919004279 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 146919004280 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 146919004281 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 146919004282 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...; Region: OM_channels; cl00284 146919004283 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cl00257 146919004284 IHF - DNA interface; other site 146919004285 IHF dimer interface; other site 146919004286 Sporulation related domain; Region: SPOR; cl10051 146919004287 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 146919004288 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 146919004289 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 146919004290 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 146919004291 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919004292 Walker A motif; other site 146919004293 ATP binding site; other site 146919004294 Walker B motif; other site 146919004295 arginine finger; other site 146919004296 Multicopper oxidase; Region: Cu-oxidase; cl11412 146919004297 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 146919004298 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 146919004299 S-adenosylmethionine binding site; other site 146919004300 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 146919004301 metal-binding site 146919004302 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 146919004303 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 146919004304 metal-binding site 146919004305 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 146919004306 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919004307 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919004308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004309 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 146919004310 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 146919004311 SUA5 domain; Region: SUA5; pfam03481 146919004312 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 146919004313 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 146919004314 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 146919004315 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 146919004316 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 146919004317 FOG: CBS domain [General function prediction only]; Region: COG0517 146919004318 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 146919004319 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 146919004320 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 146919004321 binding surface 146919004322 TPR motif; other site 146919004323 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 146919004324 binding surface 146919004325 TPR motif; other site 146919004326 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 146919004327 binding surface 146919004328 TPR motif; other site 146919004329 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 146919004330 Peptidase family M23; Region: Peptidase_M23; pfam01551 146919004331 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 146919004332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004334 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 146919004335 Peptidase family M1; Region: Peptidase_M1; pfam01433 146919004336 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 146919004337 HSP70 interaction site; other site 146919004338 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 146919004339 MutS domain I; Region: MutS_I; pfam01624 146919004340 MutS domain II; Region: MutS_II; pfam05188 146919004341 MutS domain III; Region: MutS_III; cl04977 146919004342 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 146919004343 Walker A/P-loop; other site 146919004344 ATP binding site; other site 146919004345 Q-loop/lid; other site 146919004346 ABC transporter signature motif; other site 146919004347 Walker B; other site 146919004348 D-loop; other site 146919004349 H-loop/switch region; other site 146919004350 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 146919004351 Ligand Binding Site; other site 146919004352 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 146919004353 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 146919004354 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 146919004355 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 146919004356 protein binding site; other site 146919004357 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 146919004358 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 146919004359 dimer interface; other site 146919004360 active site 146919004361 metal-binding site 146919004362 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919004363 prephenate dehydrogenase; Validated; Region: PRK06545 146919004364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004365 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 146919004366 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 146919004367 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 146919004368 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 146919004369 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 146919004370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919004371 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 146919004372 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 146919004373 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919004374 AIR carboxylase; Region: AIRC; cl00310 146919004375 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 146919004376 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 146919004377 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 146919004378 active site 146919004379 HIGH motif; other site 146919004380 dimer interface; other site 146919004381 KMSKS motif; other site 146919004382 SmpB protein; Region: SmpB; cl00482 146919004383 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919004384 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 146919004385 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 146919004386 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 146919004387 RimM N-terminal domain; Region: RimM; pfam01782 146919004388 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 146919004389 signal recognition particle protein; Region: ffh; TIGR00959 146919004390 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 146919004391 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 146919004392 P loop; other site 146919004393 GTP binding site; other site 146919004394 Signal peptide binding domain; Region: SRP_SPB; pfam02978 146919004395 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 146919004396 PspC domain; Region: PspC; cl00864 146919004397 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 146919004398 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 146919004399 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 146919004400 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 146919004401 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 146919004402 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 146919004403 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 146919004404 DNA polymerase I; Provisional; Region: PRK05755 146919004405 metal binding site I; metal-binding site 146919004406 putative ssDNA interaction site; other site 146919004407 metal binding site II; metal-binding site 146919004408 The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E.coli-like Polymerase I (pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-...; Region: DNA_polA_I_Ecoli_like_exo; cd06139 146919004409 active site 146919004410 catalytic site; other site 146919004411 substrate binding site; other site 146919004412 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 146919004413 active site 146919004414 DNA binding site 146919004415 catalytic site; other site 146919004416 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 146919004417 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 146919004418 motif II; other site 146919004419 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 146919004420 sensory histidine kinase AtoS; Provisional; Region: PRK11360 146919004421 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 146919004422 PAS fold; Region: PAS_4; pfam08448 146919004423 putative sensor protein; Provisional; Region: PRK09776 146919004424 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 146919004425 putative active site; other site 146919004426 heme pocket; other site 146919004427 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919004428 dimer interface; other site 146919004429 phosphorylation site 146919004430 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919004431 ATP binding site; other site 146919004432 Mg2+ binding site; other site 146919004433 G-X-G motif; other site 146919004434 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 146919004435 Formyl transferase; Region: Formyl_trans_N; cl00395 146919004436 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 146919004437 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 146919004438 purine monophosphate binding site; other site 146919004439 dimer interface; other site 146919004440 putative catalytic residues; other site 146919004441 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 146919004442 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 146919004443 rod shape-determining protein MreB; Provisional; Region: PRK13927 146919004444 Cell division protein FtsA; Region: FtsA; cl11496 146919004445 rod shape-determining protein MreC; Region: MreC; pfam04085 146919004446 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 146919004447 active site 146919004448 HslU subunit interaction site; other site 146919004449 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 146919004450 putative metal binding site; other site 146919004451 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 146919004452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919004453 Walker A motif; other site 146919004454 ATP binding site; other site 146919004455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919004456 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 146919004457 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919004458 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 146919004459 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 146919004460 trimer interface; other site 146919004461 putative metal binding site; other site 146919004462 Domain of unknown function DUF20; Region: UPF0118; cl00465 146919004463 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 146919004464 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 146919004465 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 146919004466 homotrimer interaction site; other site 146919004467 zinc binding site; other site 146919004468 CDP-binding sites; other site 146919004469 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 146919004470 substrate binding site; other site 146919004471 dimer interface; other site 146919004472 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 146919004473 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 146919004474 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 146919004475 cobalamin binding residues; other site 146919004476 putative BtuC binding residues; other site 146919004477 dimer interface; other site 146919004478 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 146919004479 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 146919004480 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 146919004481 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 146919004482 putative active site; other site 146919004483 putative NTP binding site; other site 146919004484 putative nucleic acid binding site; other site 146919004485 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 146919004486 potential frameshift: common BLAST hit: gi|83816497|ref|YP_445776.1| anion permease 146919004487 Phosphate transporter family; Region: PHO4; cl00396 146919004488 Phosphate transporter family; Region: PHO4; cl00396 146919004489 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 146919004490 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 146919004491 G1 box; other site 146919004492 putative GEF interaction site; other site 146919004493 GTP/Mg2+ binding site; other site 146919004494 Switch I region; other site 146919004495 G2 box; other site 146919004496 G3 box; other site 146919004497 Switch II region; other site 146919004498 G4 box; other site 146919004499 G5 box; other site 146919004500 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 146919004501 Predicted membrane protein [Function unknown]; Region: COG3174 146919004502 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 146919004503 putative active site; other site 146919004504 Vitamin K epoxide reductase family; Region: VKOR; cl01729 146919004505 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919004506 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 146919004507 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 146919004508 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 146919004509 chorismate binding enzyme; Region: Chorismate_bind; cl10555 146919004510 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 146919004511 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 146919004512 active site 146919004513 HIGH motif; other site 146919004514 dimer interface; other site 146919004515 KMSKS motif; other site 146919004516 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 146919004517 Glutamine amidotransferase class-I; Region: GATase; pfam00117 146919004518 glutamine binding; other site 146919004519 catalytic triad; other site 146919004520 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 146919004521 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 146919004522 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 146919004523 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 146919004524 active site 146919004525 ribulose/triose binding site; other site 146919004526 phosphate binding site; other site 146919004527 substrate (anthranilate) binding pocket; other site 146919004528 product (indole) binding pocket; other site 146919004529 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 146919004530 active site 146919004531 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 146919004532 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 146919004533 pyridoxal 5'-phosphate binding site; other site 146919004534 catalytic residue; other site 146919004535 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 146919004536 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are...; Region: Tryptophan_synthase_alpha; cd04724 146919004537 substrate binding site; other site 146919004538 active site 146919004539 catalytic residues; other site 146919004540 heterodimer interface; other site 146919004541 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 146919004542 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 146919004543 ATP binding site; other site 146919004544 putative Mg++ binding site; other site 146919004545 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 146919004546 nucleotide binding region; other site 146919004547 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 146919004548 ATP-binding site; other site 146919004549 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 146919004550 EamA-like transporter family; Region: EamA; cl01037 146919004551 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 146919004552 isocitrate dehydrogenase; Validated; Region: PRK06451 146919004553 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 146919004554 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 146919004555 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 146919004556 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 146919004557 hypothetical protein; Provisional; Region: PRK08609 146919004558 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 146919004559 metal binding triad; metal-binding site 146919004560 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 146919004561 Penicillin amidase; Region: Penicil_amidase; pfam01804 146919004562 acetyl-CoA synthetase; Provisional; Region: PRK00174 146919004563 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 146919004564 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919004565 aminodeoxychorismate synthase; Provisional; Region: PRK07508 146919004566 chorismate binding enzyme; Region: Chorismate_bind; cl10555 146919004567 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 146919004568 substrate-cofactor binding pocket; other site 146919004569 homodimer interface; other site 146919004570 pyridoxal 5'-phosphate binding site; other site 146919004571 catalytic residue; other site 146919004572 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 146919004573 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 146919004574 putative NAD(P) binding site; other site 146919004575 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 146919004576 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 146919004577 FMN binding site; other site 146919004578 active site 146919004579 substrate binding site; other site 146919004580 catalytic residue; other site 146919004581 Cupin domain; Region: Cupin_2; cl09118 146919004582 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...; Region: MM_CoA_mut_B12_BD; cd02071 146919004583 B12 binding site; other site 146919004584 cobalt ligand; other site 146919004585 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919004586 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 146919004587 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 146919004588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004589 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 146919004590 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 146919004591 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 146919004592 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919004593 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 146919004594 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl00676 146919004595 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 146919004596 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 146919004597 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919004598 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl00676 146919004599 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 146919004600 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 146919004601 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 146919004602 acyl-CoA oxidase; Region: PLN02636 146919004603 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 146919004604 active site 146919004605 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 146919004606 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...; Region: URO-D; cd00717 146919004607 substrate binding site; other site 146919004608 active site 146919004609 Dienelactone hydrolase family; Region: DLH; pfam01738 146919004610 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 146919004611 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919004612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919004613 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 146919004614 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919004615 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919004616 DNA binding residues 146919004617 tryptophanase; Provisional; Region: tnaA; PRK13238 146919004618 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 146919004619 substrate binding site; other site 146919004620 tetramer interface; other site 146919004621 catalytic residue; other site 146919004622 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 146919004623 active site/substrate binding site 146919004624 tetramer interface; other site 146919004625 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919004626 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 146919004627 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 146919004628 Ligand Binding Site; other site 146919004629 B3/4 domain; Region: B3_4; cl11458 146919004630 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 146919004631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919004632 ATP binding site; other site 146919004633 Mg2+ binding site; other site 146919004634 G-X-G motif; other site 146919004635 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 146919004636 ATP binding site; other site 146919004637 MutL C terminal dimerization domain; Region: MutL_C; cl07336 146919004638 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 146919004639 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 146919004640 MatE; Region: MatE; pfam01554 146919004641 MatE; Region: MatE; pfam01554 146919004642 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 146919004643 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919004644 ATP binding site; other site 146919004645 G-X-G motif; other site 146919004646 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 146919004647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919004648 active site 146919004649 phosphorylation site 146919004650 intermolecular recognition site; other site 146919004651 dimerization interface; other site 146919004652 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919004653 Walker A motif; other site 146919004654 ATP binding site; other site 146919004655 Walker B motif; other site 146919004656 arginine finger; other site 146919004657 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919004658 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919004659 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 146919004660 Predicted permease; Region: FtsX; cl11418 146919004661 Predicted permease; Region: FtsX; cl11418 146919004662 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 146919004663 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 146919004664 Walker A/P-loop; other site 146919004665 ATP binding site; other site 146919004666 Q-loop/lid; other site 146919004667 ABC transporter signature motif; other site 146919004668 Walker B; other site 146919004669 D-loop; other site 146919004670 H-loop/switch region; other site 146919004671 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 146919004672 Predicted permease; Region: FtsX; cl11418 146919004673 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 146919004674 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 146919004675 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 146919004676 conserved cys residue; other site 146919004677 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 146919004678 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 146919004679 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 146919004680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004681 Uncharacterized conserved protein [Function unknown]; Region: COG3268 146919004682 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cd00596 146919004683 active site 146919004684 Zn-binding site; other site 146919004685 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 146919004686 DNA binding site 146919004687 RNA-binding motif; other site 146919004688 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 146919004689 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 146919004690 substrate binding site; other site 146919004691 nucleotide binding site; other site 146919004692 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 146919004693 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 146919004694 active site 146919004695 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 146919004696 active site 146919004697 dimer interface; other site 146919004698 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 146919004699 Ligand Binding Site; other site 146919004700 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 146919004701 Ligand Binding Site; other site 146919004702 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 146919004703 Ligand Binding Site; other site 146919004704 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 146919004705 Ligand Binding Site; other site 146919004706 Major Facilitator Superfamily; Region: MFS_1; pfam07690 146919004707 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 146919004708 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 146919004709 putative substrate translocation pore; other site 146919004710 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 146919004711 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 146919004712 inhibitor-cofactor binding pocket; inhibition site 146919004713 pyridoxal 5'-phosphate binding site; other site 146919004714 catalytic residue; other site 146919004715 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 146919004716 S-adenosylmethionine binding site; other site 146919004717 Ferrochelatase; Region: Ferrochelatase; pfam00762 146919004718 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 146919004719 C-terminal domain interface; other site 146919004720 active site 146919004721 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 146919004722 active site 146919004723 N-terminal domain interface; other site 146919004724 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 146919004725 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 146919004726 active site 146919004727 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 146919004728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004729 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 146919004730 nucleotide binding site; other site 146919004731 substrate binding site; other site 146919004732 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 146919004733 Nucleoside recognition; Region: Gate; cl00486 146919004734 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 146919004735 hypothetical protein; Provisional; Region: PRK09133 146919004736 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919004737 photolyase PhrII; Region: phr2; TIGR00591 146919004738 DNA photolyase; Region: DNA_photolyase; pfam00875 146919004739 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 146919004740 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 146919004741 Integral membrane protein DUF92; Region: DUF92; cl00793 146919004742 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 146919004743 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 146919004744 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 146919004745 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 146919004746 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 146919004747 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 146919004748 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 146919004749 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 146919004750 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 146919004751 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 146919004752 DNA binding site 146919004753 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 146919004754 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 146919004755 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 146919004756 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 146919004757 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 146919004758 RPB11 interaction site; other site 146919004759 RPB12 interaction site; other site 146919004760 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 146919004761 RPB3 interaction site; other site 146919004762 RPB1 interaction site; other site 146919004763 RPB11 interaction site; other site 146919004764 RPB10 interaction site; other site 146919004765 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 146919004766 core dimer interface; other site 146919004767 peripheral dimer interface; other site 146919004768 L10 interface; other site 146919004769 L11 interface; other site 146919004770 putative EF-Tu interaction site; other site 146919004771 putative EF-G interaction site; other site 146919004772 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 146919004773 23S rRNA interface; other site 146919004774 Interface with L7/L12 ribosomal proteins; other site 146919004775 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 146919004776 mRNA/rRNA interface; other site 146919004777 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 146919004778 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 146919004779 23S rRNA interface; other site 146919004780 L7/L12 interface; other site 146919004781 putative thiostrepton binding site; other site 146919004782 L25 interface; other site 146919004783 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 146919004784 Transcription termination factor nusG; Region: NusG; cl02766 146919004785 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 146919004786 elongation factor Tu; Reviewed; Region: PRK00049 146919004787 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 146919004788 G1 box; other site 146919004789 GEF interaction site; other site 146919004790 GTP/Mg2+ binding site; other site 146919004791 Switch I region; other site 146919004792 G2 box; other site 146919004793 G3 box; other site 146919004794 Switch II region; other site 146919004795 G4 box; other site 146919004796 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 146919004797 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 146919004798 Antibiotic Binding Site; other site 146919004799 potential frameshift: common BLAST hit: gi|83815489|ref|YP_445884.1| putative sodium-dependent transporter 146919004800 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919004801 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919004802 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 146919004803 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 146919004804 ScpA/B protein; Region: ScpA_ScpB; cl00598 146919004805 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 146919004806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919004807 polyribonucleotide nucleotidyltransferase; Region: polynuc_phos; TIGR03591 146919004808 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 146919004809 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 146919004810 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 146919004811 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 146919004812 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 146919004813 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 146919004814 putative nucleic acid binding region; other site 146919004815 G-X-X-G motif; other site 146919004816 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 146919004817 RNA binding site; other site 146919004818 domain interface; other site 146919004819 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 146919004820 16S/18S rRNA binding site; other site 146919004821 S13e-L30e interaction site; other site 146919004822 25S rRNA binding site; other site 146919004823 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 146919004824 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 146919004825 active site 146919004826 Riboflavin kinase; Region: Flavokinase; pfam01687 146919004827 Ribosome-binding factor A; Region: RBFA; cl00542 146919004828 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 146919004829 translation initiation factor IF-2; Region: IF-2; TIGR00487 146919004830 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 146919004831 G1 box; other site 146919004832 putative GEF interaction site; other site 146919004833 GTP/Mg2+ binding site; other site 146919004834 Switch I region; other site 146919004835 G2 box; other site 146919004836 G3 box; other site 146919004837 Switch II region; other site 146919004838 G4 box; other site 146919004839 G5 box; other site 146919004840 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 146919004841 Translation-initiation factor 2; Region: IF-2; pfam11987 146919004842 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 146919004843 transcription termination factor NusA; Region: NusA; TIGR01953 146919004844 NusA N-terminal domain; Region: NusA_N; pfam08529 146919004845 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 146919004846 RNA binding site; other site 146919004847 homodimer interface; other site 146919004848 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 146919004849 G-X-X-G motif; other site 146919004850 hypothetical protein; Reviewed; Region: PRK00092 146919004851 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 146919004852 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 146919004853 Sm1 motif; other site 146919004854 D3 - B interaction site; other site 146919004855 D1 - D2 interaction site; other site 146919004856 Hfq - Hfq interaction site; other site 146919004857 RNA binding pocket; other site 146919004858 Sm2 motif; other site 146919004859 peptide chain release factor 2; Region: prfB; TIGR00020 146919004860 RF-1 domain; Region: RF-1; cl02875 146919004861 RF-1 domain; Region: RF-1; cl02875 146919004862 aspartate aminotransferase; Provisional; Region: PRK06108 146919004863 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 146919004864 pyridoxal 5'-phosphate binding site; other site 146919004865 homodimer interface; other site 146919004866 catalytic residue; other site 146919004867 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like; Region: ALDH_AldH-CAJ73105; cd07131 146919004868 NAD binding site; other site 146919004869 catalytic residues; other site 146919004870 Protein of unknown function (DUF434); Region: DUF434; cl04460 146919004871 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 146919004872 Malic enzyme, N-terminal domain; Region: malic; pfam00390 146919004873 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 146919004874 putative NAD(P) binding site; other site 146919004875 transcription termination factor NusA; Region: NusA; TIGR01953 146919004876 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 146919004877 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 146919004878 RNA binding site; other site 146919004879 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 146919004880 RNA binding site; other site 146919004881 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 146919004882 RNA binding site; other site 146919004883 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 146919004884 RNA binding site; other site 146919004885 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 146919004886 RNA binding site; other site 146919004887 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 146919004888 cytidylate kinase; Provisional; Region: cmk; PRK00023 146919004889 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 146919004890 CMP-binding site; other site 146919004891 The sites determining sugar specificity; other site 146919004892 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 146919004893 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 146919004894 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 146919004895 heterodimer interface; other site 146919004896 substrate interaction site; other site 146919004897 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 146919004898 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 146919004899 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...; Region: MM_CoA_mutase_alpha_like; cd03679 146919004900 active site 146919004901 substrate binding site; other site 146919004902 coenzyme B12 binding site; other site 146919004903 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...; Region: MM_CoA_mut_B12_BD; cd02071 146919004904 B12 binding site; other site 146919004905 cobalt ligand; other site 146919004906 arginine/ornithine transport system ATPase; Provisional; Region: PRK09435 146919004907 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 146919004908 Walker A; other site 146919004909 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919004910 glutaminyl-tRNA synthetase; Provisional; Region: PRK14703 146919004911 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919004912 HIGH motif; other site 146919004913 active site 146919004914 nucleotide binding site; other site 146919004915 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 146919004916 KMSKS motif; other site 146919004917 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 146919004918 GatB domain; Region: GatB_Yqey; cl11497 146919004919 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 146919004920 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 146919004921 active site 146919004922 HIGH motif; other site 146919004923 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 146919004924 KMSKS motif; other site 146919004925 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919004926 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919004927 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919004928 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 146919004929 SurA N-terminal domain; Region: SurA_N; pfam09312 146919004930 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919004931 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919004932 MoxR-like ATPases [General function prediction only]; Region: COG0714 146919004933 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919004934 Walker A motif; other site 146919004935 ATP binding site; other site 146919004936 Walker B motif; other site 146919004937 arginine finger; other site 146919004938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919004939 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 146919004940 FAD binding pocket; other site 146919004941 FAD binding motif; other site 146919004942 phosphate binding motif; other site 146919004943 beta-alpha-beta structure motif; other site 146919004944 NAD binding pocket; other site 146919004945 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 146919004946 tellurium resistance terB-like protein; Region: terB_like; cd07177 146919004947 metal-binding site 146919004948 tellurium resistance terB-like protein; Region: terB_like; cd07177 146919004949 metal-binding site 146919004950 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 146919004951 proline aminopeptidase P II; Provisional; Region: PRK10879 146919004952 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 146919004953 active site 146919004954 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 146919004955 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919004956 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919004957 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 146919004958 Domain of unknown function DUF83; Region: Cas_Cas4; cl00641 146919004959 Staphylococcal nuclease homologues; Region: SNc; smart00318 146919004960 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 146919004961 Catalytic site; other site 146919004962 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 146919004963 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 146919004964 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 146919004965 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 146919004966 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 146919004967 SelR domain; Region: SelR; cl00369 146919004968 FtsH Extracellular; Region: FtsH_ext; pfam06480 146919004969 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 146919004970 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919004971 Walker B motif; other site 146919004972 arginine finger; other site 146919004973 Peptidase family M41; Region: Peptidase_M41; pfam01434 146919004974 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 146919004975 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 146919004976 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919004977 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 146919004978 Predicted transcriptional regulators [Transcription]; Region: COG1510 146919004979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919004980 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; cl00834 146919004981 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 146919004982 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919004983 dimer interface; other site 146919004984 phosphorylation site 146919004985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919004986 ATP binding site; other site 146919004987 Mg2+ binding site; other site 146919004988 G-X-G motif; other site 146919004989 adenylosuccinate synthetase; Provisional; Region: PRK01117 146919004990 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 146919004991 GDP-binding site; other site 146919004992 ACT binding site; other site 146919004993 IMP binding site; other site 146919004994 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 146919004995 Protein export membrane protein; Region: SecD_SecF; cl14618 146919004996 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 146919004997 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 146919004998 Protein export membrane protein; Region: SecD_SecF; cl14618 146919004999 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 146919005000 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919005001 Protein of unknown function (DUF541); Region: SIMPL; cl01077 146919005002 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 146919005003 putative dimer interface; other site 146919005004 putative anticodon binding site; other site 146919005005 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 146919005006 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 146919005007 motif 1; other site 146919005008 dimer interface; other site 146919005009 active site 146919005010 motif 2; other site 146919005011 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 146919005012 active site 146919005013 motif 3; other site 146919005014 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 146919005015 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 146919005016 active site 146919005017 substrate-binding site; other site 146919005018 metal-binding site 146919005019 ATP binding site; other site 146919005020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 146919005021 Coenzyme A binding pocket; other site 146919005022 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 146919005023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005024 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 146919005025 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 146919005026 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 146919005027 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 146919005028 homodimer interface; other site 146919005029 NADP binding site; other site 146919005030 substrate binding site; other site 146919005031 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919005032 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 146919005033 Survival protein SurE; Region: SurE; cl00448 146919005034 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 146919005035 oligomerization interface; other site 146919005036 active site 146919005037 metal-binding site 146919005038 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 146919005039 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 146919005040 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919005041 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919005042 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919005043 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 146919005044 Surface antigen; Region: Bac_surface_Ag; cl03097 146919005045 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 146919005046 catalytic residue; other site 146919005047 putative FPP diphosphate binding site; other site 146919005048 putative FPP binding hydrophobic cleft; other site 146919005049 dimer interface; other site 146919005050 putative IPP diphosphate binding site; other site 146919005051 RIP metalloprotease RseP; Region: TIGR00054 146919005052 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 146919005053 active site 146919005054 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 146919005055 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 146919005056 protein binding site; other site 146919005057 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 146919005058 putative substrate binding region; other site 146919005059 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 146919005060 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 146919005061 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 146919005062 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 146919005063 binding surface 146919005064 TPR motif; other site 146919005065 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 146919005066 binding surface 146919005067 TPR motif; other site 146919005068 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 146919005069 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 146919005070 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...; Region: BFIT_BACH; cd03442 146919005071 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 146919005072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005074 seryl-tRNA synthetase; Provisional; Region: PRK05431 146919005075 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 146919005076 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 146919005077 dimer interface; other site 146919005078 active site 146919005079 motif 1; other site 146919005080 motif 2; other site 146919005081 motif 3; other site 146919005082 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-1,7-...; Region: FBPase; cd00354 146919005083 AMP binding site; other site 146919005084 metal-binding site 146919005085 active site 146919005086 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 146919005087 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 146919005088 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919005089 pyridoxal 5'-phosphate binding pocket; other site 146919005090 catalytic residue; other site 146919005091 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 146919005092 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 146919005093 hinge; other site 146919005094 active site 146919005095 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 146919005096 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 146919005097 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 146919005098 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919005099 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 146919005100 Surface antigen; Region: Bac_surface_Ag; cl03097 146919005101 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 146919005102 aconitate hydratase; Validated; Region: PRK09277 146919005103 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 146919005104 substrate binding site; other site 146919005105 ligand binding site; other site 146919005106 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 146919005107 substrate binding site; other site 146919005108 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 146919005109 DNA binding residues 146919005110 exonuclease SbcC; Region: sbcc; TIGR00618 146919005111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005112 Walker A/P-loop; other site 146919005113 ATP binding site; other site 146919005114 Q-loop/lid; other site 146919005115 chromosome segregation protein; Provisional; Region: PRK02224 146919005116 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 146919005117 ABC transporter signature motif; other site 146919005118 Walker B; other site 146919005119 D-loop; other site 146919005120 H-loop/switch region; other site 146919005121 GatB domain; Region: GatB_Yqey; cl11497 146919005122 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 146919005123 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 146919005124 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 146919005125 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 146919005126 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 146919005127 dimerization domain swap beta strand; other site 146919005128 regulatory protein interface; other site 146919005129 active site 146919005130 regulatory phosphorylation site; other site 146919005131 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 146919005132 substrate binding pocket; other site 146919005133 chain length determination region; other site 146919005134 substrate-Mg2+ binding site; other site 146919005135 catalytic residues; other site 146919005136 aspartate-rich region 1; other site 146919005137 active site lid residues 146919005138 aspartate-rich region 2; other site 146919005139 adenylate kinase; Reviewed; Region: adk; PRK00279 146919005140 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 146919005141 AMP-binding site; other site 146919005142 ATP-AMP (Ap5A)-binding site; other site 146919005143 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 146919005144 LytB protein; Region: LYTB; cl00507 146919005145 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 146919005146 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919005147 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 146919005148 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919005149 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 146919005150 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 146919005151 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919005152 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 146919005153 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919005154 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 146919005155 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 146919005156 N-terminal plug; other site 146919005157 ligand-binding site; other site 146919005158 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 146919005159 nudix motif; other site 146919005160 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 146919005161 nudix motif; other site 146919005162 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 146919005163 motif II; other site 146919005164 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 146919005165 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 146919005166 Peptidase family M1; Region: Peptidase_M1; pfam01433 146919005167 aminopeptidase N; Provisional; Region: pepN; PRK14015 146919005168 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 146919005169 dimer interface; other site 146919005170 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 146919005171 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 146919005172 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 146919005173 active site 146919005174 metal-binding site 146919005175 nudix motif; other site 146919005176 Protein of unknown function, DUF547; Region: DUF547; pfam04784 146919005177 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 146919005178 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 146919005179 GatB domain; Region: GatB_Yqey; cl11497 146919005180 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919005181 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919005182 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 146919005183 substrate binding site; other site 146919005184 dimer interface; other site 146919005185 catalytic triad; other site 146919005186 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 146919005187 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly...; Region: DhnA; cd00958 146919005188 putative active site; other site 146919005189 catalytic residue; other site 146919005190 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919005191 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 146919005192 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919005193 Walker A motif; other site 146919005194 ATP binding site; other site 146919005195 Walker B motif; other site 146919005196 arginine finger; other site 146919005197 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919005198 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919005199 active site 146919005200 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919005201 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 146919005202 active site 146919005203 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919005204 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919005205 active site 146919005206 Quinolinate synthetase A protein; Region: NadA; cl00420 146919005207 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 146919005208 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 146919005209 dimerization interface; other site 146919005210 active site 146919005211 L-aspartate oxidase; Provisional; Region: PRK08071 146919005212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005213 domain; Region: Succ_DH_flav_C; pfam02910 146919005214 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 146919005215 Endonuclease I; Region: Endonuclease_1; cl01003 146919005216 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 146919005217 generic binding surface I; other site 146919005218 generic binding surface II; other site 146919005219 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 146919005220 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...; Region: OM_channels; cl00284 146919005221 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919005222 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 146919005223 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 146919005224 Protein of unknown function (DUF1614); Region: DUF1614; cl01694 146919005225 Integrase core domain; Region: rve; cl01316 146919005226 Predicted amidohydrolase [General function prediction only]; Region: COG0388 146919005227 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 146919005228 active site 146919005229 catalytic triad; other site 146919005230 dimer interface; other site 146919005231 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 146919005232 Uncharacterized conserved protein [Function unknown]; Region: COG5276 146919005233 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 146919005234 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 146919005235 ligand binding site; other site 146919005236 oligomer interface; other site 146919005237 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 rate-...; Region: LbH_G1P_AT_C; cd04651 146919005238 dimer interface; other site 146919005239 N-terminal domain interface; other site 146919005240 sulfate 1 binding site; other site 146919005241 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 146919005242 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 146919005243 Protein of unknown function (DUF433); Region: DUF433; cl01030 146919005244 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 146919005245 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 146919005246 homodimer interface; other site 146919005247 homotetramer interface; other site 146919005248 active site pocket 146919005249 cleavage site 146919005250 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 146919005251 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919005252 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919005253 DNA binding residues 146919005254 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cd00110 146919005255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919005256 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 146919005257 active site 146919005258 metal-binding site 146919005259 homotetramer interface; other site 146919005260 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat...; Region: LbH_unknown; cd05635 146919005261 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-...; Region: Transaldolase_FSA; cd00956 146919005262 active site 146919005263 intersubunit interactions; other site 146919005264 catalytic residue; other site 146919005265 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 146919005266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919005267 Beta-Casp domain; Region: Beta-Casp; pfam10996 146919005268 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 146919005269 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 146919005270 FAD binding domain; Region: FAD_binding_4; cl10516 146919005271 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 146919005272 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919005273 C-terminal peptidase (prc); Region: prc; TIGR00225 146919005274 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 146919005275 protein binding site; other site 146919005276 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 146919005277 Catalytic dyad; other site 146919005278 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 146919005279 S-adenosylmethionine binding site; other site 146919005280 Uncharacterized conserved protein [Function unknown]; Region: COG1624 146919005281 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 146919005282 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 146919005283 substrate binding pocket; other site 146919005284 dimer interface; other site 146919005285 inhibitor binding site; inhibition site 146919005286 GH3 auxin-responsive promoter; Region: GH3; cl04006 146919005287 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 146919005288 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 146919005289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919005290 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 146919005291 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919005292 DNA binding residues 146919005293 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 146919005294 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 146919005295 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 146919005296 Predicted permease; Region: FtsX; cl11418 146919005297 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 146919005298 Prephenate dehydratase; Region: PDT; pfam00800 146919005299 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 146919005300 putative L-Phe binding site; other site 146919005301 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...; Region: ACD_sHsps-like; cd06464 146919005302 putative dimer interface; other site 146919005303 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919005304 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 146919005305 catalytic core; other site 146919005306 Surface antigen; Region: Bac_surface_Ag; cl03097 146919005307 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 146919005308 trimer interface; other site 146919005309 active site 146919005310 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 146919005311 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 146919005312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 146919005313 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 146919005314 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 146919005315 dimer interface; other site 146919005316 anticodon binding site; other site 146919005317 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 146919005318 homodimer interface; other site 146919005319 motif 1; other site 146919005320 active site 146919005321 motif 2; other site 146919005322 GAD domain; Region: GAD; pfam02938 146919005323 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 146919005324 motif 3; other site 146919005325 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 146919005326 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 146919005327 tetramer interface; other site 146919005328 TPP-binding site; other site 146919005329 heterodimer interface; other site 146919005330 phosphorylation loop region 146919005331 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 146919005332 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 146919005333 alpha subunit interface; other site 146919005334 TPP binding site; other site 146919005335 heterodimer interface; other site 146919005336 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 146919005337 Gram-negative bacterial tonB protein; Region: TonB; cl10048 146919005338 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 146919005339 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 146919005340 active site 146919005341 metal-binding site 146919005342 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 146919005343 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 146919005344 E3 interaction surface; other site 146919005345 lipoyl attachment site; other site 146919005346 e3 binding domain; Region: E3_binding; pfam02817 146919005347 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 146919005348 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 146919005349 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 146919005350 alpha subunit interface; other site 146919005351 TPP binding site; other site 146919005352 heterodimer interface; other site 146919005353 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 146919005354 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 146919005355 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 146919005356 tetramer interface; other site 146919005357 TPP-binding site; other site 146919005358 heterodimer interface; other site 146919005359 phosphorylation loop region 146919005360 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 146919005361 Ligand binding site; other site 146919005362 Putative Catalytic site; other site 146919005363 DXD motif; other site 146919005364 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 146919005365 isocitrate dehydrogenase; Validated; Region: PRK07362 146919005366 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 146919005367 putative active site; other site 146919005368 putative CoA binding site; other site 146919005369 nudix motif; other site 146919005370 metal-binding site 146919005371 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 146919005372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005373 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 146919005374 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919005375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919005376 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 146919005377 Outer membrane efflux protein; Region: OEP; pfam02321 146919005378 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919005379 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 146919005380 Protein export membrane protein; Region: SecD_SecF; cl14618 146919005381 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 146919005382 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919005383 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919005384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005385 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 146919005386 Ligand Binding Site; other site 146919005387 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 146919005388 Ligand Binding Site; other site 146919005389 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 146919005390 Peptidase S46; Region: Peptidase_S46; pfam10459 146919005391 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 146919005392 Peptidase S46; Region: Peptidase_S46; pfam10459 146919005393 Peptidase S46; Region: Peptidase_S46; pfam10459 146919005394 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 146919005395 putative active site; other site 146919005396 heme pocket; other site 146919005397 A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same...; Region: DNA_polB_like2_exo; cd05785 146919005398 active site 146919005399 catalytic site; other site 146919005400 substrate binding site; other site 146919005401 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (...; Region: POLBc; cl10023 146919005402 active site 146919005403 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 146919005404 thioester formation/cholesterol transfer; other site 146919005405 protein-splicing catalytic site; other site 146919005406 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (...; Region: POLBc; cl10023 146919005407 metal-binding site 146919005408 conserved hypothetical protein; Region: TIGR02231 146919005409 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 146919005410 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 146919005411 Sodium:solute symporter family; Region: SSF; cl00456 146919005412 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 146919005413 dimer interface; other site 146919005414 substrate binding site; other site 146919005415 metal binding sites; metal-binding site 146919005416 probable methyltransferase; Region: TIGR03438 146919005417 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 146919005418 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 146919005419 Uncharacterized conserved protein [Function unknown]; Region: COG4748 146919005420 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 146919005421 Predicted esterase [General function prediction only]; Region: COG0627 146919005422 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919005423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005424 Walker A/P-loop; other site 146919005425 ATP binding site; other site 146919005426 chromosome segregation protein; Provisional; Region: PRK02224 146919005427 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005428 ABC transporter signature motif; other site 146919005429 Walker B; other site 146919005430 D-loop; other site 146919005431 H-loop/switch region; other site 146919005432 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 146919005433 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 146919005434 active site 146919005435 metal-binding site 146919005436 DNA binding site 146919005437 GAF domain; Region: GAF; cl00853 146919005438 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 146919005439 PAS fold; Region: PAS_4; pfam08448 146919005440 putative sensor protein; Provisional; Region: PRK09776 146919005441 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 146919005442 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 146919005443 putative active site; other site 146919005444 PAS fold; Region: PAS_3; pfam08447 146919005445 heme pocket; other site 146919005446 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 146919005447 PAS fold; Region: PAS_3; pfam08447 146919005448 putative active site; other site 146919005449 heme pocket; other site 146919005450 GAF domain; Region: GAF; cl00853 146919005451 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 146919005452 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919005453 dimer interface; other site 146919005454 phosphorylation site 146919005455 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919005456 ATP binding site; other site 146919005457 Mg2+ binding site; other site 146919005458 G-X-G motif; other site 146919005459 Integrase core domain; Region: rve; cl01316 146919005460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 146919005461 translocation protein TolB; Provisional; Region: tolB; PRK03629 146919005462 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 146919005463 Sodium:solute symporter family; Region: SSF; cl00456 146919005464 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 146919005465 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 146919005466 dimer interface; other site 146919005467 active site 146919005468 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 146919005469 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 146919005470 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 146919005471 catalytic residue; other site 146919005472 Bacterial membrane flanked domain; Region: DUF304; cl01348 146919005473 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 146919005474 dimer interface; other site 146919005475 substrate binding site; other site 146919005476 metal binding sites; metal-binding site 146919005477 PEGA domain; Region: PEGA; pfam08308 146919005478 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 146919005479 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...; Region: OM_channels; cl00284 146919005480 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 146919005481 PhoD-like phosphatase; Region: PhoD; pfam09423 146919005482 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 146919005483 active site 146919005484 metal-binding site 146919005485 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 146919005486 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 146919005487 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 146919005488 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 146919005489 ParA-like protein; Provisional; Region: PHA02518 146919005490 P-loop; other site 146919005491 Magnesium ion binding site; other site 146919005492 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 146919005493 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919005494 Fasciclin domain; Region: Fasciclin; cl02663 146919005495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005496 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919005497 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 146919005498 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 146919005499 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 146919005500 cysteine synthases; Region: cysKM; TIGR01136 146919005501 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 146919005502 dimer interface; other site 146919005503 pyridoxal 5'-phosphate binding site; other site 146919005504 catalytic residue; other site 146919005505 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 146919005506 MPN+ (JAMM) motif; other site 146919005507 Zinc-binding site; other site 146919005508 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 146919005509 MoaE interaction surface; other site 146919005510 MoeB interaction surface; other site 146919005511 thiocarboxylated glycine; other site 146919005512 hypothetical protein; Validated; Region: PRK07411 146919005513 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 146919005514 ATP binding site; other site 146919005515 substrate interface; other site 146919005516 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 146919005517 active site residue 146919005518 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 146919005519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 146919005520 HIGH motif; other site 146919005521 active site 146919005522 nucleotide binding site; other site 146919005523 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 146919005524 active site 146919005525 KMSKS motif; other site 146919005526 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 146919005527 tRNA binding surface; other site 146919005528 anticodon binding site; other site 146919005529 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 146919005530 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 146919005531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919005532 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 146919005533 FeoA domain; Region: FeoA; cl00838 146919005534 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 146919005535 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 146919005536 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 146919005537 Protein of unknown function (DUF971); Region: DUF971; cl01414 146919005538 cAMP phosphodiesterase; Provisional; Region: PRK11359 146919005539 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 146919005540 putative active site; other site 146919005541 heme pocket; other site 146919005542 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 146919005543 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 146919005544 putative active site; other site 146919005545 heme pocket; other site 146919005546 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919005547 dimer interface; other site 146919005548 phosphorylation site 146919005549 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919005550 ATP binding site; other site 146919005551 Mg2+ binding site; other site 146919005552 G-X-G motif; other site 146919005553 Predicted ATPase [General function prediction only]; Region: COG4637 146919005554 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005555 YceI-like domain; Region: YceI; cl01001 146919005556 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919005557 Fe2+ transport protein; Region: Iron_transport; cl01377 146919005558 Nitrogen regulatory protein P-II; Region: P-II; cl00412 146919005559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 146919005560 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 146919005561 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 146919005562 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 146919005563 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 146919005564 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 146919005565 HSP70 interaction site; other site 146919005566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005567 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 146919005568 PAS fold; Region: PAS; pfam00989 146919005569 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 146919005570 putative active site; other site 146919005571 heme pocket; other site 146919005572 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 146919005573 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 146919005574 putative active site; other site 146919005575 heme pocket; other site 146919005576 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 146919005577 histidine kinase; Provisional; Region: PRK13557 146919005578 putative active site; other site 146919005579 heme pocket; other site 146919005580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919005581 ATP binding site; other site 146919005582 Mg2+ binding site; other site 146919005583 G-X-G motif; other site 146919005584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919005585 active site 146919005586 phosphorylation site 146919005587 intermolecular recognition site; other site 146919005588 dimerization interface; other site 146919005589 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 146919005590 Tetramer interface; other site 146919005591 active site 146919005592 FMN-binding site; other site 146919005593 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 146919005594 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 146919005595 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 146919005596 protein binding site; other site 146919005597 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 146919005598 protein binding site; other site 146919005599 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 146919005600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 146919005601 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919005602 dimer interface; other site 146919005603 phosphorylation site 146919005604 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919005605 ATP binding site; other site 146919005606 Mg2+ binding site; other site 146919005607 G-X-G motif; other site 146919005608 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 146919005609 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 146919005610 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 146919005611 S-adenosylmethionine binding site; other site 146919005612 Acylphosphatase; Region: Acylphosphatase; cl00551 146919005613 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH)...; Region: pro_PheOH; cd03348 146919005614 cofactor binding site; other site 146919005615 metal-binding site 146919005616 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 146919005617 putative catalytic residue; other site 146919005618 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 146919005619 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 146919005620 active site 146919005621 substrate binding site; other site 146919005622 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 146919005623 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 146919005624 GMP synthase; Reviewed; Region: guaA; PRK00074 146919005625 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 146919005626 AMP/PPi binding site; other site 146919005627 candidate oxyanion hole; other site 146919005628 catalytic triad; other site 146919005629 potential glutamine specificity residues; other site 146919005630 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 146919005631 ATP Binding subdomain; other site 146919005632 Ligand Binding sites; other site 146919005633 Dimerization subdomain; other site 146919005634 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-...; Region: GCS_H; cd06848 146919005635 lipoyl attachment site; other site 146919005636 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 146919005637 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 146919005638 active site 146919005639 substrate binding site; other site 146919005640 active site motif 146919005641 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 146919005642 S-adenosylmethionine binding site; other site 146919005643 Dispersed gene family protein 1 of Trypanosoma cruzi C-terminus; Region: DGF-1_C; pfam11040 146919005644 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 the...; Region: PNPsynthase; cd00003 146919005645 active site 146919005646 hydrophilic channel; other site 146919005647 dimerization interface; other site 146919005648 catalytic residues; other site 146919005649 active site lid 146919005650 GTP-binding protein Era; Reviewed; Region: era; PRK00089 146919005651 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 146919005652 G1 box; other site 146919005653 GTP/Mg2+ binding site; other site 146919005654 Switch I region; other site 146919005655 G2 box; other site 146919005656 Switch II region; other site 146919005657 G3 box; other site 146919005658 G4 box; other site 146919005659 G5 box; other site 146919005660 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 146919005661 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 146919005662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005663 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 146919005664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919005665 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_5; cd04962 146919005666 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919005667 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 146919005668 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 146919005669 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 146919005670 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 146919005671 catalytic residues; other site 146919005672 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 146919005673 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 146919005674 DNA binding site 146919005675 RNA-binding motif; other site 146919005676 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 146919005677 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 146919005678 30S subunit binding site; other site 146919005679 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine...; Region: MTHFR; cd00537 146919005680 FAD binding site; other site 146919005681 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 146919005682 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 146919005683 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits...; Region: NorE_like; cd02862 146919005684 Subunit I/III interface; other site 146919005685 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 146919005686 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 146919005687 D-pathway; other site 146919005688 Low-spin heme binding site; other site 146919005689 Putative water exit pathway; other site 146919005690 Binuclear center (active site); other site 146919005691 K-pathway; other site 146919005692 Putative proton exit pathway; other site 146919005693 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 146919005694 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 146919005695 Cytochrome c; Region: Cytochrom_C; cl11414 146919005696 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 146919005697 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 146919005698 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 146919005699 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 146919005700 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 146919005701 molybdopterin cofactor binding site; other site 146919005702 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 146919005703 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 146919005704 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 146919005705 heme-binding residues; other site 146919005706 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 146919005707 N-terminal plug; other site 146919005708 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 146919005709 ligand-binding site; other site 146919005710 SelR domain; Region: SelR; cl00369 146919005711 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 146919005712 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 146919005713 6-phosphofructokinase; Provisional; Region: PRK03202 146919005714 active site 146919005715 ADP/pyrophosphate binding site; other site 146919005716 dimerization interface; other site 146919005717 allosteric effector site; other site 146919005718 fructose-1,6-bisphosphate binding site; other site 146919005719 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 146919005720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 146919005721 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 146919005722 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 146919005723 Putative zinc ribbon domain; Region: DUF164; pfam02591 146919005724 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 146919005725 dimer interface; other site 146919005726 ADP-ribose binding site; other site 146919005727 active site 146919005728 nudix motif; other site 146919005729 metal-binding site 146919005730 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 146919005731 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 146919005732 Surface antigen; Region: Bac_surface_Ag; cl03097 146919005733 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 146919005734 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 146919005735 minor groove reading motif; other site 146919005736 helix-hairpin-helix signature motif; other site 146919005737 substrate binding pocket; other site 146919005738 active site 146919005739 FES domain; Region: FES; smart00525 146919005740 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 146919005741 active site 146919005742 8-oxo-dGMP binding site; other site 146919005743 nudix motif; other site 146919005744 metal-binding site 146919005745 Predicted membrane protein (DUF2085); Region: DUF2085; cl01570 146919005746 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 146919005747 oligomerisation interface; other site 146919005748 mobile loop; other site 146919005749 roof hairpin; other site 146919005750 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 146919005751 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 146919005752 ring oligomerisation interface; other site 146919005753 ATP/Mg binding site; other site 146919005754 stacking interactions; other site 146919005755 hinge regions; other site 146919005756 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 146919005757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005758 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 146919005759 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 146919005760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005761 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 146919005762 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 146919005763 FeS/SAM binding site; other site 146919005764 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 146919005765 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 146919005766 NAD binding site; other site 146919005767 dimerization interface; other site 146919005768 product binding site; other site 146919005769 substrate binding site; other site 146919005770 zinc binding site; other site 146919005771 catalytic residues; other site 146919005772 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 146919005773 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 146919005774 pyridoxal 5'-phosphate binding site; other site 146919005775 homodimer interface; other site 146919005776 catalytic residue; other site 146919005777 Uncharacterized ACR, COG1259; Region: DUF151; cl00553 146919005778 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 146919005779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 146919005780 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 146919005781 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 146919005782 Domain of unknown function DUF20; Region: UPF0118; cl00465 146919005783 RecX family; Region: RecX; cl00936 146919005784 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...; Region: OM_channels; cl00284 146919005785 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 146919005786 FecR protein; Region: FecR; pfam04773 146919005787 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 146919005788 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 146919005789 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919005790 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 146919005791 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 146919005792 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 146919005793 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 146919005794 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 146919005795 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 146919005796 PYR/PP interface; other site 146919005797 dimer interface; other site 146919005798 TPP binding site; other site 146919005799 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 146919005800 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 146919005801 TPP-binding site; other site 146919005802 dimer interface; other site 146919005803 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 146919005804 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 146919005805 putative valine binding site; other site 146919005806 dimer interface; other site 146919005807 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 146919005808 ketol-acid reductoisomerase; Provisional; Region: PRK05479 146919005809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005810 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 146919005811 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 146919005812 2-isopropylmalate synthase; Validated; Region: PRK00915 146919005813 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 146919005814 active site 146919005815 catalytic residues; other site 146919005816 metal-binding site 146919005817 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 146919005818 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 146919005819 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 146919005820 substrate binding site; other site 146919005821 ligand binding site; other site 146919005822 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 146919005823 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 146919005824 substrate binding site; other site 146919005825 Dehydratase family; Region: ILVD_EDD; cl00340 146919005826 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 146919005827 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 146919005828 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 146919005829 active site 146919005830 catalytic residues; other site 146919005831 metal-binding site 146919005832 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 146919005833 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 146919005834 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 146919005835 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 146919005836 catalytic residues; other site 146919005837 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 146919005838 active site 146919005839 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919005840 Phosphotransferase enzyme family; Region: APH; pfam01636 146919005841 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919005842 substrate binding site; other site 146919005843 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 146919005844 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...; Region: OM_channels; cl00284 146919005845 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...; Region: OM_channels; cl00284 146919005846 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 146919005847 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919005848 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 146919005849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005850 Walker A/P-loop; other site 146919005851 ATP binding site; other site 146919005852 Q-loop/lid; other site 146919005853 ABC transporter signature motif; other site 146919005854 Walker B; other site 146919005855 D-loop; other site 146919005856 H-loop/switch region; other site 146919005857 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 146919005858 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919005859 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 146919005860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005861 Walker A/P-loop; other site 146919005862 ATP binding site; other site 146919005863 Q-loop/lid; other site 146919005864 ABC transporter signature motif; other site 146919005865 Walker B; other site 146919005866 D-loop; other site 146919005867 H-loop/switch region; other site 146919005868 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 146919005869 ligand binding site; other site 146919005870 flexible hinge region; other site 146919005871 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 146919005872 Surface antigen; Region: Bac_surface_Ag; cl03097 146919005873 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 146919005874 Peptidase family M23; Region: Peptidase_M23; pfam01551 146919005875 HPr kinase/phosphorylase; Provisional; Region: PRK05428 146919005876 DRTGG domain; Region: DRTGG; cl12147 146919005877 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-...; Region: HprK_C; cd01918 146919005878 Hpr binding site; other site 146919005879 active site 146919005880 homohexamer subunit interaction site; other site 146919005881 MoxR-like ATPases [General function prediction only]; Region: COG0714 146919005882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919005883 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 146919005884 Formyl transferase; Region: Formyl_trans_N; cl00395 146919005885 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 146919005886 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 146919005887 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 146919005888 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 146919005889 P loop; other site 146919005890 GTP binding site; other site 146919005891 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 146919005892 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...; Region: OM_channels; cl00284 146919005893 Fasciclin domain; Region: Fasciclin; cl02663 146919005894 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 146919005895 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...; Region: OM_channels; cl00284 146919005896 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 146919005897 DNA binding site 146919005898 active site 146919005899 SusD family; Region: SusD; pfam07980 146919005900 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919005901 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 146919005902 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 146919005903 DNA binding site 146919005904 active site 146919005905 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 146919005906 FAD binding domain; Region: FAD_binding_4; cl10516 146919005907 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 146919005908 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 146919005909 CcmB protein; Region: CcmB; cl01016 146919005910 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 146919005911 CcmE; Region: CcmE; cl00994 146919005912 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 146919005913 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 146919005914 MgtE intracellular N domain; Region: MgtE_N; pfam03448 146919005915 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 146919005916 Divalent cation transporter; Region: MgtE; cl00786 146919005917 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 146919005918 S-adenosylmethionine binding site; other site 146919005919 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 146919005920 metal ion-dependent adhesion site (MIDAS); other site 146919005921 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 146919005922 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; cl09830 146919005923 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 146919005924 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 146919005925 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919005926 dihydroorotase; Validated; Region: pyrC; PRK09357 146919005927 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919005928 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 146919005929 active site 146919005930 DNA gyrase subunit A; Validated; Region: PRK05560 146919005931 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 146919005932 CAP-like domain; other site 146919005933 active site 146919005934 primary dimer interface; other site 146919005935 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919005936 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919005937 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919005938 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919005939 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 146919005940 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 146919005941 putative active site; other site 146919005942 putative catalytic triad; other site 146919005943 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 146919005944 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 146919005945 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...; Region: PGM_like2; cd05800 146919005946 active site 146919005947 substrate binding site; other site 146919005948 metal-binding site 146919005949 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 146919005950 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 146919005951 Walker A/P-loop; other site 146919005952 ATP binding site; other site 146919005953 Q-loop/lid; other site 146919005954 ABC transporter signature motif; other site 146919005955 Walker B; other site 146919005956 D-loop; other site 146919005957 H-loop/switch region; other site 146919005958 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 146919005959 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 146919005960 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 146919005961 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 146919005962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005963 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 146919005964 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 146919005965 pyridoxal 5'-phosphate binding pocket; other site 146919005966 catalytic residue; other site 146919005967 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 146919005968 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 146919005969 Fasciclin domain; Region: Fasciclin; cl02663 146919005970 Brp/Blh family; Region: blh_monoox; TIGR03753 146919005971 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 146919005972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919005973 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 146919005974 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 146919005975 putative active site; other site 146919005976 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 146919005977 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 146919005978 Ligand Binding Site; other site 146919005979 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 146919005980 acetylornithine aminotransferase; Provisional; Region: PRK02627 146919005981 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 146919005982 inhibitor-cofactor binding pocket; inhibition site 146919005983 pyridoxal 5'-phosphate binding site; other site 146919005984 catalytic residue; other site 146919005985 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 146919005986 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 146919005987 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 146919005988 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 146919005989 nucleotide binding site; other site 146919005990 N-acetyl-L-glutamate binding site; other site 146919005991 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 146919005992 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919005993 argininosuccinate lyase; Provisional; Region: PRK06389 146919005994 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 146919005995 active sites 146919005996 tetramer interface; other site 146919005997 Integral membrane protein TerC family; Region: TerC; cl10468 146919005998 photoactive yellow protein; Region: photo_yellow; TIGR02373 146919005999 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 146919006000 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 146919006001 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 146919006002 S-adenosylmethionine binding site; other site 146919006003 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 146919006004 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 146919006005 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 146919006006 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 146919006007 NfeD-like; Region: NfeD; cl00686 146919006008 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 146919006009 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 146919006010 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 146919006011 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919006012 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 146919006013 DHH family; Region: DHH; pfam01368 146919006014 DHHA1 domain; Region: DHHA1; pfam02272 146919006015 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 146919006016 transcription termination factor Rho; Provisional; Region: rho; PRK09376 146919006017 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent...; Region: Rho_CSD; cd04459 146919006018 RNA binding site; other site 146919006019 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 146919006020 multimer interface; other site 146919006021 Walker A motif; other site 146919006022 ATP binding site; other site 146919006023 Walker B motif; other site 146919006024 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 146919006025 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919006026 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919006027 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 146919006028 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 146919006029 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 146919006030 protein binding site; other site 146919006031 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 146919006032 Domain interface; other site 146919006033 Peptide binding site; other site 146919006034 Active site tetrad; active site 146919006035 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 146919006036 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919006037 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 146919006038 active site 146919006039 motif I; other site 146919006040 motif II; other site 146919006041 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919006042 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 146919006043 ligand binding site; other site 146919006044 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 146919006045 active site 146919006046 Ap6A binding site; other site 146919006047 nudix motif; other site 146919006048 metal-binding site 146919006049 high affinity sulphate transporter 1; Region: sulP; TIGR00815 146919006050 Permease family; Region: Xan_ur_permease; cl00967 146919006051 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 146919006052 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 146919006053 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 146919006054 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 146919006055 putative active site; other site 146919006056 Zn-binding site; other site 146919006057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919006058 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 146919006059 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 146919006060 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 146919006061 Fasciclin domain; Region: Fasciclin; cl02663 146919006062 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 146919006063 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919006064 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919006065 DNA binding residues 146919006066 FecR protein; Region: FecR; pfam04773 146919006067 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 146919006068 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 146919006069 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 146919006070 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 146919006071 NAD(P) binding site; other site 146919006072 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 146919006073 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 146919006074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006075 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 146919006076 K-Cl cotransporter; Region: 2a30; TIGR00930 146919006077 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006078 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 146919006079 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006080 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 146919006081 Ligand Binding Site; other site 146919006082 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 146919006083 K-Cl cotransporter; Region: 2a30; TIGR00930 146919006084 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006085 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 146919006086 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006087 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 146919006088 Ligand Binding Site; other site 146919006089 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919006090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006091 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006092 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006093 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 146919006094 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; cl04176 146919006095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006096 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919006097 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006098 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919006099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006100 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006101 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 146919006102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006103 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006104 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 146919006105 Cation transport protein; Region: TrkH; cl10514 146919006106 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 146919006107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006108 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006110 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006111 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 146919006112 Cation transport protein; Region: TrkH; cl10514 146919006113 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 146919006114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006115 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 146919006116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006117 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006118 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006119 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 146919006120 active site 146919006121 phosphorylation site 146919006122 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919006123 PAS domain S-box; Region: sensory_box; TIGR00229 146919006124 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 146919006125 putative active site; other site 146919006126 heme pocket; other site 146919006127 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 146919006128 putative active site; other site 146919006129 heme pocket; other site 146919006130 hypothetical protein; Provisional; Region: PRK13560 146919006131 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 146919006132 GAF domain; Region: GAF; cl00853 146919006133 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006134 dimer interface; other site 146919006135 phosphorylation site 146919006136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006137 ATP binding site; other site 146919006138 Mg2+ binding site; other site 146919006139 G-X-G motif; other site 146919006140 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 146919006141 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 146919006142 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 146919006143 shikimate binding site; other site 146919006144 NAD(P) binding site; other site 146919006145 OsmC-like protein; Region: OsmC; cl00767 146919006146 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919006147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006148 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair_10; cd04623 146919006149 FOG: CBS domain [General function prediction only]; Region: COG0517 146919006150 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 146919006151 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 146919006152 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 146919006153 Walker A/P-loop; other site 146919006154 ATP binding site; other site 146919006155 Q-loop/lid; other site 146919006156 ABC transporter signature motif; other site 146919006157 Walker B; other site 146919006158 D-loop; other site 146919006159 H-loop/switch region; other site 146919006160 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 146919006161 putative FMN binding site; other site 146919006162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919006163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919006164 threonine dehydratase; Provisional; Region: PRK08198 146919006165 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 146919006166 tetramer interface; other site 146919006167 pyridoxal 5'-phosphate binding site; other site 146919006168 catalytic residue; other site 146919006169 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 146919006170 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cl00083 146919006171 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl12029 146919006172 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl12029 146919006173 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 146919006174 nucleotide binding region; other site 146919006175 ATP-binding site; other site 146919006176 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 146919006177 MatE; Region: MatE; pfam01554 146919006178 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 146919006179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006180 active site 146919006181 phosphorylation site 146919006182 intermolecular recognition site; other site 146919006183 dimerization interface; other site 146919006184 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919006185 DNA binding site 146919006186 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 146919006187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919006188 dimer interface; other site 146919006189 conserved gate region; other site 146919006190 putative PBP binding loops; other site 146919006191 ABC-ATPase subunit interface; other site 146919006192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919006193 dimer interface; other site 146919006194 conserved gate region; other site 146919006195 putative PBP binding loops; other site 146919006196 ABC-ATPase subunit interface; other site 146919006197 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 146919006198 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 146919006199 Walker A/P-loop; other site 146919006200 ATP binding site; other site 146919006201 Q-loop/lid; other site 146919006202 ABC transporter signature motif; other site 146919006203 Walker B; other site 146919006204 D-loop; other site 146919006205 H-loop/switch region; other site 146919006206 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 146919006207 PhoU domain; Region: PhoU; pfam01895 146919006208 PhoU domain; Region: PhoU; pfam01895 146919006209 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 146919006210 dockerin binding interface; other site 146919006211 Peptidase S8 family domain in Fervidolysin; Region: Peptidases_S8_Fervidolysin_like; cd07485 146919006212 active site 146919006213 catalytic triad; other site 146919006214 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 146919006215 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 146919006216 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 146919006217 putative acyl-acceptor binding pocket; other site 146919006218 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 146919006219 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 146919006220 catalytic motif; other site 146919006221 Zn binding site; other site 146919006222 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 146919006223 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 146919006224 Lumazine binding domain; Region: Lum_binding; pfam00677 146919006225 Lumazine binding domain; Region: Lum_binding; pfam00677 146919006226 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 146919006227 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 146919006228 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 146919006229 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 146919006230 putative NAD(P) binding site; other site 146919006231 putative substrate binding site; other site 146919006232 catalytic Zn binding site; other site 146919006233 structural Zn binding site; other site 146919006234 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 146919006235 Major Facilitator Superfamily; Region: MFS_1; pfam07690 146919006236 putative substrate translocation pore; other site 146919006237 trehalose synthase; Region: treS_nterm; TIGR02456 146919006238 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919006239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006240 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 146919006241 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 146919006242 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 146919006243 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919006244 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...; Region: OM_channels; cl00284 146919006245 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919006246 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...; Region: OM_channels; cl00284 146919006247 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 146919006248 S-adenosylmethionine binding site; other site 146919006249 UvrD/REP helicase; Region: UvrD-helicase; cl14126 146919006250 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 146919006251 active site 146919006252 substrate binding site; other site 146919006253 catalytic site; other site 146919006254 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 146919006255 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 146919006256 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 146919006257 homodimer interface; other site 146919006258 substrate-cofactor binding pocket; other site 146919006259 Aminotransferase class IV; Region: Aminotran_4; pfam01063 146919006260 catalytic residue; other site 146919006261 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 146919006262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 146919006263 Coenzyme A binding pocket; other site 146919006264 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 146919006265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006266 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006267 dimer interface; other site 146919006268 phosphorylation site 146919006269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006270 ATP binding site; other site 146919006271 Mg2+ binding site; other site 146919006272 G-X-G motif; other site 146919006273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006274 active site 146919006275 phosphorylation site 146919006276 intermolecular recognition site; other site 146919006277 dimerization interface; other site 146919006278 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 146919006279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 146919006280 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 146919006281 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...; Region: OM_channels; cl00284 146919006282 Histidine kinase; Region: His_kinase; pfam06580 146919006283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006284 ATP binding site; other site 146919006285 Mg2+ binding site; other site 146919006286 G-X-G motif; other site 146919006287 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 146919006288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006289 active site 146919006290 phosphorylation site 146919006291 intermolecular recognition site; other site 146919006292 dimerization interface; other site 146919006293 LytTr DNA-binding domain; Region: LytTR; cl04498 146919006294 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 146919006295 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 146919006296 active site 146919006297 dimer interface; other site 146919006298 non-prolyl cis peptide bond; other site 146919006299 insertion regions; other site 146919006300 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 146919006301 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 146919006302 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 146919006303 DNA photolyase; Region: DNA_photolyase; pfam00875 146919006304 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 146919006305 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...; Region: ACD_sHsps-like; cd06464 146919006306 putative dimer interface; other site 146919006307 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 146919006308 S-adenosylmethionine binding site; other site 146919006309 CoA-transferase family III; Region: CoA_transf_3; cl00778 146919006310 glycyl-tRNA synthetase; Provisional; Region: PRK04173 146919006311 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 146919006312 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 146919006313 motif 1; other site 146919006314 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the...; Region: GlyRS-like_core; cd00774 146919006315 active site 146919006316 motif 2; other site 146919006317 motif 3; other site 146919006318 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible...; Region: HGTP_anticodon; cl00266 146919006319 anticodon binding site; other site 146919006320 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 146919006321 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 146919006322 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 146919006323 MPN+ (JAMM) motif; other site 146919006324 Zinc-binding site; other site 146919006325 transcription termination factor Rho; Provisional; Region: PRK12608 146919006326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006327 Walker A motif; other site 146919006328 ATP binding site; other site 146919006329 Walker B motif; other site 146919006330 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 146919006331 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919006332 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919006333 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 146919006334 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919006335 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 146919006336 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which...; Region: SERPIN; cl00137 146919006337 reactive center loop; other site 146919006338 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 146919006339 active site 146919006340 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 146919006341 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 146919006342 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 146919006343 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 146919006344 HSP70 interaction site; other site 146919006345 DnaJ C terminal region; Region: DnaJ_C; pfam01556 146919006346 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 146919006347 dimer interface; other site 146919006348 hsp70 (ATPase domain) interactions; other site 146919006349 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 146919006350 HrcA protein C terminal domain; Region: HrcA; pfam01628 146919006351 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 146919006352 tandem repeat interface; other site 146919006353 oligomer interface; other site 146919006354 active site residues 146919006355 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 146919006356 tandem repeat interface; other site 146919006357 oligomer interface; other site 146919006358 active site residues 146919006359 Sulfatase; Region: Sulfatase; cl10460 146919006360 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 146919006361 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 146919006362 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 146919006363 minor groove reading motif; other site 146919006364 helix-hairpin-helix signature motif; other site 146919006365 substrate binding pocket; other site 146919006366 active site 146919006367 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...; Region: ACD_sHsps-like; cd06464 146919006368 putative dimer interface; other site 146919006369 fumarylacetoacetase; Region: PLN02856 146919006370 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 146919006371 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 146919006372 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 146919006373 binding surface 146919006374 TPR motif; other site 146919006375 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 146919006376 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 146919006377 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 146919006378 homodimer interface; other site 146919006379 substrate-cofactor binding pocket; other site 146919006380 pyridoxal 5'-phosphate binding site; other site 146919006381 catalytic residue; other site 146919006382 Domain of unknown function (DUF427); Region: DUF427; cl00998 146919006383 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 146919006384 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-...; Region: PGM_like4; cd05803 146919006385 active site 146919006386 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 146919006387 substrate binding site; other site 146919006388 metal-binding site 146919006389 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl00696 146919006390 UbiA prenyltransferase family; Region: UbiA; cl00337 146919006391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006392 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 146919006393 Walker A/P-loop; other site 146919006394 ATP binding site; other site 146919006395 Q-loop/lid; other site 146919006396 ABC transporter signature motif; other site 146919006397 Walker B; other site 146919006398 D-loop; other site 146919006399 H-loop/switch region; other site 146919006400 ABC-2 type transporter; Region: ABC2_membrane; cl11417 146919006401 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 146919006402 active site 146919006403 phosphoenolpyruvate carboxykinase; Provisional; Region: PTZ00311 146919006404 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 146919006405 active site 146919006406 substrate-binding site; other site 146919006407 metal-binding site 146919006408 ATP binding site; other site 146919006409 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 146919006410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006411 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 146919006412 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919006413 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 146919006414 active site 146919006415 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919006416 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 146919006417 Predicted membrane protein [Function unknown]; Region: COG3650 146919006418 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 146919006419 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 146919006420 pyridoxal 5'-phosphate binding pocket; other site 146919006421 catalytic residue; other site 146919006422 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 146919006423 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919006424 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 146919006425 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_2_like; cd04738 146919006426 quinone interaction residues; other site 146919006427 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 146919006428 active site 146919006429 catalytic residues; other site 146919006430 FMN binding site; other site 146919006431 substrate binding site; other site 146919006432 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 146919006433 hypothetical protein; Provisional; Region: PRK10281 146919006434 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 146919006435 structural tetrad; other site 146919006436 Surface antigen; Region: Bac_surface_Ag; cl03097 146919006437 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 146919006438 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 146919006439 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 146919006440 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 146919006441 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 146919006442 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 146919006443 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 146919006444 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 146919006445 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 146919006446 hypothetical protein; Provisional; Region: PRK11770 146919006447 Domain of unknown function (DUF307); Region: DUF307; pfam03733 146919006448 Domain of unknown function (DUF307); Region: DUF307; pfam03733 146919006449 Domain of unknown function DUF123; Region: DUF123; cl00790 146919006450 Uncharacterized conserved protein [Function unknown]; Region: COG3391 146919006451 Uncharacterized conserved protein [Function unknown]; Region: COG5276 146919006452 mercuric reductase; Validated; Region: PRK06370 146919006453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006454 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 146919006455 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 146919006456 PAS domain S-box; Region: sensory_box; TIGR00229 146919006457 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 146919006458 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 146919006459 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 146919006460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006461 ATP binding site; other site 146919006462 Mg2+ binding site; other site 146919006463 G-X-G motif; other site 146919006464 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 146919006465 integron integrase; Region: integrase_gron; TIGR02249 146919006466 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 146919006467 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 146919006468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006469 Walker A/P-loop; other site 146919006470 ATP binding site; other site 146919006471 Q-loop/lid; other site 146919006472 ABC transporter signature motif; other site 146919006473 Walker B; other site 146919006474 D-loop; other site 146919006475 H-loop/switch region; other site 146919006476 TOBE domain; Region: TOBE_2; cl01440 146919006477 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 146919006478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919006479 dimer interface; other site 146919006480 conserved gate region; other site 146919006481 putative PBP binding loops; other site 146919006482 ABC-ATPase subunit interface; other site 146919006483 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 146919006484 dimer interface; other site 146919006485 conserved gate region; other site 146919006486 putative PBP binding loops; other site 146919006487 ABC-ATPase subunit interface; other site 146919006488 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 146919006489 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 146919006490 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 146919006491 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919006492 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 146919006493 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 146919006494 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 146919006495 active site 146919006496 catalytic tetrad; other site 146919006497 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 146919006498 Catalase (peroxidase I) [Inorganic ion transport and metabolism]; Region: KatG; COG0376 146919006499 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 146919006500 heme binding site; other site 146919006501 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 146919006502 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 146919006503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919006504 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 146919006505 dimerization interface; other site 146919006506 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 146919006507 Ligand binding site; other site 146919006508 Putative Catalytic site; other site 146919006509 DXD motif; other site 146919006510 Protein of unknown function (DUF1673); Region: DUF1673; pfam07895 146919006511 DNA gyrase, B subunit; Region: gyrB; TIGR01059 146919006512 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919006513 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 146919006514 anchoring element; other site 146919006515 dimer interface; other site 146919006516 ATP binding site; other site 146919006517 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 146919006518 active site 146919006519 putative metal-binding site; other site 146919006520 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 146919006521 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 146919006522 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 146919006523 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919006524 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 146919006525 FOG: CBS domain [General function prediction only]; Region: COG0517 146919006526 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 146919006527 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 146919006528 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 146919006529 G1 box; other site 146919006530 GTP/Mg2+ binding site; other site 146919006531 Switch I region; other site 146919006532 G2 box; other site 146919006533 G3 box; other site 146919006534 Switch II region; other site 146919006535 G4 box; other site 146919006536 G5 box; other site 146919006537 Aerotolerance regulator N-terminal; Region: BatA; cl06567 146919006538 CARDB; Region: CARDB; pfam07705 146919006539 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 146919006540 conserved cys residue; other site 146919006541 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 146919006542 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919006543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006544 active site 146919006545 phosphorylation site 146919006546 intermolecular recognition site; other site 146919006547 dimerization interface; other site 146919006548 PglZ domain; Region: PglZ; cl12128 146919006549 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 146919006550 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 146919006551 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 146919006552 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 146919006553 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919006554 dimerization interface; other site 146919006555 metal-binding site 146919006556 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 146919006557 3-hydroxy-3-methylglutaryl Coenzyme A reductase, hydroxymethylglutaryl-CoA reductase (NADP); Region: HMG_CoA_R_NADP; TIGR00533 146919006558 tetramerization interface; other site 146919006559 substrate binding pocket; other site 146919006560 catalytic residues; other site 146919006561 inhibitor binding sites; inhibition site 146919006562 NADP(H) binding site; other site 146919006563 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 146919006564 active site 146919006565 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 146919006566 thiamine monophosphate kinase; Provisional; Region: PRK05731 146919006567 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 146919006568 ATP binding site; other site 146919006569 dimerization interface; other site 146919006570 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 146919006571 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 146919006572 active site 146919006573 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 146919006574 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 146919006575 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 146919006576 alpha subunit interaction interface; other site 146919006577 Walker A motif; other site 146919006578 ATP binding site; other site 146919006579 Walker B motif; other site 146919006580 inhibitor binding site; inhibition site 146919006581 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 146919006582 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 146919006583 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 146919006584 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 146919006585 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 146919006586 active site 146919006587 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919006588 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 146919006589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 146919006590 pyridoxal 5'-phosphate (PLP) binding site; other site 146919006591 catalytic residue; other site 146919006592 Protein of unknown function, DUF583; Region: DUF583; cl09137 146919006593 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 146919006594 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 146919006595 active site 146919006596 NTP binding site; other site 146919006597 metal binding triad; metal-binding site 146919006598 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919006599 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 146919006600 S-adenosylmethionine binding site; other site 146919006601 Sulfatase; Region: Sulfatase; cl10460 146919006602 FAD dependent oxidoreductase; Region: DAO; pfam01266 146919006603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006604 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair_10; cd04623 146919006605 FOG: CBS domain [General function prediction only]; Region: COG0517 146919006606 oxidoreductase; Provisional; Region: PRK06196 146919006607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006608 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 146919006609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006610 domain; Region: Succ_DH_flav_C; pfam02910 146919006611 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 146919006612 putative active site; other site 146919006613 putative metal binding site; other site 146919006614 PhoD-like phosphatase; Region: PhoD; pfam09423 146919006615 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 146919006616 putative active site; other site 146919006617 putative metal binding site; other site 146919006618 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 146919006619 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919006620 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919006621 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 146919006622 N-terminal plug; other site 146919006623 ligand-binding site; other site 146919006624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006625 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...; Region: TlpA_like_family; cd02966 146919006626 catalytic residues; other site 146919006627 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 146919006628 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919006629 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919006630 active site 146919006631 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 146919006632 DNA binding site 146919006633 RNA-binding motif; other site 146919006634 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; cl12039 146919006635 Alkaline phosphatase homologues; Region: alkPPc; smart00098 146919006636 active site 146919006637 dimer interface; other site 146919006638 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 146919006639 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 146919006640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006641 Walker A/P-loop; other site 146919006642 ATP binding site; other site 146919006643 Q-loop/lid; other site 146919006644 ABC transporter signature motif; other site 146919006645 Walker B; other site 146919006646 D-loop; other site 146919006647 H-loop/switch region; other site 146919006648 DoxX; Region: DoxX; cl00976 146919006649 CrcB-like protein; Region: CRCB; cl09114 146919006650 Low molecular weight phosphatase family; Region: LMWPc; cd00115 146919006651 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 146919006652 active site 146919006653 Membrane transport protein; Region: Mem_trans; cl09117 146919006654 hypothetical protein; Provisional; Region: PRK08317 146919006655 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 146919006656 S-adenosylmethionine binding site; other site 146919006657 potential protein location (conserved hypothetical protein) that overlaps protein (methyltransferase) 146919006658 Uncharacterized protein family UPF0057; Region: UPF0057; cl00431 146919006659 DinB family; Region: DinB; cl00986 146919006660 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 146919006661 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 146919006662 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006663 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 146919006664 Walker A/P-loop; other site 146919006665 ATP binding site; other site 146919006666 Q-loop/lid; other site 146919006667 ABC transporter signature motif; other site 146919006668 Walker B; other site 146919006669 D-loop; other site 146919006670 H-loop/switch region; other site 146919006671 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cl11400 146919006672 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 146919006673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 146919006674 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 146919006675 CHY zinc finger; Region: zf-CHY; pfam05495 146919006676 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 146919006677 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 146919006678 Walker A/P-loop; other site 146919006679 ATP binding site; other site 146919006680 Q-loop/lid; other site 146919006681 ABC transporter signature motif; other site 146919006682 Walker B; other site 146919006683 D-loop; other site 146919006684 H-loop/switch region; other site 146919006685 CAAX amino terminal protease family; Region: Abi; cl00558 146919006686 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 146919006687 Peptidase family M32 is a subclass of metallocarboxypeptidases which are distributed mainly in bacteria and archaea, and contain a HEXXH motif that coordinates a divalent cation such as Zn2+ or Co2+, so far only observed in the active site of neutral...; Region: M32_Taq; cd06460 146919006688 active site 146919006689 zinc binding site; other site 146919006690 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 146919006691 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919006692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006693 dimer interface; other site 146919006694 phosphorylation site 146919006695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006696 ATP binding site; other site 146919006697 Mg2+ binding site; other site 146919006698 G-X-G motif; other site 146919006699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 146919006700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006701 active site 146919006702 phosphorylation site 146919006703 intermolecular recognition site; other site 146919006704 dimerization interface; other site 146919006705 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919006706 DNA binding site 146919006707 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 146919006708 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 146919006709 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919006710 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 146919006711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006712 active site 146919006713 phosphorylation site 146919006714 intermolecular recognition site; other site 146919006715 dimerization interface; other site 146919006716 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919006717 DNA binding site 146919006718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006719 active site 146919006720 phosphorylation site 146919006721 intermolecular recognition site; other site 146919006722 dimerization interface; other site 146919006723 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919006724 DNA binding site 146919006725 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 146919006726 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 146919006727 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 146919006728 Ligand Binding Site; other site 146919006729 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 146919006730 homotrimer interaction site; other site 146919006731 putative active site; other site 146919006732 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 146919006733 active site 146919006734 metal-binding site 146919006735 RNA polymerase sigma factor; Provisional; Region: PRK12513 146919006736 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919006737 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 146919006738 DNA repair protein RadA; Provisional; Region: PRK11823 146919006739 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 146919006740 Walker A motif/ATP binding site; other site 146919006741 ATP binding site; other site 146919006742 Walker B motif; other site 146919006743 Domain of unknown function DUF140; Region: DUF140; cl00510 146919006744 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 146919006745 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 146919006746 Walker A/P-loop; other site 146919006747 ATP binding site; other site 146919006748 Q-loop/lid; other site 146919006749 ABC transporter signature motif; other site 146919006750 Walker B; other site 146919006751 D-loop; other site 146919006752 H-loop/switch region; other site 146919006753 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 146919006754 mce related protein; Region: MCE; pfam02470 146919006755 Protein of unknown function (DUF445); Region: DUF445; pfam04286 146919006756 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 146919006757 Uncharacterized protein family (UPF0089); Region: UPF0089; pfam03007 146919006758 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 146919006759 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 146919006760 SCP-2 sterol transfer family; Region: SCP2; cl01225 146919006761 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair_10; cd04623 146919006762 FOG: CBS domain [General function prediction only]; Region: COG0517 146919006763 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 146919006764 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 146919006765 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 146919006766 hypothetical protein; Provisional; Region: PRK13560 146919006767 putative active site; other site 146919006768 heme pocket; other site 146919006769 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006770 dimer interface; other site 146919006771 phosphorylation site 146919006772 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006773 ATP binding site; other site 146919006774 Mg2+ binding site; other site 146919006775 G-X-G motif; other site 146919006776 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 146919006777 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919006778 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919006779 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 146919006780 PAS fold; Region: PAS_4; pfam08448 146919006781 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 146919006782 putative active site; other site 146919006783 heme pocket; other site 146919006784 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006785 dimer interface; other site 146919006786 phosphorylation site 146919006787 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006788 ATP binding site; other site 146919006789 Mg2+ binding site; other site 146919006790 G-X-G motif; other site 146919006791 sensory histidine kinase AtoS; Provisional; Region: PRK11360 146919006792 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006793 dimer interface; other site 146919006794 phosphorylation site 146919006795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006796 ATP binding site; other site 146919006797 Mg2+ binding site; other site 146919006798 G-X-G motif; other site 146919006799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919006800 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 146919006801 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 146919006802 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 146919006803 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 146919006804 nucleoside/Zn binding site; other site 146919006805 dimer interface; other site 146919006806 catalytic motif; other site 146919006807 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 146919006808 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 146919006809 FMN binding site; other site 146919006810 active site 146919006811 catalytic residues; other site 146919006812 substrate binding site; other site 146919006813 Sulfatase; Region: Sulfatase; cl10460 146919006814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919006815 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 146919006816 Walker A/P-loop; other site 146919006817 ATP binding site; other site 146919006818 Q-loop/lid; other site 146919006819 ABC transporter signature motif; other site 146919006820 Walker B; other site 146919006821 D-loop; other site 146919006822 H-loop/switch region; other site 146919006823 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 146919006824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006825 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 146919006826 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 146919006827 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 146919006828 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 146919006829 active site 146919006830 trimer interface; other site 146919006831 allosteric site; other site 146919006832 active site lid 146919006833 hexamer (dimer of trimers) interface; other site 146919006834 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 146919006835 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 146919006836 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-...; Region: AP2Ec; cl12060 146919006837 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 146919006838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006839 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 146919006840 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 146919006841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919006842 potential frameshift: common BLAST hit: gi|83816015|ref|YP_446634.1| AP endonuclease 146919006843 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 146919006844 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 146919006845 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 146919006846 dimerization interface; other site 146919006847 putative DNA binding site; other site 146919006848 putative Zn2+ binding site; other site 146919006849 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919006850 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919006851 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...; Region: OM_channels; cl00284 146919006852 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 146919006853 prolyl-tRNA synthetase; Provisional; Region: PRK08661 146919006854 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_arch_euk; cd00778 146919006855 dimer interface; other site 146919006856 motif 1; other site 146919006857 active site 146919006858 motif 2; other site 146919006859 motif 3; other site 146919006860 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity...; Region: ProRS_anticodon_zinc; cd00862 146919006861 anticodon binding site; other site 146919006862 zinc-binding site; other site 146919006863 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 146919006864 YceG-like family; Region: YceG; pfam02618 146919006865 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 146919006866 dimerization interface; other site 146919006867 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 146919006868 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 146919006869 Domain of unknown function DUF143; Region: DUF143; cl00519 146919006870 Protein of unknown function (DUF423); Region: DUF423; cl01008 146919006871 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 146919006872 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919006873 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 146919006874 N-terminal plug; other site 146919006875 ligand-binding site; other site 146919006876 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 146919006877 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 146919006878 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 146919006879 recombination protein RecR; Reviewed; Region: recR; PRK00076 146919006880 RecR protein; Region: RecR; pfam02132 146919006881 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 146919006882 putative active site; other site 146919006883 putative metal-binding site; other site 146919006884 tetramer interface; other site 146919006885 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 146919006886 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 146919006887 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919006888 Walker A motif; other site 146919006889 ATP binding site; other site 146919006890 Walker B motif; other site 146919006891 arginine finger; other site 146919006892 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 146919006893 RDD family; Region: RDD; cl00746 146919006894 Thymidine kinase; Region: TK; cl00631 146919006895 UPF0126 domain; Region: UPF0126; pfam03458 146919006896 UPF0126 domain; Region: UPF0126; pfam03458 146919006897 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 146919006898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 146919006899 MarC family integral membrane protein; Region: MarC; cl00919 146919006900 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 146919006901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 146919006902 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 146919006903 dimerization interface; other site 146919006904 substrate binding pocket; other site 146919006905 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 146919006906 binding surface 146919006907 TPR motif; other site 146919006908 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 146919006909 metal ion-dependent adhesion site (MIDAS); other site 146919006910 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 146919006911 metal ion-dependent adhesion site (MIDAS); other site 146919006912 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 146919006913 NAD+ binding site; other site 146919006914 substrate binding site; other site 146919006915 Zn binding site; other site 146919006916 Protein of unknown function DUF58; Region: DUF58; pfam01882 146919006917 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 146919006918 metal ion-dependent adhesion site (MIDAS); other site 146919006919 PAS domain S-box; Region: sensory_box; TIGR00229 146919006920 bacterio-opsin activator; Provisional; Region: PRK13558 146919006921 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 146919006922 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919006923 dimer interface; other site 146919006924 phosphorylation site 146919006925 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 146919006926 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 146919006927 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 146919006928 FeS/SAM binding site; other site 146919006929 TRAM domain; Region: TRAM; cl01282 146919006930 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 146919006931 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 146919006932 putative active site; other site 146919006933 putative metal binding site; other site 146919006934 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919006935 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 146919006936 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919006937 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919006938 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919006939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919006940 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 146919006941 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 146919006942 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919006943 DNA binding residues 146919006944 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 146919006945 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919006946 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 146919006947 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 146919006948 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 146919006949 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 146919006950 FHIPEP family; Region: FHIPEP; cl07980 146919006951 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 146919006952 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 146919006953 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 146919006954 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 146919006955 FliP family; Region: FliP; cl00593 146919006956 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 146919006957 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 146919006958 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 146919006959 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 146919006960 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 146919006961 flagellar motor protein MotS; Reviewed; Region: PRK06925 146919006962 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 146919006963 ligand binding site; other site 146919006964 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 146919006965 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 146919006966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919006967 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919006968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 146919006969 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 146919006970 dimerization interface; other site 146919006971 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919006972 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919006973 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 146919006974 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 146919006975 dimerization interface; other site 146919006976 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919006977 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919006978 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919006979 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 146919006980 N-acetyl-D-glucosamine binding site; other site 146919006981 catalytic residue; other site 146919006982 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 146919006983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006984 active site 146919006985 phosphorylation site 146919006986 intermolecular recognition site; other site 146919006987 dimerization interface; other site 146919006988 CheB methylesterase; Region: CheB_methylest; pfam01339 146919006989 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 146919006990 putative binding surface; other site 146919006991 active site 146919006992 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 146919006993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919006994 ATP binding site; other site 146919006995 Mg2+ binding site; other site 146919006996 G-X-G motif; other site 146919006997 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 146919006998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919006999 active site 146919007000 phosphorylation site 146919007001 intermolecular recognition site; other site 146919007002 dimerization interface; other site 146919007003 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 146919007004 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 146919007005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 146919007006 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 146919007007 putative CheA interaction surface; other site 146919007008 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 146919007009 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 146919007010 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 146919007011 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 146919007012 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 146919007013 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 146919007014 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 146919007015 Flagellar hook capping protein; Region: FlgD; cl04347 146919007016 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 146919007017 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 146919007018 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 146919007019 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 146919007020 Walker A motif/ATP binding site; other site 146919007021 Walker B motif; other site 146919007022 Flagellar assembly protein FliH; Region: FliH; pfam02108 146919007023 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 146919007024 FliG C-terminal domain; Region: FliG_C; pfam01706 146919007025 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 146919007026 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 146919007027 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 146919007028 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 146919007029 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 146919007030 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 146919007031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 146919007032 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919007033 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 146919007034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007035 active site 146919007036 phosphorylation site 146919007037 intermolecular recognition site; other site 146919007038 dimerization interface; other site 146919007039 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919007040 Walker A motif; other site 146919007041 ATP binding site; other site 146919007042 Walker B motif; other site 146919007043 arginine finger; other site 146919007044 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919007045 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 146919007046 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 146919007047 Flagellar protein FliS; Region: FliS; cl00654 146919007048 sulfotransferase family protein; Region: PLN02164 146919007049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 146919007050 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 146919007051 DNA-binding interface; DNA binding site 146919007052 Integrase core domain; Region: rve; cl01316 146919007053 IS1 transposase; Region: Transposase_27; cl00721 146919007054 flagellin; Reviewed; Region: PRK08869 146919007055 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 146919007056 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 146919007057 sulfotransferase family protein; Region: PLN02164 146919007058 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 146919007059 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919007060 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 146919007061 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 146919007062 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 146919007063 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 146919007064 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 146919007065 Flagellar L-ring protein; Region: FlgH; cl00905 146919007066 SAF domain; Region: SAF; cl00555 146919007067 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 146919007068 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 146919007069 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 146919007070 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 146919007071 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 146919007072 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 146919007073 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 146919007074 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 146919007075 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919007076 Walker A motif; other site 146919007077 ATP binding site; other site 146919007078 Walker B motif; other site 146919007079 arginine finger; other site 146919007080 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 146919007081 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (...; Region: Glycosylasparaginase; cd04513 146919007082 active site 146919007083 dimer interface; other site 146919007084 catalytic nucleophile; other site 146919007085 thioester reductase domain; Region: Thioester-redct; TIGR01746 146919007086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007087 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 146919007088 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 146919007089 RES domain; Region: RES; cl02411 146919007090 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 146919007091 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 146919007092 dimerization interface; other site 146919007093 ATP binding site; other site 146919007094 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 146919007095 dimerization interface; other site 146919007096 ATP binding site; other site 146919007097 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 146919007098 catalytic residues; other site 146919007099 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 146919007100 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 146919007101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007102 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 146919007103 putative peptidoglycan binding site; other site 146919007104 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 146919007105 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 146919007106 Sulfatase; Region: Sulfatase; cl10460 146919007107 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 146919007108 Domain of unknown function DUF28; Region: DUF28; cl00361 146919007109 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 includes...; Region: RuvC_resolvase; cd00529 146919007110 active site 146919007111 putative DNA-binding cleft; other site 146919007112 dimer interface; other site 146919007113 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 146919007114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919007115 Walker A/P-loop; other site 146919007116 ATP binding site; other site 146919007117 Q-loop/lid; other site 146919007118 ABC transporter signature motif; other site 146919007119 Walker B; other site 146919007120 D-loop; other site 146919007121 H-loop/switch region; other site 146919007122 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 146919007123 trigger factor; Region: tig; TIGR00115 146919007124 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 146919007125 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 146919007126 oligomer interface; other site 146919007127 active site residues 146919007128 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 146919007129 PPIC-type PPIASE domain; Region: Rotamase; cl08278 146919007130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 146919007131 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 146919007132 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 146919007133 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 146919007134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007135 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007136 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 146919007137 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007138 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 146919007139 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 146919007140 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 146919007141 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 146919007142 active site 146919007143 nucleophile elbow; other site 146919007144 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 146919007145 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 146919007146 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 146919007147 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 146919007148 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 146919007149 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 146919007150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3055 146919007151 kelch-like protein; Provisional; Region: PHA03098 146919007152 Kelch motif; Region: Kelch_1; cl02701 146919007153 Ferrochelatase; Region: Ferrochelatase; pfam00762 146919007154 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 146919007155 C-terminal domain interface; other site 146919007156 active site 146919007157 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 146919007158 active site 146919007159 N-terminal domain interface; other site 146919007160 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919007161 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 146919007162 ligand binding site; other site 146919007163 Domain of unknown function (DUF368); Region: DUF368; cl00893 146919007164 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 146919007165 binding surface 146919007166 TPR motif; other site 146919007167 tetratricopeptide repeat protein; Provisional; Region: PRK11788 146919007168 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 146919007169 binding surface 146919007170 TPR motif; other site 146919007171 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 146919007172 binding surface 146919007173 TPR motif; other site 146919007174 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 146919007175 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 146919007176 binding surface 146919007177 TPR motif; other site 146919007178 thymidylate kinase; Validated; Region: tmk; PRK00698 146919007179 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 146919007180 TMP-binding site; other site 146919007181 ATP-binding site; other site 146919007182 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 146919007183 metal binding site 2; metal-binding site 146919007184 putative DNA binding helix; other site 146919007185 metal binding site 1; metal-binding site 146919007186 dimer interface; other site 146919007187 structural Zn2+ binding site; other site 146919007188 Mechanosensitive ion channel; Region: MS_channel; pfam00924 146919007189 UDP-glucuronate decarboxylase; Region: PLN02206 146919007190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007192 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 146919007193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007194 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 146919007195 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 146919007196 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 146919007197 putative catalytic residue; other site 146919007198 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 146919007199 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 146919007200 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 146919007201 DsbD alpha interface; other site 146919007202 catalytic residues; other site 146919007203 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cl02468 146919007204 Ca2+ binding site; other site 146919007205 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 146919007206 The Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily belongs to the M14 family of metallocarboxypeptidases (MCPs), and includes ASTE, which catalyzes the fifth and last step in arginine catabolism by the arginine...; Region: M14_ASTE_ASPA_like; cd06230 146919007207 active site 146919007208 Zn-binding site; other site 146919007209 multidrug efflux protein; Reviewed; Region: PRK01766 146919007210 MatE; Region: MatE; pfam01554 146919007211 MatE; Region: MatE; pfam01554 146919007212 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 146919007213 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007214 Beta-lactamase; Region: Beta-lactamase; cl01009 146919007215 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007216 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007217 Histidine kinase; Region: His_kinase; pfam06580 146919007218 Histidine kinase-like ATPases; This family includes several ATP-binding 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 146919007219 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 146919007220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007221 active site 146919007222 phosphorylation site 146919007223 intermolecular recognition site; other site 146919007224 dimerization interface; other site 146919007225 LytTr DNA-binding domain; Region: LytTR; cl04498 146919007226 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 146919007227 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 146919007228 N-terminal plug; other site 146919007229 ligand-binding site; other site 146919007230 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 146919007231 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 146919007232 putative hemin binding site; other site 146919007233 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 146919007234 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 146919007235 putative PBP binding regions; other site 146919007236 ABC-ATPase subunit interface; other site 146919007237 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919007238 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 146919007239 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 146919007240 Walker A/P-loop; other site 146919007241 ATP binding site; other site 146919007242 Q-loop/lid; other site 146919007243 ABC transporter signature motif; other site 146919007244 Walker B; other site 146919007245 D-loop; other site 146919007246 H-loop/switch region; other site 146919007247 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 146919007248 ChuX-like family; Region: DUF1008; cl01509 146919007249 ChuX-like family; Region: DUF1008; cl01509 146919007250 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 146919007251 S-adenosylmethionine binding site; other site 146919007252 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 146919007253 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 146919007254 N-terminal plug; other site 146919007255 ligand-binding site; other site 146919007256 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 146919007257 active site residue 146919007258 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 146919007259 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...; Region: OM_channels; cl00284 146919007260 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 146919007261 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 146919007262 dimer interface; other site 146919007263 active site 146919007264 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 146919007265 CoenzymeA binding site; other site 146919007266 subunit interaction site; other site 146919007267 PHB binding site; other site 146919007268 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919007269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919007270 Predicted esterase [General function prediction only]; Region: COG0400 146919007271 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007272 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 146919007273 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 146919007274 primosome assembly protein PriA; Validated; Region: PRK05580 146919007275 primosome assembly protein PriA; Validated; Region: PRK05580 146919007276 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 146919007277 ATP binding site; other site 146919007278 putative Mg++ binding site; other site 146919007279 transcriptional activator RfaH; Region: RfaH; TIGR01955 146919007280 Transcription termination factor nusG; Region: NusG; cl02766 146919007281 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 146919007282 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 146919007283 ATP binding site; other site 146919007284 putative Mg++ binding site; other site 146919007285 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 146919007286 nucleotide binding region; other site 146919007287 ATP-binding site; other site 146919007288 Helicase associated domain (HA2); Region: HA2; cl04503 146919007289 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 146919007290 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 146919007291 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 146919007292 active site 146919007293 motif I; other site 146919007294 motif II; other site 146919007295 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 146919007296 active site 146919007297 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 146919007298 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 146919007299 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 146919007300 Outer membrane efflux protein; Region: OEP; pfam02321 146919007301 Outer membrane efflux protein; Region: OEP; pfam02321 146919007302 Protein of unknown function (DUF721); Region: DUF721; cl02324 146919007303 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 146919007304 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 146919007305 dimer interface; other site 146919007306 active site 146919007307 Phosphopantetheine attachment site; Region: PP-binding; cl09936 146919007308 S-adenosylmethionine synthetase; Validated; Region: PRK05250 146919007309 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 146919007310 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 146919007311 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 146919007312 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 146919007313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919007314 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919007315 DNA binding residues 146919007316 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919007317 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 146919007318 catalytic nucleophile; other site 146919007319 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 146919007320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 146919007321 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 146919007322 DNA binding residues 146919007323 Protein of unknown function (DUF971); Region: DUF971; cl01414 146919007324 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 146919007325 ATP binding site; other site 146919007326 putative Mg++ binding site; other site 146919007327 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 146919007328 nucleotide binding region; other site 146919007329 ATP-binding site; other site 146919007330 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 146919007331 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 146919007332 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 146919007333 enoyl-CoA hydratase; Provisional; Region: PRK05980 146919007334 substrate binding site; other site 146919007335 oxyanion hole (OAH) forming residues; other site 146919007336 trimer interface; other site 146919007337 Predicted dehydrogenase [General function prediction only]; Region: COG0579 146919007338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007339 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 146919007340 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 146919007341 conserved hypothetical protein TIGR03442; Region: TIGR03442 146919007342 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 146919007343 putative active site; other site 146919007344 putative dimer interface; other site 146919007345 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 146919007346 Transposase; Region: Transposase_9; pfam01548 146919007347 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 146919007348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919007349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919007350 Uncharacterized conserved protein [Function unknown]; Region: COG2128 146919007351 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 146919007352 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 146919007353 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 146919007354 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 146919007355 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 146919007356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007357 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919007358 Sodium:solute symporter family; Region: SSF; cl00456 146919007359 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 146919007360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919007362 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 146919007363 NADH dehydrogenase; Region: NADHdh; cl00469 146919007364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 146919007365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 146919007366 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 146919007367 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 146919007368 dimer interface; other site 146919007369 pyridoxal 5'-phosphate binding site; other site 146919007370 catalytic residue; other site 146919007371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 146919007372 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 146919007373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007374 active site 146919007375 phosphorylation site 146919007376 intermolecular recognition site; other site 146919007377 dimerization interface; other site 146919007378 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 146919007379 DNA binding residues 146919007380 dimerization interface; other site 146919007381 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 146919007382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007383 active site 146919007384 phosphorylation site 146919007385 intermolecular recognition site; other site 146919007386 dimerization interface; other site 146919007387 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 146919007388 DNA binding residues 146919007389 dimerization interface; other site 146919007390 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 146919007391 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919007392 ATP binding site; other site 146919007393 Mg2+ binding site; other site 146919007394 G-X-G motif; other site 146919007395 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 146919007396 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 146919007397 CoA-binding site; other site 146919007398 ATP-binding; other site 146919007399 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 146919007400 nucleotide binding site/active site; other site 146919007401 HIT family signature motif; other site 146919007402 catalytic residue; other site 146919007403 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 146919007404 active site 146919007405 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 146919007406 homodecamer interface; other site 146919007407 GTP cyclohydrolase I; Provisional; Region: PLN03044 146919007408 active site 146919007409 putative catalytic site residues; other site 146919007410 zinc binding site; other site 146919007411 GTP-CH-I/GFRP interaction surface; other site 146919007412 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 146919007413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007414 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 146919007415 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 146919007416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 146919007417 Coenzyme A binding pocket; other site 146919007418 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 146919007419 Peptidase dimerization domain; Region: M20_dimer; cl09126 146919007420 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 146919007421 active site 146919007422 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 146919007423 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase...; Region: TGS_ThrRS_N; cd01667 146919007424 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 146919007425 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 146919007426 active site 146919007427 dimer interface; other site 146919007428 motif 1; other site 146919007429 motif 2; other site 146919007430 motif 3; other site 146919007431 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 146919007432 anticodon binding site; other site 146919007433 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 146919007434 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 146919007435 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 146919007436 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 146919007437 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 146919007438 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 146919007439 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 146919007440 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 146919007441 dimer interface; other site 146919007442 motif 1; other site 146919007443 active site 146919007444 motif 2; other site 146919007445 motif 3; other site 146919007446 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 146919007447 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 146919007448 putative tRNA-binding site; other site 146919007449 B3/4 domain; Region: B3_4; cl11458 146919007450 tRNA synthetase B5 domain; Region: B5; cl08394 146919007451 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 146919007452 dimer interface; other site 146919007453 motif 1; other site 146919007454 motif 3; other site 146919007455 motif 2; other site 146919007456 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 146919007457 Cell division protein ZapA; Region: ZapA; cl01146 146919007458 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 146919007459 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 146919007460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 146919007461 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 146919007462 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 146919007463 Glycosyl hydrolase family 18; Region: Glyco_18; smart00636 146919007464 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 146919007465 active site 146919007466 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 146919007467 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919007468 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 146919007469 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 146919007470 active site 146919007471 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 146919007472 Fic/DOC family; Region: Fic; cl00960 146919007473 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...; Region: TlpA_like_family; cd02966 146919007474 catalytic residues; other site 146919007475 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...; Region: TlpA_like_family; cd02966 146919007476 catalytic residues; other site 146919007477 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 146919007478 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 146919007479 S-adenosylmethionine binding site; other site 146919007480 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 146919007481 Surface antigen; Region: Surface_Ag_2; cl01155 146919007482 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 146919007483 B-cell receptor-associated protein 31-like; Region: Bap31; cl02219 146919007484 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 146919007485 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919007486 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919007487 Outer membrane efflux protein; Region: OEP; pfam02321 146919007488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919007489 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 146919007490 Nitrogen regulatory protein P-II; Region: P-II; cl00412 146919007491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 146919007492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007493 active site 146919007494 phosphorylation site 146919007495 intermolecular recognition site; other site 146919007496 dimerization interface; other site 146919007497 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 146919007498 DNA binding site 146919007499 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 146919007500 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 146919007501 dimer interface; other site 146919007502 phosphorylation site 146919007503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919007504 ATP binding site; other site 146919007505 Mg2+ binding site; other site 146919007506 G-X-G motif; other site 146919007507 GAF domain; Region: GAF; cl00853 146919007508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 146919007509 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 146919007510 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 146919007511 Clp amino terminal domain; Region: Clp_N; pfam02861 146919007512 Clp amino terminal domain; Region: Clp_N; pfam02861 146919007513 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919007514 Walker A motif; other site 146919007515 ATP binding site; other site 146919007516 Walker B motif; other site 146919007517 arginine finger; other site 146919007518 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 146919007519 Walker A motif; other site 146919007520 ATP binding site; other site 146919007521 Walker B motif; other site 146919007522 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 146919007523 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 146919007524 Cupin domain; Region: Cupin_2; cl09118 146919007525 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 146919007526 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 146919007527 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 146919007528 Walker A/P-loop; other site 146919007529 ATP binding site; other site 146919007530 Q-loop/lid; other site 146919007531 ABC transporter signature motif; other site 146919007532 Walker B; other site 146919007533 D-loop; other site 146919007534 H-loop/switch region; other site 146919007535 Transcriptional regulators [Transcription]; Region: PurR; COG1609 146919007536 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 146919007537 DNA binding site 146919007538 domain linker motif; other site 146919007539 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 146919007540 ligand binding site; other site 146919007541 dimerization interface; other site 146919007542 Sodium:solute symporter family; Region: SSF; cl00456 146919007543 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919007544 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 146919007545 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...; Region: OM_channels; cl00284 146919007546 SusD family; Region: SusD; pfam07980 146919007547 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 146919007548 Laminarinase, also known as glucan endo-1,3-beta-D-glucosidase, is a glycosyl hydrolase family 16 member that hydrolyzes 1,3-beta-D-glucosidic linkages in 1,3-beta-D-glucans such as laminarins, curdlans, paramylons, and pachymans, with very limited...; Region: GH16_laminarinase; cd02180 146919007549 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 146919007550 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 146919007551 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 146919007552 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 146919007553 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 146919007554 putative substrate translocation pore; other site 146919007555 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 146919007556 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 146919007557 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 146919007558 Walker A/P-loop; other site 146919007559 ATP binding site; other site 146919007560 Q-loop/lid; other site 146919007561 ABC transporter signature motif; other site 146919007562 Walker B; other site 146919007563 D-loop; other site 146919007564 H-loop/switch region; other site 146919007565 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 146919007566 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 146919007567 Outer membrane efflux protein; Region: OEP; pfam02321 146919007568 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 146919007569 Outer membrane efflux protein; Region: OEP; pfam02321 146919007570 Outer membrane efflux protein; Region: OEP; pfam02321 146919007571 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 146919007572 Predicted permease; Region: FtsX; cl11418 146919007573 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 146919007574 Predicted permease; Region: FtsX; cl11418 146919007575 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 146919007576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 146919007577 active site 146919007578 phosphorylation site 146919007579 intermolecular recognition site; other site 146919007580 dimerization interface; other site 146919007581 LytTr DNA-binding domain; Region: LytTR; cl04498 146919007582 Histidine kinase; Region: His_kinase; pfam06580 146919007583 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 146919007584 ATP binding site; other site 146919007585 Mg2+ binding site; other site 146919007586 G-X-G motif; other site 146919007587 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 146919007588 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 146919007589 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...; Region: OM_channels; cl00284 146919007590 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...; Region: OM_channels; cl00284 146919007591 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 146919007592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 146919007593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 146919007594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411