-- dump date 20140620_042700 -- class Genbank::misc_feature -- table misc_feature_note -- id note 309807000001 UNKNOWN FEATURE KEY Comment; Salinibacter ruber strain M31T DSM13855 was obtained from the DSMZ (German Collection of Microorganisms and Cell Cultures) culture collection at http://www.dsmz.de/microorganisms/html/strains/strain.dsm0 13855.html . The S. ruber growth medium is described at http://www.dsmz.de/microorganisms/html/media/medium000936. html (DSMZ medium 936). 309807000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 309807000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 309807000004 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807000005 Walker A motif; other site 309807000006 ATP binding site [chemical binding]; other site 309807000007 Walker B motif; other site 309807000008 arginine finger; other site 309807000009 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 309807000010 DnaA box-binding interface [nucleotide binding]; other site 309807000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 309807000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 309807000013 putative DNA binding surface [nucleotide binding]; other site 309807000014 dimer interface [polypeptide binding]; other site 309807000015 beta-clamp/clamp loader binding surface; other site 309807000016 beta-clamp/translesion DNA polymerase binding surface; other site 309807000017 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309807000018 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 309807000019 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807000020 DNA binding residues [nucleotide binding] 309807000021 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 309807000022 Cu(I) binding site [ion binding]; other site 309807000023 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 309807000024 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 309807000025 putative NAD(P) binding site [chemical binding]; other site 309807000026 active site 309807000027 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 309807000028 substrate binding site [chemical binding]; other site 309807000029 hexamer interface [polypeptide binding]; other site 309807000030 metal binding site [ion binding]; metal-binding site 309807000031 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 309807000032 putative homodimer interface [polypeptide binding]; other site 309807000033 putative homotetramer interface [polypeptide binding]; other site 309807000034 putative allosteric switch controlling residues; other site 309807000035 putative metal binding site [ion binding]; other site 309807000036 putative homodimer-homodimer interface [polypeptide binding]; other site 309807000037 Preprotein translocase subunit; Region: YajC; pfam02699 309807000038 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 309807000039 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 309807000040 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 309807000041 dimerization interface [polypeptide binding]; other site 309807000042 active site 309807000043 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 309807000044 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 309807000045 Competence protein; Region: Competence; pfam03772 309807000046 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 309807000047 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 309807000048 transcription antitermination factor NusB; Region: nusB; TIGR01951 309807000049 putative RNA binding site [nucleotide binding]; other site 309807000050 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 309807000051 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 309807000052 active site 309807000053 metal binding site [ion binding]; metal-binding site 309807000054 GTP-binding protein YchF; Reviewed; Region: PRK09601 309807000055 YchF GTPase; Region: YchF; cd01900 309807000056 G1 box; other site 309807000057 GTP/Mg2+ binding site [chemical binding]; other site 309807000058 Switch I region; other site 309807000059 G2 box; other site 309807000060 Switch II region; other site 309807000061 G3 box; other site 309807000062 G4 box; other site 309807000063 G5 box; other site 309807000064 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 309807000065 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309807000066 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807000067 FtsX-like permease family; Region: FtsX; pfam02687 309807000068 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 309807000069 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 309807000070 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 309807000071 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 309807000072 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 309807000073 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 309807000074 Walker A motif; other site 309807000075 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 309807000076 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 protein; Region: Hint; cd00081 309807000077 protein-splicing catalytic site; other site 309807000078 thioester formation/cholesterol transfer; other site 309807000079 LAGLIDADG-like domain; Region: LAGLIDADG_3; pfam14528 309807000080 replicative DNA helicase; Region: DnaB; TIGR00665 309807000081 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 309807000082 ATP binding site [chemical binding]; other site 309807000083 Walker B motif; other site 309807000084 DNA binding loops [nucleotide binding] 309807000085 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 309807000086 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 309807000087 Fe-S cluster binding site [ion binding]; other site 309807000088 active site 309807000089 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 309807000090 Flavoprotein; Region: Flavoprotein; cl19190 309807000091 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 309807000092 Guanylate kinase; Region: Guanylate_kin; pfam00625 309807000093 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 309807000094 catalytic site [active] 309807000095 G-X2-G-X-G-K; other site 309807000096 hypothetical protein; Provisional; Region: PRK11820 309807000097 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 309807000098 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 309807000099 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 309807000100 hinge region; other site 309807000101 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 309807000102 putative nucleotide binding site [chemical binding]; other site 309807000103 uridine monophosphate binding site [chemical binding]; other site 309807000104 homohexameric interface [polypeptide binding]; other site 309807000105 elongation factor Ts; Provisional; Region: tsf; PRK09377 309807000106 UBA/TS-N domain; Region: UBA; pfam00627 309807000107 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 309807000108 rRNA interaction site [nucleotide binding]; other site 309807000109 S8 interaction site; other site 309807000110 putative laminin-1 binding site; other site 309807000111 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 309807000112 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 309807000113 23S rRNA interface [nucleotide binding]; other site 309807000114 L3 interface [polypeptide binding]; other site 309807000115 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 309807000116 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 309807000117 putative phosphate acyltransferase; Provisional; Region: PRK05331 309807000118 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 309807000119 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 309807000120 dimer interface [polypeptide binding]; other site 309807000121 active site 309807000122 CoA binding pocket [chemical binding]; other site 309807000123 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 309807000124 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 309807000125 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 309807000126 NAD(P) binding site [chemical binding]; other site 309807000127 homotetramer interface [polypeptide binding]; other site 309807000128 homodimer interface [polypeptide binding]; other site 309807000129 active site 309807000130 helicase 45; Provisional; Region: PTZ00424 309807000131 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 309807000132 ATP binding site [chemical binding]; other site 309807000133 Mg++ binding site [ion binding]; other site 309807000134 motif III; other site 309807000135 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 309807000136 nucleotide binding region [chemical binding]; other site 309807000137 ATP-binding site [chemical binding]; other site 309807000138 Predicted membrane protein [Function unknown]; Region: COG2259 309807000139 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 309807000140 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 309807000141 FOG: PKD repeat [General function prediction only]; Region: COG3291 309807000142 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 309807000143 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 309807000144 ribonuclease P; Reviewed; Region: rnpA; PRK01903 309807000145 membrane protein insertase; Provisional; Region: PRK01318 309807000146 YidC periplasmic domain; Region: YidC_periplas; pfam14849 309807000147 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 309807000148 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 309807000149 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 309807000150 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 309807000151 GTP/Mg2+ binding site [chemical binding]; other site 309807000152 G4 box; other site 309807000153 G5 box; other site 309807000154 trmE is a tRNA modification GTPase; Region: trmE; cd04164 309807000155 G1 box; other site 309807000156 G1 box; other site 309807000157 GTP/Mg2+ binding site [chemical binding]; other site 309807000158 Switch I region; other site 309807000159 G2 box; other site 309807000160 Switch II region; other site 309807000161 G3 box; other site 309807000162 G4 box; other site 309807000163 G5 box; other site 309807000164 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 309807000165 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 309807000166 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 309807000167 active site 309807000168 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 309807000169 active site 2 [active] 309807000170 active site 1 [active] 309807000171 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 309807000172 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 309807000173 Double zinc ribbon; Region: DZR; pfam12773 309807000174 Homeodomain-like domain; Region: HTH_32; pfam13565 309807000175 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 309807000176 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 309807000177 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 309807000178 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 309807000179 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807000180 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 309807000181 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807000182 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 309807000183 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 309807000184 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 309807000185 ATP binding site [chemical binding]; other site 309807000186 putative Mg++ binding site [ion binding]; other site 309807000187 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 309807000188 nucleotide binding region [chemical binding]; other site 309807000189 ATP-binding site [chemical binding]; other site 309807000190 TRCF domain; Region: TRCF; pfam03461 309807000191 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 309807000192 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 309807000193 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 309807000194 putative active site [active] 309807000195 CHAT domain; Region: CHAT; pfam12770 309807000196 recombination protein F; Reviewed; Region: recF; PRK00064 309807000197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807000198 Walker A/P-loop; other site 309807000199 ATP binding site [chemical binding]; other site 309807000200 Q-loop/lid; other site 309807000201 ABC transporter signature motif; other site 309807000202 Walker B; other site 309807000203 D-loop; other site 309807000204 H-loop/switch region; other site 309807000205 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 309807000206 Peptidase family M48; Region: Peptidase_M48; pfam01435 309807000207 (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 thioesterase...; Region: R_hydratase; cd03449 309807000208 dimer interaction site [polypeptide binding]; other site 309807000209 substrate-binding tunnel; other site 309807000210 active site 309807000211 catalytic site [active] 309807000212 substrate binding site [chemical binding]; other site 309807000213 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 309807000214 MMPL family; Region: MMPL; cl14618 309807000215 MMPL family; Region: MMPL; cl14618 309807000216 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 309807000217 active site 309807000218 DNA binding site [nucleotide binding] 309807000219 Int/Topo IB signature motif; other site 309807000220 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 309807000221 putative active site [active] 309807000222 homotetrameric interface [polypeptide binding]; other site 309807000223 metal binding site [ion binding]; metal-binding site 309807000224 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 309807000225 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 309807000226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000228 dimer interface [polypeptide binding]; other site 309807000229 phosphorylation site [posttranslational modification] 309807000230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000231 ATP binding site [chemical binding]; other site 309807000232 Mg2+ binding site [ion binding]; other site 309807000233 G-X-G motif; other site 309807000234 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 309807000235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807000236 active site 309807000237 phosphorylation site [posttranslational modification] 309807000238 intermolecular recognition site; other site 309807000239 dimerization interface [polypeptide binding]; other site 309807000240 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 309807000241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 309807000242 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 309807000243 mercuric reductase; Validated; Region: PRK06370 309807000244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 309807000245 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 309807000246 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 309807000247 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 309807000248 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 309807000249 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 309807000250 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 309807000251 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 309807000252 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 309807000253 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 309807000254 putative active site [active] 309807000255 catalytic residue [active] 309807000256 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 309807000257 active site 309807000258 dimer interface [polypeptide binding]; other site 309807000259 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...; Region: SIS_TAL_PGI; cd05798 309807000260 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 309807000261 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807000262 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807000263 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309807000264 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 309807000265 Outer membrane efflux protein; Region: OEP; pfam02321 309807000266 Outer membrane efflux protein; Region: OEP; pfam02321 309807000267 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807000268 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807000269 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807000270 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807000271 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807000272 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 309807000273 GAF domain; Region: GAF_2; pfam13185 309807000274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000275 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000276 dimer interface [polypeptide binding]; other site 309807000277 phosphorylation site [posttranslational modification] 309807000278 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000279 ATP binding site [chemical binding]; other site 309807000280 Mg2+ binding site [ion binding]; other site 309807000281 G-X-G motif; other site 309807000282 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 309807000283 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000284 putative active site [active] 309807000285 heme pocket [chemical binding]; other site 309807000286 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 309807000287 putative active site [active] 309807000288 heme pocket [chemical binding]; other site 309807000289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807000290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000291 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000292 dimer interface [polypeptide binding]; other site 309807000293 phosphorylation site [posttranslational modification] 309807000294 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000295 ATP binding site [chemical binding]; other site 309807000296 Mg2+ binding site [ion binding]; other site 309807000297 G-X-G motif; other site 309807000298 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 309807000299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807000300 4Fe-4S binding domain; Region: Fer4_5; pfam12801 309807000301 4Fe-4S binding domain; Region: Fer4_5; pfam12801 309807000302 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 309807000303 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 309807000304 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 309807000305 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 309807000306 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 309807000307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000308 ATP binding site [chemical binding]; other site 309807000309 Mg2+ binding site [ion binding]; other site 309807000310 G-X-G motif; other site 309807000311 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 309807000312 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 309807000313 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 309807000314 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807000315 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000316 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 309807000317 putative active site [active] 309807000318 heme pocket [chemical binding]; other site 309807000319 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 309807000320 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000321 putative active site [active] 309807000322 heme pocket [chemical binding]; other site 309807000323 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000324 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 309807000325 putative active site [active] 309807000326 heme pocket [chemical binding]; other site 309807000327 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 309807000328 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 309807000329 putative active site [active] 309807000330 heme pocket [chemical binding]; other site 309807000331 GAF domain; Region: GAF_2; pfam13185 309807000332 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000333 dimer interface [polypeptide binding]; other site 309807000334 phosphorylation site [posttranslational modification] 309807000335 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000336 ATP binding site [chemical binding]; other site 309807000337 Mg2+ binding site [ion binding]; other site 309807000338 G-X-G motif; other site 309807000339 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807000340 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807000341 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807000342 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 309807000343 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 309807000344 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807000345 LemA family; Region: LemA; pfam04011 309807000346 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; cl01535 309807000347 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 309807000348 TPR repeat; Region: TPR_11; pfam13414 309807000349 binding surface 309807000350 TPR motif; other site 309807000351 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 309807000352 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 309807000353 Peptidase family M48; Region: Peptidase_M48; cl12018 309807000354 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 309807000355 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 309807000356 Cu(I) binding site [ion binding]; other site 309807000357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807000358 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807000359 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807000360 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 309807000361 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309807000362 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309807000363 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 309807000364 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 309807000365 dimerization interface [polypeptide binding]; other site 309807000366 putative DNA binding site [nucleotide binding]; other site 309807000367 putative Zn2+ binding site [ion binding]; other site 309807000368 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; cl19816 309807000369 VCBS repeat; Region: VCBS_repeat; TIGR01965 309807000370 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807000371 acyl-coenzyme A oxidase; Region: PLN02526 309807000372 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309807000373 active site 309807000374 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807000375 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807000376 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807000377 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 309807000378 Domain of unknown function (DUF4559); Region: DUF4559; pfam15112 309807000379 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 309807000380 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 309807000381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000382 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000383 dimer interface [polypeptide binding]; other site 309807000384 phosphorylation site [posttranslational modification] 309807000385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000386 ATP binding site [chemical binding]; other site 309807000387 Mg2+ binding site [ion binding]; other site 309807000388 G-X-G motif; other site 309807000389 TraB family; Region: TraB; pfam01963 309807000390 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 309807000391 dimer interface [polypeptide binding]; other site 309807000392 putative radical transfer pathway; other site 309807000393 diiron center [ion binding]; other site 309807000394 tyrosyl radical; other site 309807000395 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 309807000396 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 protein; Region: Hint; cd00081 309807000397 protein-splicing catalytic site; other site 309807000398 thioester formation/cholesterol transfer; other site 309807000399 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 309807000400 LAGLIDADG-like domain; Region: LAGLIDADG_3; pfam14528 309807000401 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 309807000402 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 309807000403 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 309807000404 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 309807000405 putative substrate translocation pore; other site 309807000406 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 309807000407 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 309807000408 FAD binding pocket [chemical binding]; other site 309807000409 conserved FAD binding motif [chemical binding]; other site 309807000410 phosphate binding motif [ion binding]; other site 309807000411 beta-alpha-beta structure motif; other site 309807000412 NAD binding pocket [chemical binding]; other site 309807000413 Predicted transcriptional regulator [Transcription]; Region: COG2345 309807000414 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 309807000415 dimerization interface [polypeptide binding]; other site 309807000416 putative DNA binding site [nucleotide binding]; other site 309807000417 putative Zn2+ binding site [ion binding]; other site 309807000418 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 309807000419 PAS domain; Region: PAS_9; pfam13426 309807000420 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 309807000421 putative active site [active] 309807000422 heme pocket [chemical binding]; other site 309807000423 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807000424 dimerization interface [polypeptide binding]; other site 309807000425 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807000426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807000427 dimer interface [polypeptide binding]; other site 309807000428 putative CheW interface [polypeptide binding]; other site 309807000429 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 309807000430 Ligand Binding Site [chemical binding]; other site 309807000431 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 309807000432 Ligand Binding Site [chemical binding]; other site 309807000433 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 309807000434 PAS fold; Region: PAS_3; pfam08447 309807000435 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807000436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000437 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000438 dimer interface [polypeptide binding]; other site 309807000439 phosphorylation site [posttranslational modification] 309807000440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000441 ATP binding site [chemical binding]; other site 309807000442 Mg2+ binding site [ion binding]; other site 309807000443 G-X-G motif; other site 309807000444 Permeases of the major facilitator superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / Inorganic ion transport and metabolism / General function prediction only]; Region: ProP; COG0477 309807000445 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 309807000446 putative substrate translocation pore; other site 309807000447 PAS domain; Region: PAS_9; pfam13426 309807000448 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 309807000449 putative active site [active] 309807000450 heme pocket [chemical binding]; other site 309807000451 PAS fold; Region: PAS_3; pfam08447 309807000452 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 309807000453 putative active site [active] 309807000454 heme pocket [chemical binding]; other site 309807000455 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 309807000456 putative active site [active] 309807000457 PAS fold; Region: PAS_3; pfam08447 309807000458 heme pocket [chemical binding]; other site 309807000459 PAS domain S-box; Region: sensory_box; TIGR00229 309807000460 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 309807000461 putative active site [active] 309807000462 heme pocket [chemical binding]; other site 309807000463 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 309807000464 PAS domain; Region: PAS_9; pfam13426 309807000465 putative active site [active] 309807000466 heme pocket [chemical binding]; other site 309807000467 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 309807000468 PAS fold; Region: PAS_3; pfam08447 309807000469 putative active site [active] 309807000470 heme pocket [chemical binding]; other site 309807000471 PAS fold; Region: PAS_4; pfam08448 309807000472 GAF domain; Region: GAF_2; pfam13185 309807000473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000474 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000475 dimer interface [polypeptide binding]; other site 309807000476 phosphorylation site [posttranslational modification] 309807000477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000478 ATP binding site [chemical binding]; other site 309807000479 Mg2+ binding site [ion binding]; other site 309807000480 G-X-G motif; other site 309807000481 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 309807000482 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309807000483 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 309807000484 Walker A/P-loop; other site 309807000485 ATP binding site [chemical binding]; other site 309807000486 Q-loop/lid; other site 309807000487 ABC transporter signature motif; other site 309807000488 Walker B; other site 309807000489 D-loop; other site 309807000490 H-loop/switch region; other site 309807000491 CAAX protease self-immunity; Region: Abi; pfam02517 309807000492 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 309807000493 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 309807000494 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 309807000495 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 309807000496 catalytic motif [active] 309807000497 Catalytic residue [active] 309807000498 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309807000499 catalytic residues [active] 309807000500 large tegument protein UL36; Provisional; Region: PHA03247 309807000501 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807000502 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 309807000503 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 309807000504 dimer interface [polypeptide binding]; other site 309807000505 putative CheW interface [polypeptide binding]; other site 309807000506 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 309807000507 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 309807000508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807000509 Conserved oligomeric complex COG6; Region: COG6; cl19764 309807000510 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807000511 dimerization interface [polypeptide binding]; other site 309807000512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807000513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807000514 dimer interface [polypeptide binding]; other site 309807000515 putative CheW interface [polypeptide binding]; other site 309807000516 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 309807000517 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 309807000518 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 309807000519 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807000520 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 309807000521 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807000522 PAS fold; Region: PAS_4; pfam08448 309807000523 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 309807000524 putative active site [active] 309807000525 heme pocket [chemical binding]; other site 309807000526 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 309807000527 PAS fold; Region: PAS_3; pfam08447 309807000528 putative active site [active] 309807000529 heme pocket [chemical binding]; other site 309807000530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309807000531 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000532 dimer interface [polypeptide binding]; other site 309807000533 phosphorylation site [posttranslational modification] 309807000534 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000535 ATP binding site [chemical binding]; other site 309807000536 Mg2+ binding site [ion binding]; other site 309807000537 G-X-G motif; other site 309807000538 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309807000539 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 309807000540 Walker A/P-loop; other site 309807000541 ATP binding site [chemical binding]; other site 309807000542 Q-loop/lid; other site 309807000543 ABC transporter signature motif; other site 309807000544 Walker B; other site 309807000545 D-loop; other site 309807000546 H-loop/switch region; other site 309807000547 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 309807000548 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 309807000549 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 309807000550 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 309807000551 Zn binding site [ion binding]; other site 309807000552 Secretin and TonB N terminus short domain; Region: STN; smart00965 309807000553 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807000554 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807000555 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 309807000556 FecR protein; Region: FecR; pfam04773 309807000557 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 309807000558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807000559 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807000560 DNA binding residues [nucleotide binding] 309807000561 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 309807000562 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 309807000563 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 309807000564 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 309807000565 HEPN domain; Region: HEPN; cl00824 309807000566 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807000567 active site 309807000568 NTP binding site [chemical binding]; other site 309807000569 metal binding triad [ion binding]; metal-binding site 309807000570 antibiotic binding site [chemical binding]; other site 309807000571 RES domain; Region: RES; pfam08808 309807000572 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 309807000573 identified by match to protein family HMM PF03400; similar to ISSru2, transposase insAB 309807000574 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807000575 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 309807000576 DNA-binding interface [nucleotide binding]; DNA binding site 309807000577 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 309807000578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 309807000579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 309807000580 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 309807000581 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 309807000582 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000583 putative active site [active] 309807000584 heme pocket [chemical binding]; other site 309807000585 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 309807000586 putative active site [active] 309807000587 heme pocket [chemical binding]; other site 309807000588 PAS fold; Region: PAS_4; pfam08448 309807000589 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 309807000590 putative active site [active] 309807000591 heme pocket [chemical binding]; other site 309807000592 GAF domain; Region: GAF_2; pfam13185 309807000593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000594 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000595 dimer interface [polypeptide binding]; other site 309807000596 phosphorylation site [posttranslational modification] 309807000597 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000598 ATP binding site [chemical binding]; other site 309807000599 Mg2+ binding site [ion binding]; other site 309807000600 G-X-G motif; other site 309807000601 Transposase IS200 like; Region: Y1_Tnp; pfam01797 309807000602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807000603 Probable transposase; Region: OrfB_IS605; pfam01385 309807000604 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807000605 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 309807000606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807000607 Probable transposase; Region: OrfB_IS605; pfam01385 309807000608 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807000609 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 309807000610 putative active site [active] 309807000611 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 309807000612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807000613 Probable transposase; Region: OrfB_IS605; pfam01385 309807000614 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807000615 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 309807000616 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 309807000617 Protein of unknown function (DUF433); Region: DUF433; pfam04255 309807000618 PIN domain; Region: PIN_3; pfam13470 309807000619 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 309807000620 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 309807000621 putative trimer interface [polypeptide binding]; other site 309807000622 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 309807000623 putative active site [active] 309807000624 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 309807000625 putative active site [active] 309807000626 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 309807000627 putative CoA binding site [chemical binding]; other site 309807000628 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 309807000629 Protein of unknown function (DUF433); Region: DUF433; cl01030 309807000630 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 309807000631 putative active site [active] 309807000632 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 309807000633 homotetrameric interface [polypeptide binding]; other site 309807000634 putative active site [active] 309807000635 metal binding site [ion binding]; metal-binding site 309807000636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807000637 Probable transposase; Region: OrfB_IS605; pfam01385 309807000638 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807000639 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 309807000640 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 309807000641 putative trimer interface [polypeptide binding]; other site 309807000642 putative CoA binding site [chemical binding]; other site 309807000643 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 309807000644 putative active site [active] 309807000645 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 309807000646 putative glycosyl transferase; Provisional; Region: PRK10307 309807000647 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 309807000648 Transposase; Region: DEDD_Tnp_IS110; pfam01548 309807000649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 309807000650 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 309807000651 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 309807000652 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 309807000653 putative active site [active] 309807000654 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 309807000655 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 309807000656 putative active site [active] 309807000657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807000658 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 309807000659 Probable transposase; Region: OrfB_IS605; pfam01385 309807000660 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807000661 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 309807000662 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 309807000663 ring oligomerisation interface [polypeptide binding]; other site 309807000664 ATP/Mg binding site [chemical binding]; other site 309807000665 stacking interactions; other site 309807000666 hinge regions; other site 309807000667 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 309807000668 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 309807000669 dimer interface [polypeptide binding]; other site 309807000670 active site 309807000671 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 309807000672 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 309807000673 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 309807000674 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 309807000675 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 309807000676 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 309807000677 Ferredoxin [Energy production and conversion]; Region: COG1146 309807000678 4Fe-4S binding domain; Region: Fer4; pfam00037 309807000679 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 309807000680 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 309807000681 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 309807000682 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 309807000683 Double zinc ribbon; Region: DZR; pfam12773 309807000684 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 309807000685 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 309807000686 Staphylococcal nuclease homologues; Region: SNc; smart00318 309807000687 Staphylococcal nuclease homologue; Region: SNase; cl00140 309807000688 CAAX protease self-immunity; Region: Abi; pfam02517 309807000689 GAF domain; Region: GAF; pfam01590 309807000690 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000691 PAS domain; Region: PAS_9; pfam13426 309807000692 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 309807000693 putative active site [active] 309807000694 heme pocket [chemical binding]; other site 309807000695 PAS domain S-box; Region: sensory_box; TIGR00229 309807000696 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 309807000697 putative active site [active] 309807000698 heme pocket [chemical binding]; other site 309807000699 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309807000700 metal binding site [ion binding]; metal-binding site 309807000701 active site 309807000702 I-site; other site 309807000703 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 309807000704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807000705 active site 309807000706 phosphorylation site [posttranslational modification] 309807000707 intermolecular recognition site; other site 309807000708 dimerization interface [polypeptide binding]; other site 309807000709 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 309807000710 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 309807000711 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 309807000712 DXD motif; other site 309807000713 HD domain; Region: HD_4; pfam13328 309807000714 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 309807000715 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 309807000716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807000717 active site 309807000718 phosphorylation site [posttranslational modification] 309807000719 intermolecular recognition site; other site 309807000720 dimerization interface [polypeptide binding]; other site 309807000721 LytTr DNA-binding domain; Region: LytTR; smart00850 309807000722 Histidine kinase; Region: His_kinase; pfam06580 309807000723 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000724 ATP binding site [chemical binding]; other site 309807000725 Mg2+ binding site [ion binding]; other site 309807000726 G-X-G motif; other site 309807000727 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 309807000728 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 309807000729 active site 309807000730 catalytic triad [active] 309807000731 dimer interface [polypeptide binding]; other site 309807000732 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 309807000733 Fasciclin domain; Region: Fasciclin; pfam02469 309807000734 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 309807000735 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 309807000736 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 309807000737 Mg++ binding site [ion binding]; other site 309807000738 putative catalytic motif [active] 309807000739 substrate binding site [chemical binding]; other site 309807000740 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807000741 PEGA domain; Region: PEGA; pfam08308 309807000742 PEGA domain; Region: PEGA; pfam08308 309807000743 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 309807000744 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 309807000745 generic binding surface II; other site 309807000746 ssDNA binding site; other site 309807000747 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 309807000748 ATP binding site [chemical binding]; other site 309807000749 putative Mg++ binding site [ion binding]; other site 309807000750 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 309807000751 nucleotide binding region [chemical binding]; other site 309807000752 ATP-binding site [chemical binding]; other site 309807000753 Predicted membrane protein [Function unknown]; Region: COG2119 309807000754 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 309807000755 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 309807000756 Competence-damaged protein; Region: CinA; cl00666 309807000757 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309807000758 active site 309807000759 metal binding site [ion binding]; metal-binding site 309807000760 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 309807000761 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309807000762 active site 309807000763 metal binding site [ion binding]; metal-binding site 309807000764 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309807000765 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 309807000766 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 309807000767 TPP-binding site [chemical binding]; other site 309807000768 dimer interface [polypeptide binding]; other site 309807000769 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 309807000770 PYR/PP interface [polypeptide binding]; other site 309807000771 dimer interface [polypeptide binding]; other site 309807000772 TPP binding site [chemical binding]; other site 309807000773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309807000774 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 309807000775 active site 309807000776 intersubunit interactions; other site 309807000777 catalytic residue [active] 309807000778 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 309807000779 Na binding site [ion binding]; other site 309807000780 substrate binding site [chemical binding]; other site 309807000781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807000782 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 309807000783 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 309807000784 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 309807000785 active site 309807000786 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 309807000787 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807000788 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807000789 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 309807000790 TM2 domain; Region: TM2; pfam05154 309807000791 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 309807000792 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 309807000793 N-acetyl-D-glucosamine binding site [chemical binding]; other site 309807000794 catalytic residue [active] 309807000795 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 309807000796 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 309807000797 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 309807000798 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 309807000799 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 309807000800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807000801 Walker A/P-loop; other site 309807000802 ATP binding site [chemical binding]; other site 309807000803 Q-loop/lid; other site 309807000804 ABC transporter signature motif; other site 309807000805 Walker B; other site 309807000806 D-loop; other site 309807000807 H-loop/switch region; other site 309807000808 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 309807000809 C-terminal peptidase (prc); Region: prc; TIGR00225 309807000810 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807000811 Active site serine [active] 309807000812 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 309807000813 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807000814 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 309807000815 Active site serine [active] 309807000816 Penicillinase repressor; Region: Penicillinase_R; pfam03965 309807000817 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 309807000818 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 309807000819 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 309807000820 ATP binding site [chemical binding]; other site 309807000821 putative Mg++ binding site [ion binding]; other site 309807000822 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 309807000823 nucleotide binding region [chemical binding]; other site 309807000824 ATP-binding site [chemical binding]; other site 309807000825 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 309807000826 HRDC domain; Region: HRDC; pfam00570 309807000827 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 309807000828 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 309807000829 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 309807000830 active site 309807000831 dimer interface [polypeptide binding]; other site 309807000832 effector binding site; other site 309807000833 TSCPD domain; Region: TSCPD; cl14834 309807000834 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 309807000835 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 309807000836 putative catalytic residues [active] 309807000837 putative nucleotide binding site [chemical binding]; other site 309807000838 putative aspartate binding site [chemical binding]; other site 309807000839 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 309807000840 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC); Region: ACT_AKiii-DAPDC_2; cd04920 309807000841 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase; Region: PLPDE_III_Bif_AspK_DapDC; cd06840 309807000842 active site 309807000843 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309807000844 substrate binding site [chemical binding]; other site 309807000845 catalytic residues [active] 309807000846 dimer interface [polypeptide binding]; other site 309807000847 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 309807000848 putative active site [active] 309807000849 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 309807000850 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 309807000851 Catalytic site [active] 309807000852 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 309807000853 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 309807000854 active site 309807000855 DNA binding site [nucleotide binding] 309807000856 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 309807000857 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 309807000858 Domain of unknown function (DUF814); Region: DUF814; pfam05670 309807000859 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 309807000860 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 309807000861 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807000862 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807000863 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 309807000864 The C-terminal cupredoxin domain of Nitrous-oxide reductase; Region: N2OR_C; cd04223 309807000865 dimer interface [polypeptide binding]; other site 309807000866 CuA binuclear site [ion binding]; other site 309807000867 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 309807000868 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 309807000869 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 309807000870 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 309807000871 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 309807000872 Walker A/P-loop; other site 309807000873 ATP binding site [chemical binding]; other site 309807000874 Q-loop/lid; other site 309807000875 ABC transporter signature motif; other site 309807000876 Walker B; other site 309807000877 D-loop; other site 309807000878 H-loop/switch region; other site 309807000879 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 309807000880 C-terminal cupredoxin domain of Ba3-like heme-copper oxidase subunit II; Region: ba3_CcO_II_C; cd13913 309807000881 Subunit I/II interface [polypeptide binding]; other site 309807000882 CuA binuclear site [ion binding]; other site 309807000883 Subunit II/IIa interface [polypeptide binding]; other site 309807000884 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 309807000885 Putative D-pathway homolog; other site 309807000886 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 309807000887 Low-spin heme binding site [chemical binding]; other site 309807000888 Subunit I/II interface [polypeptide binding]; other site 309807000889 Putative Q-pathway; other site 309807000890 Putative alternate electron transfer pathway; other site 309807000891 Putative water exit pathway; other site 309807000892 Binuclear center (active site) [active] 309807000893 Putative K-pathway homolog; other site 309807000894 Putative proton exit pathway; other site 309807000895 Subunit I/IIa interface [polypeptide binding]; other site 309807000896 Electron transfer pathway; other site 309807000897 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 309807000898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309807000899 DNA-binding site [nucleotide binding]; DNA binding site 309807000900 UTRA domain; Region: UTRA; pfam07702 309807000901 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 309807000902 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 309807000903 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 309807000904 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 309807000905 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 is...; Region: Heme_Cu_Oxidase_I; cl00275 309807000906 Low-spin heme binding site [chemical binding]; other site 309807000907 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 309807000908 D-pathway; other site 309807000909 Putative water exit pathway; other site 309807000910 Binuclear center (active site) [active] 309807000911 K-pathway; other site 309807000912 Putative proton exit pathway; other site 309807000913 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 309807000914 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 309807000915 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 309807000916 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 309807000917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309807000918 Soluble P-type ATPase [General function prediction only]; Region: COG4087 309807000919 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 309807000920 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 309807000921 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 309807000922 active site residue [active] 309807000923 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 309807000924 ZIP Zinc transporter; Region: Zip; cl00437 309807000925 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 309807000926 Ferritin-like domain; Region: Ferritin; pfam00210 309807000927 dimerization interface [polypeptide binding]; other site 309807000928 DPS ferroxidase diiron center [ion binding]; other site 309807000929 ion pore; other site 309807000930 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807000931 MMPL family; Region: MMPL; cl14618 309807000932 DsrE/DsrF-like family; Region: DrsE; pfam02635 309807000933 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 309807000934 GAF domain; Region: GAF_2; pfam13185 309807000935 PAS domain S-box; Region: sensory_box; TIGR00229 309807000936 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 309807000937 putative active site [active] 309807000938 heme pocket [chemical binding]; other site 309807000939 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807000940 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 309807000941 putative active site [active] 309807000942 heme pocket [chemical binding]; other site 309807000943 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 309807000944 putative active site [active] 309807000945 heme pocket [chemical binding]; other site 309807000946 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 309807000947 PAS fold; Region: PAS_3; pfam08447 309807000948 putative active site [active] 309807000949 heme pocket [chemical binding]; other site 309807000950 GAF domain; Region: GAF_3; pfam13492 309807000951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807000952 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807000953 dimer interface [polypeptide binding]; other site 309807000954 phosphorylation site [posttranslational modification] 309807000955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000956 ATP binding site [chemical binding]; other site 309807000957 Mg2+ binding site [ion binding]; other site 309807000958 G-X-G motif; other site 309807000959 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309807000960 active site 309807000961 metal binding site [ion binding]; metal-binding site 309807000962 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309807000963 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 309807000964 metal-binding site [ion binding] 309807000965 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309807000966 Soluble P-type ATPase [General function prediction only]; Region: COG4087 309807000967 CheB methylesterase; Region: CheB_methylest; pfam01339 309807000968 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 309807000969 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 309807000970 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 309807000971 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807000972 PAS domain; Region: PAS_10; pfam13596 309807000973 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 309807000974 putative active site [active] 309807000975 heme pocket [chemical binding]; other site 309807000976 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 309807000977 PAS domain; Region: PAS_9; pfam13426 309807000978 putative active site [active] 309807000979 heme pocket [chemical binding]; other site 309807000980 Histidine kinase; Region: HisKA_3; pfam07730 309807000981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807000982 ATP binding site [chemical binding]; other site 309807000983 Mg2+ binding site [ion binding]; other site 309807000984 G-X-G motif; other site 309807000985 Bacitracin resistance protein BacA; Region: BacA; pfam02673 309807000986 EcsC protein family; Region: EcsC; pfam12787 309807000987 GTP-binding protein Der; Reviewed; Region: PRK00093 309807000988 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 309807000989 G1 box; other site 309807000990 GTP/Mg2+ binding site [chemical binding]; other site 309807000991 Switch I region; other site 309807000992 G2 box; other site 309807000993 Switch II region; other site 309807000994 G3 box; other site 309807000995 G4 box; other site 309807000996 G5 box; other site 309807000997 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 309807000998 G1 box; other site 309807000999 GTP/Mg2+ binding site [chemical binding]; other site 309807001000 Switch I region; other site 309807001001 G2 box; other site 309807001002 G3 box; other site 309807001003 Switch II region; other site 309807001004 G4 box; other site 309807001005 G5 box; other site 309807001006 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 309807001007 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 309807001008 Protein of unknown function (DUF330); Region: DUF330; pfam03886 309807001009 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 309807001010 mce related protein; Region: MCE; pfam02470 309807001011 Serine rich Four helix bundle domain of CAS (Crk-Associated Substrate) scaffolding proteins; a protein interaction module; Region: Serine_rich_CAS; cl07433 309807001012 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 309807001013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807001014 Walker A/P-loop; other site 309807001015 ATP binding site [chemical binding]; other site 309807001016 Q-loop/lid; other site 309807001017 ABC transporter signature motif; other site 309807001018 Walker B; other site 309807001019 D-loop; other site 309807001020 H-loop/switch region; other site 309807001021 Permease; Region: Permease; pfam02405 309807001022 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 309807001023 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309807001024 ligand binding site [chemical binding]; other site 309807001025 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 309807001026 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 309807001027 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 309807001028 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 309807001029 active site 309807001030 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 309807001031 active site 309807001032 MarR family; Region: MarR_2; cl17246 309807001033 DNA helicase, putative; Region: TIGR00376 309807001034 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807001035 Walker A motif; other site 309807001036 ATP binding site [chemical binding]; other site 309807001037 AAA domain; Region: AAA_12; pfam13087 309807001038 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807001039 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 309807001040 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 309807001041 N-terminal plug; other site 309807001042 ligand-binding site [chemical binding]; other site 309807001043 GAF domain; Region: GAF_2; pfam13185 309807001044 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807001045 dimer interface [polypeptide binding]; other site 309807001046 phosphorylation site [posttranslational modification] 309807001047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807001048 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001049 ATP binding site [chemical binding]; other site 309807001050 Mg2+ binding site [ion binding]; other site 309807001051 G-X-G motif; other site 309807001052 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 309807001053 Na binding site [ion binding]; other site 309807001054 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 309807001055 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 309807001056 Transcriptional regulators [Transcription]; Region: PurR; COG1609 309807001057 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 309807001058 DNA binding site [nucleotide binding] 309807001059 domain linker motif; other site 309807001060 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs; Region: PBP1_LacI_like_12; cd06297 309807001061 putative dimerization interface [polypeptide binding]; other site 309807001062 putative ligand binding site [chemical binding]; other site 309807001063 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807001064 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807001065 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807001066 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807001067 SusD family; Region: SusD; pfam07980 309807001068 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 309807001069 pullulanase, type I; Region: pulA_typeI; TIGR02104 309807001070 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 309807001071 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 309807001072 active site 309807001073 catalytic site [active] 309807001074 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807001075 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 309807001076 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 309807001077 active site 309807001078 homodimer interface [polypeptide binding]; other site 309807001079 catalytic site [active] 309807001080 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 309807001081 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309807001082 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 309807001083 putative substrate translocation pore; other site 309807001084 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807001085 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807001086 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807001087 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 309807001088 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807001089 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 309807001090 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 309807001091 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 309807001092 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) a...; Region: GH20_Sm-chitobiase-like; cd06569 309807001093 active site 309807001094 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 309807001095 Transcriptional regulators [Transcription]; Region: PurR; COG1609 309807001096 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 309807001097 DNA binding site [nucleotide binding] 309807001098 domain linker motif; other site 309807001099 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 309807001100 ligand binding site [chemical binding]; other site 309807001101 dimerization interface [polypeptide binding]; other site 309807001102 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 309807001103 putative ligand binding site [chemical binding]; other site 309807001104 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 309807001105 Na binding site [ion binding]; other site 309807001106 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 309807001107 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; cl08459 309807001108 Beta-lactamase; Region: Beta-lactamase; pfam00144 309807001109 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 309807001110 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 309807001111 Na binding site [ion binding]; other site 309807001112 FOG: CBS domain [General function prediction only]; Region: COG0517 309807001113 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807001114 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 309807001115 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 309807001116 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 309807001117 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 309807001118 substrate-cofactor binding pocket; other site 309807001119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807001120 catalytic residue [active] 309807001121 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807001123 NAD(P) binding site [chemical binding]; other site 309807001124 active site 309807001125 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 309807001126 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 309807001127 dimerization interface [polypeptide binding]; other site 309807001128 putative DNA binding site [nucleotide binding]; other site 309807001129 putative Zn2+ binding site [ion binding]; other site 309807001130 AsnC family; Region: AsnC_trans_reg; pfam01037 309807001131 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 309807001132 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 309807001133 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 309807001134 adenylosuccinate lyase; Provisional; Region: PRK07492 309807001135 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 309807001136 tetramer interface [polypeptide binding]; other site 309807001137 active site 309807001138 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 309807001139 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 309807001140 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 309807001141 Peroxin-3; Region: Peroxin-3; pfam04882 309807001142 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807001143 active site 309807001144 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807001145 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 309807001146 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807001147 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 309807001148 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 309807001149 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 309807001150 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 309807001151 NADH dehydrogenase subunit D; Validated; Region: PRK06075 309807001152 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 309807001153 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 309807001154 putative dimer interface [polypeptide binding]; other site 309807001155 [2Fe-2S] cluster binding site [ion binding]; other site 309807001156 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 309807001157 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 309807001158 SLBB domain; Region: SLBB; pfam10531 309807001159 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 309807001160 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 309807001161 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 309807001162 catalytic loop [active] 309807001163 iron binding site [ion binding]; other site 309807001164 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 309807001165 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309807001166 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309807001167 Protein of unknown function (DUF421); Region: DUF421; pfam04239 309807001168 NAD synthetase; Provisional; Region: PRK13981 309807001169 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 309807001170 multimer interface [polypeptide binding]; other site 309807001171 active site 309807001172 catalytic triad [active] 309807001173 protein interface 1 [polypeptide binding]; other site 309807001174 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 309807001175 homodimer interface [polypeptide binding]; other site 309807001176 NAD binding pocket [chemical binding]; other site 309807001177 ATP binding pocket [chemical binding]; other site 309807001178 Mg binding site [ion binding]; other site 309807001179 active-site loop [active] 309807001180 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 309807001181 GTP-binding protein LepA; Provisional; Region: PRK05433 309807001182 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 309807001183 G1 box; other site 309807001184 putative GEF interaction site [polypeptide binding]; other site 309807001185 GTP/Mg2+ binding site [chemical binding]; other site 309807001186 Switch I region; other site 309807001187 G2 box; other site 309807001188 G3 box; other site 309807001189 Switch II region; other site 309807001190 G4 box; other site 309807001191 G5 box; other site 309807001192 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 309807001193 Elongation Factor G, domain II; Region: EFG_II; pfam14492 309807001194 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 309807001195 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 309807001196 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 309807001197 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 309807001198 Catalytic site [active] 309807001199 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 309807001200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 309807001201 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 309807001202 Ion channel; Region: Ion_trans_2; pfam07885 309807001203 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807001204 TrkA-N domain; Region: TrkA_N; pfam02254 309807001205 TrkA-C domain; Region: TrkA_C; pfam02080 309807001206 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 309807001207 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 309807001208 active site 309807001209 nucleophile elbow; other site 309807001210 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 309807001211 folate binding site [chemical binding]; other site 309807001212 NADP+ binding site [chemical binding]; other site 309807001213 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 309807001214 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 309807001215 Histidine kinase; Region: His_kinase; pfam06580 309807001216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001217 ATP binding site [chemical binding]; other site 309807001218 Mg2+ binding site [ion binding]; other site 309807001219 G-X-G motif; other site 309807001220 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 309807001221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807001222 active site 309807001223 phosphorylation site [posttranslational modification] 309807001224 intermolecular recognition site; other site 309807001225 dimerization interface [polypeptide binding]; other site 309807001226 LytTr DNA-binding domain; Region: LytTR; smart00850 309807001227 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 309807001228 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807001229 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807001230 Phosphate-selective porin O and P; Region: Porin_O_P; cl19535 309807001231 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 309807001232 dimerization interface [polypeptide binding]; other site 309807001233 active site 309807001234 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 309807001235 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 309807001236 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 309807001237 Active Sites [active] 309807001238 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 309807001239 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 309807001240 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 309807001241 dimer interface [polypeptide binding]; other site 309807001242 PYR/PP interface [polypeptide binding]; other site 309807001243 TPP binding site [chemical binding]; other site 309807001244 substrate binding site [chemical binding]; other site 309807001245 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 309807001246 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 309807001247 TPP-binding site [chemical binding]; other site 309807001248 Predicted membrane protein [Function unknown]; Region: COG2259 309807001249 Predicted membrane protein [Function unknown]; Region: COG2259 309807001250 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 309807001251 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807001252 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 309807001253 intracellular protease, PfpI family; Region: PfpI; TIGR01382 309807001254 conserved cys residue [active] 309807001255 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 309807001256 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 309807001257 Walker A/P-loop; other site 309807001258 ATP binding site [chemical binding]; other site 309807001259 Q-loop/lid; other site 309807001260 ABC transporter signature motif; other site 309807001261 Walker B; other site 309807001262 D-loop; other site 309807001263 H-loop/switch region; other site 309807001264 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807001265 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 309807001266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807001267 dimer interface [polypeptide binding]; other site 309807001268 conserved gate region; other site 309807001269 putative PBP binding loops; other site 309807001270 ABC-ATPase subunit interface; other site 309807001271 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 309807001272 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 309807001273 Domain of unknown function (DUF389); Region: DUF389; cl00781 309807001274 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 309807001275 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 309807001276 putative substrate translocation pore; other site 309807001277 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807001278 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807001279 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 309807001280 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 309807001281 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 309807001282 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309807001283 putative catalytic site [active] 309807001284 putative metal binding site [ion binding]; other site 309807001285 putative phosphate binding site [ion binding]; other site 309807001286 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 309807001287 PhoU domain; Region: PhoU; pfam01895 309807001288 PhoU domain; Region: PhoU; pfam01895 309807001289 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 309807001290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807001291 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807001292 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 309807001293 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 309807001294 active site 309807001295 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 309807001296 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 309807001297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807001298 ABC transporter signature motif; other site 309807001299 Walker B; other site 309807001300 D-loop; other site 309807001301 H-loop/switch region; other site 309807001302 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 309807001303 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 309807001304 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 309807001305 Peptidase family M23; Region: Peptidase_M23; pfam01551 309807001306 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 309807001307 Flavin Reductases; Region: FlaRed; cl00801 309807001308 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 309807001309 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 309807001310 metal binding site [ion binding]; metal-binding site 309807001311 dimer interface [polypeptide binding]; other site 309807001312 Protein of unknown function (DUF1611); Region: DUF1611; cl19508 309807001313 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 309807001314 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309807001315 active site 309807001316 HIGH motif; other site 309807001317 nucleotide binding site [chemical binding]; other site 309807001318 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 309807001319 active site 309807001320 KMSKS motif; other site 309807001321 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 309807001322 tRNA binding surface [nucleotide binding]; other site 309807001323 anticodon binding site; other site 309807001324 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 309807001325 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 309807001326 RuvA N terminal domain; Region: RuvA_N; pfam01330 309807001327 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 309807001328 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 309807001329 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 309807001330 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 309807001331 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807001332 active site 309807001333 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 309807001334 PAS domain; Region: PAS_9; pfam13426 309807001335 putative active site [active] 309807001336 heme pocket [chemical binding]; other site 309807001337 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 309807001338 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 309807001339 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_4; cd08976 309807001340 putative DNA binding site [nucleotide binding]; other site 309807001341 catalytic residue [active] 309807001342 putative H2TH interface [polypeptide binding]; other site 309807001343 putative catalytic residues [active] 309807001344 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 309807001345 Protein of unknown function DUF72; Region: DUF72; pfam01904 309807001346 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807001347 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 309807001348 Walker A motif; other site 309807001349 ATP binding site [chemical binding]; other site 309807001350 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 309807001351 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 309807001352 G1 box; other site 309807001353 putative GEF interaction site [polypeptide binding]; other site 309807001354 GTP/Mg2+ binding site [chemical binding]; other site 309807001355 Switch I region; other site 309807001356 G2 box; other site 309807001357 G3 box; other site 309807001358 Switch II region; other site 309807001359 G4 box; other site 309807001360 G5 box; other site 309807001361 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 309807001362 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 309807001363 AP2 domain; Region: AP2; pfam00847 309807001364 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 309807001365 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 309807001366 HSP70 interaction site [polypeptide binding]; other site 309807001367 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 309807001368 substrate binding site [polypeptide binding]; other site 309807001369 dimer interface [polypeptide binding]; other site 309807001370 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 309807001371 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309807001372 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807001373 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 309807001374 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 309807001375 putative protofilament interface [polypeptide binding]; other site 309807001376 nucleotide binding site [chemical binding]; other site 309807001377 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807001378 PAS domain; Region: PAS_9; pfam13426 309807001379 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 309807001380 PAS fold; Region: PAS_3; pfam08447 309807001381 putative active site [active] 309807001382 heme pocket [chemical binding]; other site 309807001383 PAS domain; Region: PAS_9; pfam13426 309807001384 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 309807001385 putative active site [active] 309807001386 heme pocket [chemical binding]; other site 309807001387 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807001388 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 309807001389 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807001390 putative active site [active] 309807001391 heme pocket [chemical binding]; other site 309807001392 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 309807001393 putative active site [active] 309807001394 heme pocket [chemical binding]; other site 309807001395 PAS domain; Region: PAS_9; pfam13426 309807001396 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 309807001397 putative active site [active] 309807001398 heme pocket [chemical binding]; other site 309807001399 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 309807001400 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807001401 putative active site [active] 309807001402 heme pocket [chemical binding]; other site 309807001403 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 309807001404 putative active site [active] 309807001405 heme pocket [chemical binding]; other site 309807001406 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 309807001407 PAS fold; Region: PAS_3; pfam08447 309807001408 putative active site [active] 309807001409 heme pocket [chemical binding]; other site 309807001410 GAF domain; Region: GAF_3; pfam13492 309807001411 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 309807001412 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807001413 dimer interface [polypeptide binding]; other site 309807001414 phosphorylation site [posttranslational modification] 309807001415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001416 ATP binding site [chemical binding]; other site 309807001417 Mg2+ binding site [ion binding]; other site 309807001418 G-X-G motif; other site 309807001419 PAS fold; Region: PAS_4; pfam08448 309807001420 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 309807001421 putative active site [active] 309807001422 heme pocket [chemical binding]; other site 309807001423 PAS fold; Region: PAS_4; pfam08448 309807001424 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 309807001425 putative active site [active] 309807001426 heme pocket [chemical binding]; other site 309807001427 PAS domain S-box; Region: sensory_box; TIGR00229 309807001428 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 309807001429 putative active site [active] 309807001430 heme pocket [chemical binding]; other site 309807001431 PAS fold; Region: PAS_4; pfam08448 309807001432 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807001433 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807001434 dimer interface [polypeptide binding]; other site 309807001435 phosphorylation site [posttranslational modification] 309807001436 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001437 ATP binding site [chemical binding]; other site 309807001438 Mg2+ binding site [ion binding]; other site 309807001439 G-X-G motif; other site 309807001440 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807001441 MMPL family; Region: MMPL; cl14618 309807001442 23S rRNA-intervening sequence protein; Region: 23S_rRNA_IVP; pfam05635 309807001443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807001444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807001445 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807001446 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807001447 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 309807001448 Outer membrane efflux protein; Region: OEP; pfam02321 309807001449 Outer membrane efflux protein; Region: OEP; pfam02321 309807001450 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 309807001451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807001452 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 309807001453 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 309807001454 active site 309807001455 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 309807001456 homodimer interface [polypeptide binding]; other site 309807001457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807001458 substrate-cofactor binding pocket; other site 309807001459 catalytic residue [active] 309807001460 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 309807001461 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 309807001462 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 309807001463 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 309807001464 nucleotide binding site [chemical binding]; other site 309807001465 substrate binding site [chemical binding]; other site 309807001466 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 309807001467 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 309807001468 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 309807001469 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 309807001470 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 309807001471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807001472 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807001473 dimer interface [polypeptide binding]; other site 309807001474 phosphorylation site [posttranslational modification] 309807001475 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001476 ATP binding site [chemical binding]; other site 309807001477 Mg2+ binding site [ion binding]; other site 309807001478 G-X-G motif; other site 309807001479 cheY-homologous receiver domain; Region: REC; smart00448 309807001480 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807001481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807001482 active site 309807001483 phosphorylation site [posttranslational modification] 309807001484 intermolecular recognition site; other site 309807001485 dimerization interface [polypeptide binding]; other site 309807001486 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 309807001487 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 309807001488 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 309807001489 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 309807001490 L-aspartate oxidase; Provisional; Region: PRK06175 309807001491 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 309807001492 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 309807001493 putative Iron-sulfur protein interface [polypeptide binding]; other site 309807001494 putative proximal heme binding site [chemical binding]; other site 309807001495 putative SdhC-like subunit interface [polypeptide binding]; other site 309807001496 putative distal heme binding site [chemical binding]; other site 309807001497 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 309807001498 putative Iron-sulfur protein interface [polypeptide binding]; other site 309807001499 putative proximal heme binding site [chemical binding]; other site 309807001500 putative SdhD-like interface [polypeptide binding]; other site 309807001501 putative distal heme binding site [chemical binding]; other site 309807001502 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 the...; Region: BSuCS-II_like; cd06110 309807001503 dimer interface [polypeptide binding]; other site 309807001504 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 309807001505 active site 309807001506 citrylCoA binding site [chemical binding]; other site 309807001507 oxalacetate/citrate binding site [chemical binding]; other site 309807001508 coenzyme A binding site [chemical binding]; other site 309807001509 catalytic triad [active] 309807001510 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 309807001511 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 309807001512 homodimer interface [polypeptide binding]; other site 309807001513 oligonucleotide binding site [chemical binding]; other site 309807001514 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 309807001515 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309807001516 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 309807001517 trimer interface [polypeptide binding]; other site 309807001518 active site 309807001519 dimer interface [polypeptide binding]; other site 309807001520 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 309807001521 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 309807001522 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 309807001523 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 309807001524 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 309807001525 DinB superfamily; Region: DinB_2; pfam12867 309807001526 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 309807001527 DNA polymerase III, delta subunit; Region: holA; TIGR01128 309807001528 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 309807001529 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 309807001530 Low molecular weight phosphatase family; Region: LMWPc; cd00115 309807001531 active site 309807001532 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 309807001533 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 309807001534 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 309807001535 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 309807001536 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 309807001537 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 309807001538 NAD(P) binding site [chemical binding]; other site 309807001539 Bacterial Ig-like domain; Region: Big_5; pfam13205 309807001540 putative carbohydrate kinase; Provisional; Region: PRK10565 309807001541 Uncharacterized conserved protein [Function unknown]; Region: COG0062 309807001542 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 309807001543 putative substrate binding site [chemical binding]; other site 309807001544 putative ATP binding site [chemical binding]; other site 309807001545 VanZ like family; Region: VanZ; cl01971 309807001546 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 309807001547 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 309807001548 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 309807001549 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309807001550 active site 309807001551 dimer interface [polypeptide binding]; other site 309807001552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807001553 Coenzyme A binding pocket [chemical binding]; other site 309807001554 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 309807001555 Part of AAA domain; Region: AAA_19; pfam13245 309807001556 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 309807001557 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 309807001558 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 309807001559 P-loop; other site 309807001560 Magnesium ion binding site [ion binding]; other site 309807001561 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 309807001562 ParB-like nuclease domain; Region: ParBc; pfam02195 309807001563 KorB domain; Region: KorB; pfam08535 309807001564 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 309807001565 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 309807001566 substrate-cofactor binding pocket; other site 309807001567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807001568 catalytic residue [active] 309807001569 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 309807001570 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 309807001571 active site 309807001572 motif I; other site 309807001573 motif II; other site 309807001574 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 309807001575 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 309807001576 putative active site [active] 309807001577 catalytic triad [active] 309807001578 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 309807001579 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; cl09932 309807001580 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 309807001581 active site 309807001582 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 309807001583 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 309807001584 dimer interface [polypeptide binding]; other site 309807001585 ssDNA binding site [nucleotide binding]; other site 309807001586 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309807001587 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807001588 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807001589 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807001590 YtxH-like protein; Region: YtxH; pfam12732 309807001591 Protein of unknown function (DUF328); Region: DUF328; pfam03883 309807001592 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 309807001593 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 309807001594 ATP-binding site [chemical binding]; other site 309807001595 Sugar specificity; other site 309807001596 Pyrimidine base specificity; other site 309807001597 Type III pantothenate kinase; Region: Pan_kinase; cl17198 309807001598 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 309807001599 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309807001600 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 309807001601 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 309807001602 active site 309807001603 dimerization interface [polypeptide binding]; other site 309807001604 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 309807001605 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 309807001606 NAD binding site [chemical binding]; other site 309807001607 homotetramer interface [polypeptide binding]; other site 309807001608 homodimer interface [polypeptide binding]; other site 309807001609 substrate binding site [chemical binding]; other site 309807001610 active site 309807001611 phosphoglycolate phosphatase; Provisional; Region: PRK01158 309807001612 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 309807001613 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 309807001614 Bacterial SH3 domain; Region: SH3_3; pfam08239 309807001615 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 309807001616 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; cl10048 309807001617 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 309807001618 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 309807001619 Nucleoside recognition; Region: Gate; pfam07670 309807001620 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 309807001621 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 309807001622 Zn binding site [ion binding]; other site 309807001623 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 309807001624 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 309807001625 ATP binding site [chemical binding]; other site 309807001626 putative Mg++ binding site [ion binding]; other site 309807001627 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 309807001628 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 309807001629 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 309807001630 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 309807001631 active site 309807001632 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 309807001633 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 309807001634 active site 309807001635 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 309807001636 homodimer interface [polypeptide binding]; other site 309807001637 substrate-cofactor binding pocket; other site 309807001638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807001639 catalytic residue [active] 309807001640 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 309807001641 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 309807001642 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 309807001643 Protein of unknown function (DUF429); Region: DUF429; pfam04250 309807001644 Proline dehydrogenase; Region: Pro_dh; pfam01619 309807001645 Macro domain, 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 polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 309807001646 ADP-ribose binding site [chemical binding]; other site 309807001647 Methyltransferase domain; Region: Methyltransf_31; pfam13847 309807001648 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 309807001649 S-adenosylmethionine binding site [chemical binding]; other site 309807001650 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807001651 FOG: CBS domain [General function prediction only]; Region: COG0517 309807001652 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_24; cd04637 309807001653 CTP synthetase; Validated; Region: pyrG; PRK05380 309807001654 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 309807001655 Catalytic site [active] 309807001656 active site 309807001657 UTP binding site [chemical binding]; other site 309807001658 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 309807001659 active site 309807001660 putative oxyanion hole; other site 309807001661 catalytic triad [active] 309807001662 LexA repressor; Validated; Region: PRK00215 309807001663 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 309807001664 cell division protein MraZ; Reviewed; Region: PRK00326 309807001665 MraZ protein; Region: MraZ; pfam02381 309807001666 MraZ protein; Region: MraZ; pfam02381 309807001667 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 309807001668 Septum formation initiator; Region: DivIC; cl17659 309807001669 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 309807001670 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 309807001671 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 309807001672 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 309807001673 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 309807001674 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309807001675 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807001676 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309807001677 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 309807001678 Mg++ binding site [ion binding]; other site 309807001679 putative catalytic motif [active] 309807001680 putative substrate binding site [chemical binding]; other site 309807001681 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 309807001682 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807001683 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309807001684 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 309807001685 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 309807001686 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 309807001687 active site 309807001688 homodimer interface [polypeptide binding]; other site 309807001689 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 309807001690 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309807001691 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807001692 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309807001693 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 309807001694 Cell division protein FtsQ; Region: FtsQ; pfam03799 309807001695 cell division protein FtsA; Region: ftsA; TIGR01174 309807001696 Cell division protein FtsA; Region: FtsA; smart00842 309807001697 Cell division protein FtsA; Region: FtsA; pfam14450 309807001698 cell division protein FtsZ; Validated; Region: PRK09330 309807001699 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 309807001700 nucleotide binding site [chemical binding]; other site 309807001701 SulA interaction site; other site 309807001702 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 309807001703 catalytic triad [active] 309807001704 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 309807001705 Subtilase family; Region: Peptidase_S8; pfam00082 309807001706 active site 309807001707 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 309807001708 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 309807001709 Substrate binding site; other site 309807001710 Cupin domain; Region: Cupin_2; cl17218 309807001711 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 309807001712 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 309807001713 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 309807001714 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 309807001715 active site 309807001716 homotetramer interface [polypeptide binding]; other site 309807001717 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 309807001718 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 309807001719 active site 309807001720 catalytic site [active] 309807001721 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 309807001722 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807001723 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807001724 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 309807001725 alanine racemase; Reviewed; Region: alr; PRK00053 309807001726 active site 309807001727 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309807001728 dimer interface [polypeptide binding]; other site 309807001729 substrate binding site [chemical binding]; other site 309807001730 catalytic residues [active] 309807001731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807001732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807001733 active site 309807001734 phosphorylation site [posttranslational modification] 309807001735 intermolecular recognition site; other site 309807001736 dimerization interface [polypeptide binding]; other site 309807001737 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807001738 DNA binding site [nucleotide binding] 309807001739 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807001740 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807001741 dimerization interface [polypeptide binding]; other site 309807001742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807001743 dimer interface [polypeptide binding]; other site 309807001744 phosphorylation site [posttranslational modification] 309807001745 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807001746 ATP binding site [chemical binding]; other site 309807001747 Mg2+ binding site [ion binding]; other site 309807001748 G-X-G motif; other site 309807001749 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 309807001750 tetramer interface [polypeptide binding]; other site 309807001751 TPP-binding site [chemical binding]; other site 309807001752 heterodimer interface [polypeptide binding]; other site 309807001753 phosphorylation loop region [posttranslational modification] 309807001754 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309807001755 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 309807001756 alpha subunit interface [polypeptide binding]; other site 309807001757 TPP binding site [chemical binding]; other site 309807001758 heterodimer interface [polypeptide binding]; other site 309807001759 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309807001760 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 309807001761 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 309807001762 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 309807001763 Active Sites [active] 309807001764 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 309807001765 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 309807001766 CysD dimerization site [polypeptide binding]; other site 309807001767 G1 box; other site 309807001768 putative GEF interaction site [polypeptide binding]; other site 309807001769 GTP/Mg2+ binding site [chemical binding]; other site 309807001770 Switch I region; other site 309807001771 G2 box; other site 309807001772 G3 box; other site 309807001773 Switch II region; other site 309807001774 G4 box; other site 309807001775 G5 box; other site 309807001776 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 309807001777 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 309807001778 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 309807001779 ligand-binding site [chemical binding]; other site 309807001780 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807001781 active site 309807001782 NTP binding site [chemical binding]; other site 309807001783 metal binding triad [ion binding]; metal-binding site 309807001784 antibiotic binding site [chemical binding]; other site 309807001785 Protein of unknown function DUF86; Region: DUF86; pfam01934 309807001786 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 309807001787 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807001788 transmembrane helices; other site 309807001789 TrkA-C domain; Region: TrkA_C; pfam02080 309807001790 TrkA-C domain; Region: TrkA_C; pfam02080 309807001791 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807001792 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807001793 active site 309807001794 NTP binding site [chemical binding]; other site 309807001795 metal binding triad [ion binding]; metal-binding site 309807001796 antibiotic binding site [chemical binding]; other site 309807001797 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807001798 active site 309807001799 NTP binding site [chemical binding]; other site 309807001800 metal binding triad [ion binding]; metal-binding site 309807001801 antibiotic binding site [chemical binding]; other site 309807001802 HEPN domain; Region: HEPN; pfam05168 309807001803 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 309807001804 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 309807001805 NAD binding site [chemical binding]; other site 309807001806 substrate binding site [chemical binding]; other site 309807001807 homodimer interface [polypeptide binding]; other site 309807001808 active site 309807001809 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 309807001810 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 309807001811 substrate binding site; other site 309807001812 tetramer interface; other site 309807001813 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 309807001814 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 309807001815 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 309807001816 NADP binding site [chemical binding]; other site 309807001817 active site 309807001818 putative substrate binding site [chemical binding]; other site 309807001819 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 309807001820 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 309807001821 SLBB domain; Region: SLBB; pfam10531 309807001822 SLBB domain; Region: SLBB; pfam10531 309807001823 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 309807001824 SLBB domain; Region: SLBB; pfam10531 309807001825 SLBB domain; Region: SLBB; pfam10531 309807001826 SLBB domain; Region: SLBB; pfam10531 309807001827 Chain length determinant protein; Region: Wzz; pfam02706 309807001828 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 309807001829 Phage integrase SAM-like domain; Region: Phage_int_SAM_5; pfam13102 309807001830 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 309807001831 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 309807001832 active site 309807001833 DNA binding site [nucleotide binding] 309807001834 Int/Topo IB signature motif; other site 309807001835 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 309807001836 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 309807001837 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 309807001838 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 309807001839 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001840 NAD binding site [chemical binding]; other site 309807001841 putative substrate binding site 2 [chemical binding]; other site 309807001842 putative substrate binding site 1 [chemical binding]; other site 309807001843 active site 309807001844 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309807001845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807001846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807001847 Walker A/P-loop; other site 309807001848 ATP binding site [chemical binding]; other site 309807001849 Q-loop/lid; other site 309807001850 ABC transporter signature motif; other site 309807001851 Walker B; other site 309807001852 D-loop; other site 309807001853 H-loop/switch region; other site 309807001854 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 309807001855 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 309807001856 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 309807001857 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 309807001858 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807001860 NAD(P) binding site [chemical binding]; other site 309807001861 active site 309807001862 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 309807001863 inhibitor-cofactor binding pocket; inhibition site 309807001864 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807001865 catalytic residue [active] 309807001866 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 309807001867 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 309807001868 active site 309807001869 homodimer interface [polypeptide binding]; other site 309807001870 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 309807001871 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 309807001872 putative active site [active] 309807001873 putative substrate binding site [chemical binding]; other site 309807001874 putative cosubstrate binding site; other site 309807001875 catalytic site [active] 309807001876 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 309807001877 active site 309807001878 hexamer interface [polypeptide binding]; other site 309807001879 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 309807001880 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 309807001881 NeuB family; Region: NeuB; pfam03102 309807001882 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 309807001883 NeuB binding interface [polypeptide binding]; other site 309807001884 putative substrate binding site [chemical binding]; other site 309807001885 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 309807001886 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 309807001887 putative trimer interface [polypeptide binding]; other site 309807001888 putative CoA binding site [chemical binding]; other site 309807001889 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 309807001890 FOG: CBS domain [General function prediction only]; Region: COG0517 309807001891 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 309807001892 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 309807001893 Substrate binding site; other site 309807001894 metal-binding site 309807001895 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 309807001896 ligand binding site; other site 309807001897 tetramer interface; other site 309807001898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 309807001899 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 309807001900 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 309807001901 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 309807001902 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 309807001903 Transposase, Mutator family; Region: Transposase_mut; cl19537 309807001904 Methyltransferase domain; Region: Methyltransf_31; pfam13847 309807001905 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 309807001906 S-adenosylmethionine binding site [chemical binding]; other site 309807001907 NTP-binding motif containing protein; Region: PHA00729 309807001908 Protein of unknown function (DUF563); Region: DUF563; pfam04577 309807001909 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 309807001910 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 309807001911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807001912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807001913 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001914 NAD(P) binding site [chemical binding]; other site 309807001915 active site 309807001916 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807001918 NAD(P) binding site [chemical binding]; other site 309807001919 active site 309807001920 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 309807001921 putative glycosyl transferase; Provisional; Region: PRK10307 309807001922 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 309807001923 Mg++ binding site [ion binding]; other site 309807001924 putative catalytic motif [active] 309807001925 substrate binding site [chemical binding]; other site 309807001926 CoA binding domain; Region: CoA_binding; cl17356 309807001927 Bacterial sugar transferase; Region: Bac_transf; pfam02397 309807001928 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; cl15694 309807001929 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 309807001930 active site 309807001931 DNA binding site [nucleotide binding] 309807001932 Int/Topo IB signature motif; other site 309807001933 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 309807001934 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 309807001935 non-specific DNA binding site [nucleotide binding]; other site 309807001936 salt bridge; other site 309807001937 sequence-specific DNA binding site [nucleotide binding]; other site 309807001938 transcriptional activator RfaH; Region: RfaH; TIGR01955 309807001939 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); Region: NGN_SP; cd09886 309807001940 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 309807001941 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 309807001942 identified by match to protein family HMM PF03400; similar to IS1 family transposase insAB 309807001943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807001944 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 309807001945 DNA-binding interface [nucleotide binding]; DNA binding site 309807001946 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807001947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807001948 NAD(P) binding site [chemical binding]; other site 309807001949 active site 309807001950 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 309807001951 Uncharacterized conserved protein [Function unknown]; Region: COG2442 309807001952 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 309807001953 Transposase IS200 like; Region: Y1_Tnp; pfam01797 309807001954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807001955 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 309807001956 Probable transposase; Region: OrfB_IS605; pfam01385 309807001957 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807001958 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807001959 active site 309807001960 NTP binding site [chemical binding]; other site 309807001961 metal binding triad [ion binding]; metal-binding site 309807001962 antibiotic binding site [chemical binding]; other site 309807001963 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309807001964 active site 309807001965 NTP binding site [chemical binding]; other site 309807001966 metal binding triad [ion binding]; metal-binding site 309807001967 antibiotic binding site [chemical binding]; other site 309807001968 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 309807001969 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 309807001970 putative active site [active] 309807001971 Chorismate mutase type II; Region: CM_2; smart00830 309807001972 TPR repeat; Region: TPR_11; pfam13414 309807001973 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 309807001974 binding surface 309807001975 TPR motif; other site 309807001976 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 309807001977 TPR motif; other site 309807001978 binding surface 309807001979 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 309807001980 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 309807001981 active site 309807001982 Substrate binding site; other site 309807001983 Mg++ binding site; other site 309807001984 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 309807001985 putative trimer interface [polypeptide binding]; other site 309807001986 putative CoA binding site [chemical binding]; other site 309807001987 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 309807001988 MutS domain III; Region: MutS_III; pfam05192 309807001989 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807001990 Walker A/P-loop; other site 309807001991 ATP binding site [chemical binding]; other site 309807001992 Q-loop/lid; other site 309807001993 ABC transporter signature motif; other site 309807001994 Walker B; other site 309807001995 D-loop; other site 309807001996 H-loop/switch region; other site 309807001997 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807001998 A conserved domain of 46 amino acids, called WHEP-TRS has been shown.to exist in a number of higher eukaryote aminoacyl-transfer RNA synthetases; Region: WHEP-TRS; smart00991 309807001999 Smr domain; Region: Smr; pfam01713 309807002000 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 309807002001 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 309807002002 dimerization interface [polypeptide binding]; other site 309807002003 ligand binding site [chemical binding]; other site 309807002004 NADP binding site [chemical binding]; other site 309807002005 catalytic site [active] 309807002006 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 309807002007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807002008 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807002009 dimerization interface [polypeptide binding]; other site 309807002010 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002011 dimer interface [polypeptide binding]; other site 309807002012 phosphorylation site [posttranslational modification] 309807002013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002014 ATP binding site [chemical binding]; other site 309807002015 Mg2+ binding site [ion binding]; other site 309807002016 G-X-G motif; other site 309807002017 Peptidase family M48; Region: Peptidase_M48; pfam01435 309807002018 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 309807002019 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 309807002020 non-specific DNA binding site [nucleotide binding]; other site 309807002021 salt bridge; other site 309807002022 sequence-specific DNA binding site [nucleotide binding]; other site 309807002023 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 309807002024 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 309807002025 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 309807002026 catalytic site [active] 309807002027 active site 309807002028 4-alpha-glucanotransferase; Provisional; Region: PRK14508 309807002029 Predicted membrane protein [Function unknown]; Region: COG3428 309807002030 Bacterial PH domain; Region: bPH_2; pfam03703 309807002031 Bacterial PH domain; Region: bPH_2; pfam03703 309807002032 Bacterial PH domain; Region: bPH_2; pfam03703 309807002033 Bacterial PH domain; Region: bPH_2; cl01348 309807002034 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 309807002035 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 309807002036 ADP binding site [chemical binding]; other site 309807002037 magnesium binding site [ion binding]; other site 309807002038 putative shikimate binding site; other site 309807002039 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 309807002040 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 309807002041 dimerization interface 3.5A [polypeptide binding]; other site 309807002042 active site 309807002043 Amidinotransferase; Region: Amidinotransf; cl19186 309807002044 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 309807002045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 309807002046 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 309807002047 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 309807002048 ligand binding site [chemical binding]; other site 309807002049 NAD binding site [chemical binding]; other site 309807002050 tetramer interface [polypeptide binding]; other site 309807002051 catalytic site [active] 309807002052 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 309807002053 CoA binding domain; Region: CoA_binding; smart00881 309807002054 CoA-ligase; Region: Ligase_CoA; pfam00549 309807002055 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 309807002056 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 309807002057 adenosine deaminase; Provisional; Region: PRK09358 309807002058 active site 309807002059 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 309807002060 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 309807002061 hinge; other site 309807002062 active site 309807002063 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 309807002064 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 309807002065 Ligand Binding Site [chemical binding]; other site 309807002066 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 309807002067 Ligand Binding Site [chemical binding]; other site 309807002068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309807002069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807002070 active site 309807002071 phosphorylation site [posttranslational modification] 309807002072 intermolecular recognition site; other site 309807002073 dimerization interface [polypeptide binding]; other site 309807002074 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309807002075 DNA binding residues [nucleotide binding] 309807002076 dimerization interface [polypeptide binding]; other site 309807002077 PAS domain S-box; Region: sensory_box; TIGR00229 309807002078 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 309807002079 putative active site [active] 309807002080 heme pocket [chemical binding]; other site 309807002081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309807002082 Histidine kinase; Region: HisKA_3; pfam07730 309807002083 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002084 ATP binding site [chemical binding]; other site 309807002085 Mg2+ binding site [ion binding]; other site 309807002086 G-X-G motif; other site 309807002087 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 309807002088 Ligand Binding Site [chemical binding]; other site 309807002089 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 309807002090 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 309807002091 NAD binding site [chemical binding]; other site 309807002092 dimer interface [polypeptide binding]; other site 309807002093 substrate binding site [chemical binding]; other site 309807002094 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309807002095 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 309807002096 GcpE protein; Region: GcpE; pfam04551 309807002097 Rhomboid family; Region: Rhomboid; pfam01694 309807002098 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 309807002099 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 309807002100 putative active site [active] 309807002101 putative metal binding site [ion binding]; other site 309807002102 Transglycosylase; Region: Transgly; pfam00912 309807002103 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 309807002104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 309807002105 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 309807002106 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 309807002107 active site 309807002108 metal binding site [ion binding]; metal-binding site 309807002109 DNA binding site [nucleotide binding] 309807002110 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 309807002111 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 309807002112 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 309807002113 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 309807002114 homoserine kinase; Provisional; Region: PRK01212 309807002115 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 309807002116 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 309807002117 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...; Region: AAK_AK-HSDH; cd04257 309807002118 putative catalytic residues [active] 309807002119 putative nucleotide binding site [chemical binding]; other site 309807002120 putative aspartate binding site [chemical binding]; other site 309807002121 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 309807002122 dimer interface [polypeptide binding]; other site 309807002123 putative threonine allosteric regulatory site; other site 309807002124 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 309807002125 putative threonine allosteric regulatory site; other site 309807002126 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 309807002127 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 309807002128 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 309807002129 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309807002130 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807002131 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 309807002132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 309807002133 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309807002134 catalytic residue [active] 309807002135 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 309807002136 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 309807002137 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807002138 FtsX-like permease family; Region: FtsX; pfam02687 309807002139 FtsX-like permease family; Region: FtsX; pfam02687 309807002140 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 309807002141 Domain of unknown function (DUF427); Region: DUF427; pfam04248 309807002142 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 309807002143 NMT1/THI5 like; Region: NMT1; pfam09084 309807002144 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 309807002145 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 309807002146 FAD binding pocket [chemical binding]; other site 309807002147 conserved FAD binding motif [chemical binding]; other site 309807002148 phosphate binding motif [ion binding]; other site 309807002149 beta-alpha-beta structure motif; other site 309807002150 NAD binding pocket [chemical binding]; other site 309807002151 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807002152 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807002153 TrkA-N domain; Region: TrkA_N; pfam02254 309807002154 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 309807002155 TIGR03643 family protein; Region: TIGR03643 309807002156 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 309807002157 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 309807002158 catalytic Zn binding site [ion binding]; other site 309807002159 NAD(P) binding site [chemical binding]; other site 309807002160 structural Zn binding site [ion binding]; other site 309807002161 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 309807002162 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 309807002163 putative NAD(P) binding site [chemical binding]; other site 309807002164 catalytic Zn binding site [ion binding]; other site 309807002165 structural Zn binding site [ion binding]; other site 309807002166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807002167 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807002168 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807002169 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; pfam00338 309807002170 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309807002171 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 309807002172 active site 309807002173 catalytic site [active] 309807002174 substrate binding site [chemical binding]; other site 309807002175 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 309807002176 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 309807002177 dimer interface [polypeptide binding]; other site 309807002178 ssDNA binding site [nucleotide binding]; other site 309807002179 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309807002180 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 309807002181 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 309807002182 active sites [active] 309807002183 tetramer interface [polypeptide binding]; other site 309807002184 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 309807002185 Part of AAA domain; Region: AAA_19; pfam13245 309807002186 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 309807002187 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 309807002188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807002189 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 309807002190 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 309807002191 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 309807002192 active sites [active] 309807002193 tetramer interface [polypeptide binding]; other site 309807002194 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 309807002195 putative hydrophobic ligand binding site [chemical binding]; other site 309807002196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807002197 TIGR01777 family protein; Region: yfcH 309807002198 NAD(P) binding site [chemical binding]; other site 309807002199 active site 309807002200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807002201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807002202 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807002203 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807002204 MMPL family; Region: MMPL; cl14618 309807002205 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 309807002206 Outer membrane efflux protein; Region: OEP; pfam02321 309807002207 Outer membrane efflux protein; Region: OEP; pfam02321 309807002208 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 309807002209 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 309807002210 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 309807002211 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 309807002212 homodimer interface [polypeptide binding]; other site 309807002213 putative metal binding site [ion binding]; other site 309807002214 Protein of unknown function (DUF3816); Region: DUF3816; cl17272 309807002215 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 309807002216 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807002217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807002218 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807002219 DsrE/DsrF-like family; Region: DrsE; pfam02635 309807002220 PEGA domain; Region: PEGA; pfam08308 309807002221 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 309807002222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309807002223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807002224 NAD(P) binding site [chemical binding]; other site 309807002225 active site 309807002226 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 309807002227 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 309807002228 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 309807002229 generic binding surface II; other site 309807002230 generic binding surface I; other site 309807002231 Low molecular weight phosphatase family; Region: LMWPc; cd00115 309807002232 active site 309807002233 Fructosamine kinase; Region: Fructosamin_kin; cl17579 309807002234 Phosphotransferase enzyme family; Region: APH; pfam01636 309807002235 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 309807002236 catalytic loop [active] 309807002237 iron binding site [ion binding]; other site 309807002238 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 309807002239 phytoene desaturase; Region: crtI_fam; TIGR02734 309807002240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807002241 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 309807002242 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 309807002243 FeS/SAM binding site; other site 309807002244 HemN C-terminal domain; Region: HemN_C; pfam06969 309807002245 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 309807002246 FMN binding site [chemical binding]; other site 309807002247 substrate binding site [chemical binding]; other site 309807002248 putative catalytic residue [active] 309807002249 Predicted transcriptional regulator [Transcription]; Region: COG1959 309807002250 Rrf2 family protein; Region: rrf2_super; TIGR00738 309807002251 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 309807002252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807002253 active site 309807002254 phosphorylation site [posttranslational modification] 309807002255 intermolecular recognition site; other site 309807002256 dimerization interface [polypeptide binding]; other site 309807002257 LytTr DNA-binding domain; Region: LytTR; smart00850 309807002258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807002259 Histidine kinase; Region: His_kinase; pfam06580 309807002260 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002261 ATP binding site [chemical binding]; other site 309807002262 Mg2+ binding site [ion binding]; other site 309807002263 G-X-G motif; other site 309807002264 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 309807002265 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 309807002266 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309807002267 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 309807002268 Walker A/P-loop; other site 309807002269 ATP binding site [chemical binding]; other site 309807002270 Q-loop/lid; other site 309807002271 ABC transporter signature motif; other site 309807002272 Walker B; other site 309807002273 D-loop; other site 309807002274 H-loop/switch region; other site 309807002275 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 309807002276 TPR motif; other site 309807002277 binding surface 309807002278 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 309807002279 TPR motif; other site 309807002280 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807002281 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807002282 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 309807002283 biotin synthase; Validated; Region: PRK06256 309807002284 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 309807002285 FeS/SAM binding site; other site 309807002286 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 309807002287 GAF domain; Region: GAF_2; pfam13185 309807002288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807002289 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002290 dimer interface [polypeptide binding]; other site 309807002291 phosphorylation site [posttranslational modification] 309807002292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002293 ATP binding site [chemical binding]; other site 309807002294 Mg2+ binding site [ion binding]; other site 309807002295 G-X-G motif; other site 309807002296 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 309807002297 substrate binding site [chemical binding]; other site 309807002298 ATP binding site [chemical binding]; other site 309807002299 Dihydroneopterin aldolase; Region: FolB; pfam02152 309807002300 active site 309807002301 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 309807002302 catalytic triad [active] 309807002303 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 309807002304 active site 309807002305 dimer interface [polypeptide binding]; other site 309807002306 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 309807002307 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 309807002308 Magnesium ion binding site [ion binding]; other site 309807002309 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 309807002310 Na2 binding site [ion binding]; other site 309807002311 putative substrate binding site 1 [chemical binding]; other site 309807002312 Na binding site 1 [ion binding]; other site 309807002313 putative substrate binding site 2 [chemical binding]; other site 309807002314 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 309807002315 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 309807002316 metal binding site [ion binding]; metal-binding site 309807002317 dimer interface [polypeptide binding]; other site 309807002318 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 309807002319 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807002320 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 309807002321 Uncharacterized conserved protein [Function unknown]; Region: COG2850 309807002322 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 309807002323 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 309807002324 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 309807002325 dimer interface [polypeptide binding]; other site 309807002326 active site 309807002327 glycine-pyridoxal phosphate binding site [chemical binding]; other site 309807002328 folate binding site [chemical binding]; other site 309807002329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807002330 active site 309807002331 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 309807002332 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 309807002333 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 309807002334 protein binding site [polypeptide binding]; other site 309807002335 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 309807002336 Catalytic dyad [active] 309807002337 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 309807002338 S-adenosylmethionine binding site [chemical binding]; other site 309807002339 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 309807002340 nudix motif; other site 309807002341 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 309807002342 Ligand Binding Site [chemical binding]; other site 309807002343 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 309807002344 Ligand Binding Site [chemical binding]; other site 309807002345 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 309807002346 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 309807002347 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 309807002348 nucleotide binding site [chemical binding]; other site 309807002349 Septum formation initiator; Region: DivIC; pfam04977 309807002350 enolase; Provisional; Region: eno; PRK00077 309807002351 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 309807002352 dimer interface [polypeptide binding]; other site 309807002353 metal binding site [ion binding]; metal-binding site 309807002354 substrate binding pocket [chemical binding]; other site 309807002355 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 309807002356 binding surface 309807002357 TPR motif; other site 309807002358 TPR repeat; Region: TPR_11; pfam13414 309807002359 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 309807002360 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 309807002361 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 309807002362 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 309807002363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807002364 Walker A/P-loop; other site 309807002365 ATP binding site [chemical binding]; other site 309807002366 Q-loop/lid; other site 309807002367 ABC transporter signature motif; other site 309807002368 Walker B; other site 309807002369 D-loop; other site 309807002370 H-loop/switch region; other site 309807002371 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 309807002372 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 309807002373 lipoyl synthase; Provisional; Region: PRK05481 309807002374 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 309807002375 FeS/SAM binding site; other site 309807002376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 309807002377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 309807002378 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 309807002379 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 309807002380 active site 309807002381 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 309807002382 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 309807002383 inhibitor-cofactor binding pocket; inhibition site 309807002384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807002385 catalytic residue [active] 309807002386 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 309807002387 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 309807002388 Walker A/P-loop; other site 309807002389 ATP binding site [chemical binding]; other site 309807002390 Q-loop/lid; other site 309807002391 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 309807002392 ABC transporter signature motif; other site 309807002393 Walker B; other site 309807002394 D-loop; other site 309807002395 H-loop/switch region; other site 309807002396 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 309807002397 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 309807002398 ATP binding site [chemical binding]; other site 309807002399 putative Mg++ binding site [ion binding]; other site 309807002400 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 309807002401 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 309807002402 nucleotide binding region [chemical binding]; other site 309807002403 ATP-binding site [chemical binding]; other site 309807002404 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 309807002405 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 309807002406 Ligand Binding Site [chemical binding]; other site 309807002407 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 309807002408 Ligand Binding Site [chemical binding]; other site 309807002409 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 309807002410 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 309807002411 active site 309807002412 DNA binding site [nucleotide binding] 309807002413 Int/Topo IB signature motif; other site 309807002414 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 309807002415 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 309807002416 oligomer interface [polypeptide binding]; other site 309807002417 metal binding site [ion binding]; metal-binding site 309807002418 metal binding site [ion binding]; metal-binding site 309807002419 Cl binding site [ion binding]; other site 309807002420 aspartate ring; other site 309807002421 basic sphincter; other site 309807002422 putative hydrophobic gate; other site 309807002423 periplasmic entrance; other site 309807002424 Phosphate-selective porin O and P; Region: Porin_O_P; cl19535 309807002425 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 309807002426 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 309807002427 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807002428 Protein of unknown function (DUF432); Region: DUF432; cl01027 309807002429 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 309807002430 transmembrane helices; other site 309807002431 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 309807002432 TrkA-C domain; Region: TrkA_C; pfam02080 309807002433 TrkA-C domain; Region: TrkA_C; pfam02080 309807002434 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 309807002435 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 309807002436 E3 interaction surface; other site 309807002437 lipoyl attachment site [posttranslational modification]; other site 309807002438 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 309807002439 E3 interaction surface; other site 309807002440 lipoyl attachment site [posttranslational modification]; other site 309807002441 e3 binding domain; Region: E3_binding; pfam02817 309807002442 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 309807002443 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 309807002444 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 309807002445 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 309807002446 putative active site [active] 309807002447 catalytic residue [active] 309807002448 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 309807002449 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 309807002450 5S rRNA interface [nucleotide binding]; other site 309807002451 CTC domain interface [polypeptide binding]; other site 309807002452 L16 interface [polypeptide binding]; other site 309807002453 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 309807002454 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 309807002455 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 309807002456 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807002457 active site 309807002458 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 309807002459 nudix motif; other site 309807002460 Initiation factor 2 subunit family; Region: IF-2B; cl00348 309807002461 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 309807002462 TPR motif; other site 309807002463 binding surface 309807002464 Tetratricopeptide repeat; Region: TPR_19; pfam14559 309807002465 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 309807002466 binding surface 309807002467 TPR motif; other site 309807002468 Tetratricopeptide repeat; Region: TPR_19; pfam14559 309807002469 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 309807002470 binding surface 309807002471 TPR motif; other site 309807002472 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 309807002473 antiporter inner membrane protein; Provisional; Region: PRK11670 309807002474 Domain of unknown function DUF59; Region: DUF59; pfam01883 309807002475 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 309807002476 Walker A motif; other site 309807002477 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl19483 309807002478 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 309807002479 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 309807002480 S-adenosylmethionine binding site [chemical binding]; other site 309807002481 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 309807002482 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 309807002483 S-adenosylmethionine binding site [chemical binding]; other site 309807002484 6-phosphofructokinase; Provisional; Region: PRK03202 309807002485 active site 309807002486 ADP/pyrophosphate binding site [chemical binding]; other site 309807002487 dimerization interface [polypeptide binding]; other site 309807002488 allosteric effector site; other site 309807002489 fructose-1,6-bisphosphate binding site; other site 309807002490 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 309807002491 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 309807002492 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 309807002493 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 309807002494 carboxyltransferase (CT) interaction site; other site 309807002495 biotinylation site [posttranslational modification]; other site 309807002496 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 309807002497 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 309807002498 putative NADP binding site [chemical binding]; other site 309807002499 putative substrate binding site [chemical binding]; other site 309807002500 active site 309807002501 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 309807002502 HAMP domain; Region: HAMP; pfam00672 309807002503 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 309807002504 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807002505 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807002506 dimer interface [polypeptide binding]; other site 309807002507 putative CheW interface [polypeptide binding]; other site 309807002508 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807002509 PAS domain S-box; Region: sensory_box; TIGR00229 309807002510 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 309807002511 putative active site [active] 309807002512 heme pocket [chemical binding]; other site 309807002513 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 309807002514 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807002515 putative active site [active] 309807002516 heme pocket [chemical binding]; other site 309807002517 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 309807002518 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807002519 putative active site [active] 309807002520 heme pocket [chemical binding]; other site 309807002521 GAF domain; Region: GAF_3; pfam13492 309807002522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807002523 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002524 dimer interface [polypeptide binding]; other site 309807002525 phosphorylation site [posttranslational modification] 309807002526 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002527 ATP binding site [chemical binding]; other site 309807002528 Mg2+ binding site [ion binding]; other site 309807002529 G-X-G motif; other site 309807002530 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 309807002531 PAS domain; Region: PAS_9; pfam13426 309807002532 putative active site [active] 309807002533 heme pocket [chemical binding]; other site 309807002534 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 309807002535 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807002536 putative active site [active] 309807002537 heme pocket [chemical binding]; other site 309807002538 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 309807002539 putative active site [active] 309807002540 heme pocket [chemical binding]; other site 309807002541 PAS domain S-box; Region: sensory_box; TIGR00229 309807002542 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 309807002543 putative active site [active] 309807002544 heme pocket [chemical binding]; other site 309807002545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807002546 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002547 dimer interface [polypeptide binding]; other site 309807002548 phosphorylation site [posttranslational modification] 309807002549 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002550 ATP binding site [chemical binding]; other site 309807002551 Mg2+ binding site [ion binding]; other site 309807002552 G-X-G motif; other site 309807002553 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002554 ATP binding site [chemical binding]; other site 309807002555 Mg2+ binding site [ion binding]; other site 309807002556 G-X-G motif; other site 309807002557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807002558 active site 309807002559 phosphorylation site [posttranslational modification] 309807002560 intermolecular recognition site; other site 309807002561 dimerization interface [polypeptide binding]; other site 309807002562 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 309807002563 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; cl18945 309807002564 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807002565 catalytic residue [active] 309807002566 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 309807002567 active site 309807002568 phosphorylation site [posttranslational modification] 309807002569 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 309807002570 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 309807002571 dimer interface [polypeptide binding]; other site 309807002572 motif 1; other site 309807002573 active site 309807002574 motif 2; other site 309807002575 motif 3; other site 309807002576 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 309807002577 anticodon binding site; other site 309807002578 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309807002579 putative catalytic site [active] 309807002580 putative phosphate binding site [ion binding]; other site 309807002581 putative metal binding site [ion binding]; other site 309807002582 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 309807002583 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807002584 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807002585 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 309807002586 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807002587 glycogen branching enzyme; Provisional; Region: PRK12313 309807002588 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 309807002589 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 309807002590 active site 309807002591 catalytic site [active] 309807002592 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 309807002593 trehalose synthase; Region: treS_nterm; TIGR02456 309807002594 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 309807002595 active site 309807002596 catalytic site [active] 309807002597 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl19286 309807002598 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 309807002599 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 309807002600 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 309807002601 active site 309807002602 homodimer interface [polypeptide binding]; other site 309807002603 catalytic site [active] 309807002604 acceptor binding site [chemical binding]; other site 309807002605 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 309807002606 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 309807002607 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 309807002608 active site 309807002609 catalytic site [active] 309807002610 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 309807002611 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 309807002612 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 309807002613 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807002614 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 309807002615 putative active site [active] 309807002616 Zn binding site [ion binding]; other site 309807002617 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 309807002618 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 309807002619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 309807002620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807002621 active site 309807002622 phosphorylation site [posttranslational modification] 309807002623 intermolecular recognition site; other site 309807002624 dimerization interface [polypeptide binding]; other site 309807002625 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807002626 TrkA-N domain; Region: TrkA_N; pfam02254 309807002627 TrkA-C domain; Region: TrkA_C; pfam02080 309807002628 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 309807002629 DNA polymerase III subunit delta'; Validated; Region: PRK08485 309807002630 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 309807002631 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 309807002632 metal ion-dependent adhesion site (MIDAS); other site 309807002633 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 309807002634 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 309807002635 active site 309807002636 ATP binding site [chemical binding]; other site 309807002637 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 309807002638 oligomerisation interface [polypeptide binding]; other site 309807002639 mobile loop; other site 309807002640 roof hairpin; other site 309807002641 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 309807002642 putative active site [active] 309807002643 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002644 dimer interface [polypeptide binding]; other site 309807002645 phosphorylation site [posttranslational modification] 309807002646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002647 ATP binding site [chemical binding]; other site 309807002648 Mg2+ binding site [ion binding]; other site 309807002649 G-X-G motif; other site 309807002650 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 309807002651 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 309807002652 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 309807002653 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 309807002654 cobalamin binding residues [chemical binding]; other site 309807002655 putative BtuC binding residues; other site 309807002656 dimer interface [polypeptide binding]; other site 309807002657 Uncharacterized conserved protein [Function unknown]; Region: COG3391 309807002658 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 309807002659 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 309807002660 N-terminal plug; other site 309807002661 ligand-binding site [chemical binding]; other site 309807002662 Phage shock protein B; Region: PspB; cl05946 309807002663 phosphonate C-P lyase system protein PhnK; Region: CP_lyasePhnK; TIGR02323 309807002664 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 309807002665 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 309807002666 putative active site [active] 309807002667 heme pocket [chemical binding]; other site 309807002668 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807002669 dimer interface [polypeptide binding]; other site 309807002670 phosphorylation site [posttranslational modification] 309807002671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807002672 ATP binding site [chemical binding]; other site 309807002673 Mg2+ binding site [ion binding]; other site 309807002674 G-X-G motif; other site 309807002675 haloalkane dehalogenase; Provisional; Region: PRK03204 309807002676 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807002677 HTH domain; Region: HTH_11; pfam08279 309807002678 Predicted transcriptional regulator [Transcription]; Region: COG2378 309807002679 WYL domain; Region: WYL; pfam13280 309807002680 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 309807002681 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 309807002682 ligand binding site [chemical binding]; other site 309807002683 active site 309807002684 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 309807002685 short chain dehydrogenase; Provisional; Region: PRK07326 309807002686 classical (c) SDRs; Region: SDR_c; cd05233 309807002687 NAD(P) binding site [chemical binding]; other site 309807002688 active site 309807002689 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 309807002690 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 309807002691 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 309807002692 NusB family; Region: NusB; pfam01029 309807002693 16S rRNA methyltransferase B; Provisional; Region: PRK14904 309807002694 Methyltransferase domain; Region: Methyltransf_26; pfam13659 309807002695 Predicted membrane protein [Function unknown]; Region: COG2323 309807002696 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 309807002697 active site 309807002698 DNA binding site [nucleotide binding] 309807002699 Int/Topo IB signature motif; other site 309807002700 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 309807002701 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 309807002702 nucleotide binding pocket [chemical binding]; other site 309807002703 K-X-D-G motif; other site 309807002704 catalytic site [active] 309807002705 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 309807002706 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 309807002707 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 309807002708 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 309807002709 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 309807002710 Dimer interface [polypeptide binding]; other site 309807002711 BRCT sequence motif; other site 309807002712 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 309807002713 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309807002714 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 309807002715 Walker A/P-loop; other site 309807002716 ATP binding site [chemical binding]; other site 309807002717 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 309807002718 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807002719 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 309807002720 ABC transporter signature motif; other site 309807002721 Walker B; other site 309807002722 D-loop; other site 309807002723 H-loop/switch region; other site 309807002724 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 309807002725 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807002726 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807002727 dimerization interface [polypeptide binding]; other site 309807002728 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807002729 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 309807002730 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 309807002731 dimer interface [polypeptide binding]; other site 309807002732 putative CheW interface [polypeptide binding]; other site 309807002733 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 309807002734 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 309807002735 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 309807002736 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 309807002737 amidophosphoribosyltransferase; Provisional; Region: PRK09123 309807002738 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 309807002739 active site 309807002740 tetramer interface [polypeptide binding]; other site 309807002741 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807002742 active site 309807002743 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 309807002744 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 309807002745 Na2 binding site [ion binding]; other site 309807002746 putative substrate binding site 1 [chemical binding]; other site 309807002747 Na binding site 1 [ion binding]; other site 309807002748 putative substrate binding site 2 [chemical binding]; other site 309807002749 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 309807002750 Na2 binding site [ion binding]; other site 309807002751 putative substrate binding site 1 [chemical binding]; other site 309807002752 Na binding site 1 [ion binding]; other site 309807002753 putative substrate binding site 2 [chemical binding]; other site 309807002754 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 309807002755 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 309807002756 hexamer interface [polypeptide binding]; other site 309807002757 ligand binding site [chemical binding]; other site 309807002758 putative active site [active] 309807002759 NAD(P) binding site [chemical binding]; other site 309807002760 Uncharacterized conserved protein [Function unknown]; Region: COG5495 309807002761 Rossmann-like domain; Region: Rossmann-like; pfam10727 309807002762 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 309807002763 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 309807002764 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 309807002765 dimer interface [polypeptide binding]; other site 309807002766 putative anticodon binding site; other site 309807002767 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 309807002768 motif 1; other site 309807002769 active site 309807002770 motif 2; other site 309807002771 motif 3; other site 309807002772 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 309807002773 FOG: PKD repeat [General function prediction only]; Region: COG3291 309807002774 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 309807002775 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309807002776 ligand binding site [chemical binding]; other site 309807002777 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 309807002778 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 309807002779 Peptidase family M23; Region: Peptidase_M23; pfam01551 309807002780 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 309807002781 ATP synthase A chain; Region: ATP-synt_A; cl00413 309807002782 ATP synthase subunit C; Region: ATP-synt_C; cl00466 309807002783 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 309807002784 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 309807002785 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 309807002786 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 309807002787 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 309807002788 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 309807002789 beta subunit interaction interface [polypeptide binding]; other site 309807002790 Walker A motif; other site 309807002791 ATP binding site [chemical binding]; other site 309807002792 Walker B motif; other site 309807002793 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 309807002794 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 309807002795 core domain interface [polypeptide binding]; other site 309807002796 delta subunit interface [polypeptide binding]; other site 309807002797 epsilon subunit interface [polypeptide binding]; other site 309807002798 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 309807002799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807002800 NAD(P) binding site [chemical binding]; other site 309807002801 active site 309807002802 AAA domain; Region: AAA_11; pfam13086 309807002803 AAA domain; Region: AAA_30; pfam13604 309807002804 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 309807002805 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 309807002806 active site 309807002807 dimer interface [polypeptide binding]; other site 309807002808 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 309807002809 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 309807002810 intersubunit interface [polypeptide binding]; other site 309807002811 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 309807002812 substrate binding site [chemical binding]; other site 309807002813 THF binding site; other site 309807002814 zinc-binding site [ion binding]; other site 309807002815 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 309807002816 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309807002817 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807002818 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309807002819 Domain of unknown function DUF21; Region: DUF21; pfam01595 309807002820 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 309807002821 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807002822 MMPL family; Region: MMPL; cl14618 309807002823 MMPL family; Region: MMPL; cl14618 309807002824 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807002825 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807002826 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807002827 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 309807002828 Outer membrane efflux protein; Region: OEP; pfam02321 309807002829 Outer membrane efflux protein; Region: OEP; pfam02321 309807002830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807002831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807002832 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 309807002833 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 309807002834 active site residue [active] 309807002835 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 309807002836 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 309807002837 active site residue [active] 309807002838 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 309807002839 active site residue [active] 309807002840 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 309807002841 aminoacyl-tRNA ligase; Region: PLN02563 309807002842 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 309807002843 active site 309807002844 HIGH motif; other site 309807002845 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 309807002846 KMSKS motif; other site 309807002847 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 309807002848 tRNA binding surface [nucleotide binding]; other site 309807002849 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 309807002850 translation elongation factor P; Region: efp; TIGR00038 309807002851 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 309807002852 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 309807002853 RNA binding site [nucleotide binding]; other site 309807002854 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 309807002855 RNA binding site [nucleotide binding]; other site 309807002856 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 309807002857 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 309807002858 carboxyltransferase (CT) interaction site; other site 309807002859 biotinylation site [posttranslational modification]; other site 309807002860 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 309807002861 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309807002862 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807002863 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 309807002864 aspartate aminotransferase; Provisional; Region: PRK05764 309807002865 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 309807002866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807002867 homodimer interface [polypeptide binding]; other site 309807002868 catalytic residue [active] 309807002869 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 309807002870 Peptidase family M50; Region: Peptidase_M50; pfam02163 309807002871 active site 309807002872 putative substrate binding region [chemical binding]; other site 309807002873 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 309807002874 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807002875 CAAX protease self-immunity; Region: Abi; pfam02517 309807002876 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807002877 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309807002878 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807002879 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 309807002880 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807002881 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807002882 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309807002883 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 309807002884 putative NAD(P) binding site [chemical binding]; other site 309807002885 putative active site [active] 309807002886 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 309807002887 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807002888 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 309807002889 catalytic site [active] 309807002890 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309807002891 active site 309807002892 catalytic site [active] 309807002893 substrate binding site [chemical binding]; other site 309807002894 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 309807002895 envelope glycoprotein C; Provisional; Region: PHA03269 309807002896 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 309807002897 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 309807002898 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 309807002899 P-loop; other site 309807002900 Magnesium ion binding site [ion binding]; other site 309807002901 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 309807002902 putative catalytic site [active] 309807002903 putative metal binding site [ion binding]; other site 309807002904 putative phosphate binding site [ion binding]; other site 309807002905 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 309807002906 catalytic center binding site [active] 309807002907 ATP binding site [chemical binding]; other site 309807002908 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 309807002909 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 2.7.1; Region: dNK; cd01673 309807002910 Substrate-binding site [chemical binding]; other site 309807002911 Substrate specificity [chemical binding]; other site 309807002912 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 309807002913 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 309807002914 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 309807002915 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 309807002916 catalytic site [active] 309807002917 subunit interface [polypeptide binding]; other site 309807002918 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309807002919 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 309807002920 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807002921 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 309807002922 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309807002923 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 309807002924 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807002925 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 309807002926 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 309807002927 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 309807002928 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 309807002929 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 309807002930 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 309807002931 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 309807002932 DNA-binding site [nucleotide binding]; DNA binding site 309807002933 RNA-binding motif; other site 309807002934 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 309807002935 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 309807002936 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 309807002937 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 309807002938 trimer interface [polypeptide binding]; other site 309807002939 active site 309807002940 substrate binding site [chemical binding]; other site 309807002941 CoA binding site [chemical binding]; other site 309807002942 DNA primase; Validated; Region: dnaG; PRK05667 309807002943 CHC2 zinc finger; Region: zf-CHC2; pfam01807 309807002944 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 309807002945 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 309807002946 active site 309807002947 metal binding site [ion binding]; metal-binding site 309807002948 interdomain interaction site; other site 309807002949 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 309807002950 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 309807002951 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 309807002952 Peptidase C26; Region: Peptidase_C26; pfam07722 309807002953 catalytic triad [active] 309807002954 Smr domain; Region: Smr; pfam01713 309807002955 SWIM zinc finger; Region: SWIM; cl19527 309807002956 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 309807002957 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 309807002958 catalytic triad [active] 309807002959 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807002960 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 309807002961 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 309807002962 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 309807002963 active site 309807002964 PHP Thumb interface [polypeptide binding]; other site 309807002965 metal binding site [ion binding]; metal-binding site 309807002966 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 309807002967 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 309807002968 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 309807002969 generic binding surface II; other site 309807002970 generic binding surface I; other site 309807002971 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 309807002972 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 309807002973 D-xylulose kinases, subgroup 2; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 309807002974 putative N- and C-terminal domain interface [polypeptide binding]; other site 309807002975 putative active site [active] 309807002976 putative MgATP binding site [chemical binding]; other site 309807002977 catalytic site [active] 309807002978 metal binding site [ion binding]; metal-binding site 309807002979 putative xylulose binding site [chemical binding]; other site 309807002980 putative homodimer interface [polypeptide binding]; other site 309807002981 Protein of unknown function (DUF819); Region: DUF819; cl02317 309807002982 TPR repeat; Region: TPR_11; pfam13414 309807002983 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 309807002984 binding surface 309807002985 TPR motif; other site 309807002986 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 309807002987 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; cl00352 309807002988 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 309807002989 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 309807002990 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 309807002991 active site 309807002992 HIGH motif; other site 309807002993 KMSK motif region; other site 309807002994 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 309807002995 tRNA binding surface [nucleotide binding]; other site 309807002996 anticodon binding site; other site 309807002997 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 309807002998 recombination factor protein RarA; Reviewed; Region: PRK13342 309807002999 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003000 Walker A motif; other site 309807003001 ATP binding site [chemical binding]; other site 309807003002 Walker B motif; other site 309807003003 arginine finger; other site 309807003004 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 309807003005 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 309807003006 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 309807003007 active site residue [active] 309807003008 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 309807003009 active site residue [active] 309807003010 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 309807003011 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 309807003012 DctM-like transporters; Region: DctM; pfam06808 309807003013 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807003014 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 309807003015 NAD(P) binding site [chemical binding]; other site 309807003016 putative active site [active] 309807003017 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 309807003018 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 309807003019 S-adenosylmethionine binding site [chemical binding]; other site 309807003020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 309807003021 Predicted integral membrane protein [Function unknown]; Region: COG5617 309807003022 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 309807003023 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807003024 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 309807003025 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807003026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807003027 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 309807003028 Walker A/P-loop; other site 309807003029 ATP binding site [chemical binding]; other site 309807003030 Q-loop/lid; other site 309807003031 ABC transporter signature motif; other site 309807003032 Walker B; other site 309807003033 D-loop; other site 309807003034 H-loop/switch region; other site 309807003035 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 309807003036 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 309807003037 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 309807003038 active site 309807003039 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 309807003040 putative ADP-binding pocket [chemical binding]; other site 309807003041 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 309807003042 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 309807003043 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 309807003044 DHH family; Region: DHH; pfam01368 309807003045 DHHA1 domain; Region: DHHA1; pfam02272 309807003046 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 309807003047 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 309807003048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807003049 Walker A/P-loop; other site 309807003050 ATP binding site [chemical binding]; other site 309807003051 Q-loop/lid; other site 309807003052 ABC transporter signature motif; other site 309807003053 Walker B; other site 309807003054 D-loop; other site 309807003055 H-loop/switch region; other site 309807003056 Peptidase S8 family domain, uncharacterized subfamily 10; Region: Peptidases_S8_10; cd07494 309807003057 Subtilase family; Region: Peptidase_S8; pfam00082 309807003058 active site 309807003059 catalytic triad [active] 309807003060 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 309807003061 minor groove reading motif; other site 309807003062 helix-hairpin-helix signature motif; other site 309807003063 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 309807003064 dimer interface [polypeptide binding]; other site 309807003065 allosteric magnesium binding site [ion binding]; other site 309807003066 active site 309807003067 aspartate-rich active site metal binding site; other site 309807003068 Schiff base residues; other site 309807003069 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 309807003070 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 309807003071 active site 309807003072 HIGH motif; other site 309807003073 KMSKS motif; other site 309807003074 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 309807003075 Transcriptional regulators [Transcription]; Region: MarR; COG1846 309807003076 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 309807003077 putative DNA binding site [nucleotide binding]; other site 309807003078 dimerization interface [polypeptide binding]; other site 309807003079 putative Zn2+ binding site [ion binding]; other site 309807003080 Haemolytic domain; Region: Haemolytic; pfam01809 309807003081 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 309807003082 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 309807003083 Na binding site [ion binding]; other site 309807003084 Methyltransferase domain; Region: Methyltransf_31; pfam13847 309807003085 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 309807003086 S-adenosylmethionine binding site [chemical binding]; other site 309807003087 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 309807003088 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807003089 TspO/MBR family; Region: TspO_MBR; pfam03073 309807003090 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 309807003091 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 309807003092 putative NAD(P) binding site [chemical binding]; other site 309807003093 putative active site [active] 309807003094 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 309807003095 hydrophobic ligand binding site; other site 309807003096 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 309807003097 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 309807003098 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 309807003099 Peptidase family M50; Region: Peptidase_M50; pfam02163 309807003100 active site 309807003101 putative substrate binding region [chemical binding]; other site 309807003102 FOG: CBS domain [General function prediction only]; Region: COG0517 309807003103 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_26; cd04639 309807003104 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 309807003105 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; cd00288 309807003106 domain interfaces; other site 309807003107 active site 309807003108 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 309807003109 binding surface 309807003110 TPR motif; other site 309807003111 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309807003112 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 309807003113 binding surface 309807003114 TPR motif; other site 309807003115 Tetratricopeptide repeat; Region: TPR_19; pfam14559 309807003116 FtsH Extracellular; Region: FtsH_ext; pfam06480 309807003117 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 309807003118 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003119 Walker A motif; other site 309807003120 ATP binding site [chemical binding]; other site 309807003121 Walker B motif; other site 309807003122 arginine finger; other site 309807003123 Peptidase family M41; Region: Peptidase_M41; pfam01434 309807003124 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 309807003125 S17 interaction site [polypeptide binding]; other site 309807003126 S8 interaction site; other site 309807003127 16S rRNA interaction site [nucleotide binding]; other site 309807003128 streptomycin interaction site [chemical binding]; other site 309807003129 23S rRNA interaction site [nucleotide binding]; other site 309807003130 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 309807003131 30S ribosomal protein S7; Validated; Region: PRK05302 309807003132 elongation factor G; Reviewed; Region: PRK00007 309807003133 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 309807003134 G1 box; other site 309807003135 putative GEF interaction site [polypeptide binding]; other site 309807003136 GTP/Mg2+ binding site [chemical binding]; other site 309807003137 Switch I region; other site 309807003138 G2 box; other site 309807003139 G3 box; other site 309807003140 Switch II region; other site 309807003141 G4 box; other site 309807003142 G5 box; other site 309807003143 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 309807003144 Elongation Factor G, domain II; Region: EFG_II; pfam14492 309807003145 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 309807003146 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 309807003147 elongation factor Tu; Reviewed; Region: PRK00049 309807003148 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 309807003149 G1 box; other site 309807003150 GEF interaction site [polypeptide binding]; other site 309807003151 GTP/Mg2+ binding site [chemical binding]; other site 309807003152 Switch I region; other site 309807003153 G2 box; other site 309807003154 G3 box; other site 309807003155 Switch II region; other site 309807003156 G4 box; other site 309807003157 G5 box; other site 309807003158 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 309807003159 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 309807003160 Antibiotic Binding Site [chemical binding]; other site 309807003161 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 309807003162 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 309807003163 50S ribosomal protein L4, bacterial/organelle; Region: rplD_bact; TIGR03953 309807003164 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 309807003165 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 309807003166 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 309807003167 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 309807003168 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 309807003169 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 309807003170 putative translocon binding site; other site 309807003171 protein-rRNA interface [nucleotide binding]; other site 309807003172 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 309807003173 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 309807003174 G-X-X-G motif; other site 309807003175 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 309807003176 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 309807003177 23S rRNA interface [nucleotide binding]; other site 309807003178 5S rRNA interface [nucleotide binding]; other site 309807003179 putative antibiotic binding site [chemical binding]; other site 309807003180 L25 interface [polypeptide binding]; other site 309807003181 L27 interface [polypeptide binding]; other site 309807003182 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 309807003183 trigger factor interaction site; other site 309807003184 23S rRNA interface [nucleotide binding]; other site 309807003185 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 309807003186 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 309807003187 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 309807003188 RNA binding site [nucleotide binding]; other site 309807003189 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 309807003190 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 309807003191 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 309807003192 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 309807003193 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 309807003194 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 309807003195 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 309807003196 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 309807003197 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 309807003198 5S rRNA interface [nucleotide binding]; other site 309807003199 L27 interface [polypeptide binding]; other site 309807003200 23S rRNA interface [nucleotide binding]; other site 309807003201 L5 interface [polypeptide binding]; other site 309807003202 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 309807003203 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 309807003204 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 309807003205 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 309807003206 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 309807003207 SecY translocase; Region: SecY; pfam00344 309807003208 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 309807003209 active site 309807003210 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 309807003211 rRNA binding site [nucleotide binding]; other site 309807003212 predicted 30S ribosome binding site; other site 309807003213 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 309807003214 30S ribosomal protein S11; Validated; Region: PRK05309 309807003215 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 309807003216 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 309807003217 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 309807003218 RNA binding surface [nucleotide binding]; other site 309807003219 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 309807003220 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 309807003221 alphaNTD homodimer interface [polypeptide binding]; other site 309807003222 alphaNTD - beta interaction site [polypeptide binding]; other site 309807003223 alphaNTD - beta' interaction site [polypeptide binding]; other site 309807003224 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 309807003225 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 309807003226 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 309807003227 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807003228 Zn2+ binding site [ion binding]; other site 309807003229 Mg2+ binding site [ion binding]; other site 309807003230 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 309807003231 synthetase active site [active] 309807003232 NTP binding site [chemical binding]; other site 309807003233 metal binding site [ion binding]; metal-binding site 309807003234 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 309807003235 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 309807003236 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 309807003237 DNA binding site [nucleotide binding] 309807003238 dimer interface [polypeptide binding]; other site 309807003239 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 309807003240 Protein of unknown function DUF72; Region: DUF72; pfam01904 309807003241 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 309807003242 nucleotide binding site/active site [active] 309807003243 HIT family signature motif; other site 309807003244 catalytic residue [active] 309807003245 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 309807003246 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 309807003247 active site 309807003248 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 309807003249 homopentamer interface [polypeptide binding]; other site 309807003250 active site 309807003251 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 309807003252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807003253 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 309807003254 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 309807003255 C4-type zinc-finger of DNA polymerase delta; Region: zf-C4pol; pfam14260 309807003256 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807003257 active site 309807003258 methionine sulfoxide reductase A; Provisional; Region: PRK14054 309807003259 Nucleoside diphosphate kinase; Region: NDK; pfam00334 309807003260 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 309807003261 active site 309807003262 multimer interface [polypeptide binding]; other site 309807003263 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 309807003264 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 309807003265 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 309807003266 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 309807003267 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 309807003268 dimer interface [polypeptide binding]; other site 309807003269 active site 309807003270 catalytic residue [active] 309807003271 dihydrodipicolinate reductase; Provisional; Region: PRK00048 309807003272 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 309807003273 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 309807003274 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 309807003275 DNA photolyase; Region: DNA_photolyase; pfam00875 309807003276 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309807003277 Cupin domain; Region: Cupin_2; cl17218 309807003278 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 309807003279 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 309807003280 active site 309807003281 DNA binding site [nucleotide binding] 309807003282 Int/Topo IB signature motif; other site 309807003283 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 309807003284 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807003285 Antirestriction protein (ArdA); Region: ArdA; pfam07275 309807003286 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 309807003287 HsdM N-terminal domain; Region: HsdM_N; pfam12161 309807003288 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 309807003289 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 309807003290 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 309807003291 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 309807003292 RDD family; Region: RDD; pfam06271 309807003293 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 309807003294 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 309807003295 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 309807003296 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 309807003297 ATP binding site [chemical binding]; other site 309807003298 putative Mg++ binding site [ion binding]; other site 309807003299 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 309807003300 ABC transporter signature motif; other site 309807003301 AAA domain; Region: AAA_21; pfam13304 309807003302 Walker B; other site 309807003303 D-loop; other site 309807003304 H-loop/switch region; other site 309807003305 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 309807003306 HTH-like domain; Region: HTH_21; pfam13276 309807003307 hypothetical protein; Provisional; Region: PRK11281 309807003308 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 309807003309 RNA/DNA hybrid binding site [nucleotide binding]; other site 309807003310 active site 309807003311 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 309807003312 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 309807003313 homodimer interface [polypeptide binding]; other site 309807003314 metal binding site [ion binding]; metal-binding site 309807003315 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 309807003316 homodimer interface [polypeptide binding]; other site 309807003317 active site 309807003318 putative chemical substrate binding site [chemical binding]; other site 309807003319 metal binding site [ion binding]; metal-binding site 309807003320 HAS barrel domain; Region: HAS-barrel; pfam09378 309807003321 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309807003322 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 309807003323 active site 309807003324 Ferritin-like domain; Region: Ferritin; pfam00210 309807003325 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 309807003326 dimerization interface [polypeptide binding]; other site 309807003327 DPS ferroxidase diiron center [ion binding]; other site 309807003328 ion pore; other site 309807003329 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 309807003330 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 309807003331 active site 309807003332 interdomain interaction site; other site 309807003333 putative metal-binding site [ion binding]; other site 309807003334 nucleotide binding site [chemical binding]; other site 309807003335 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 309807003336 domain I; other site 309807003337 DNA binding groove [nucleotide binding] 309807003338 phosphate binding site [ion binding]; other site 309807003339 domain II; other site 309807003340 domain III; other site 309807003341 nucleotide binding site [chemical binding]; other site 309807003342 catalytic site [active] 309807003343 domain IV; other site 309807003344 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 309807003345 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 309807003346 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 309807003347 GTPase RsgA; Reviewed; Region: PRK00098 309807003348 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 309807003349 RNA binding site [nucleotide binding]; other site 309807003350 homodimer interface [polypeptide binding]; other site 309807003351 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 309807003352 GTPase/Zn-binding domain interface [polypeptide binding]; other site 309807003353 GTP/Mg2+ binding site [chemical binding]; other site 309807003354 G4 box; other site 309807003355 G5 box; other site 309807003356 G1 box; other site 309807003357 G3 box; other site 309807003358 Switch II region; other site 309807003359 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 309807003360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807003361 dimer interface [polypeptide binding]; other site 309807003362 phosphorylation site [posttranslational modification] 309807003363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807003364 ATP binding site [chemical binding]; other site 309807003365 Mg2+ binding site [ion binding]; other site 309807003366 G-X-G motif; other site 309807003367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807003368 active site 309807003369 phosphorylation site [posttranslational modification] 309807003370 intermolecular recognition site; other site 309807003371 dimerization interface [polypeptide binding]; other site 309807003372 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 309807003373 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 309807003374 dimer interface [polypeptide binding]; other site 309807003375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003376 catalytic residue [active] 309807003377 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 well...; Region: CBS_pair_PALP_assoc2; cd04609 309807003378 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 309807003379 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 309807003380 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 309807003381 CoA-ligase; Region: Ligase_CoA; pfam00549 309807003382 OmpW family; Region: OmpW; cl17427 309807003383 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 309807003384 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 309807003385 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807003386 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807003387 active site 309807003388 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807003389 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807003390 active site 309807003391 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 309807003392 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 309807003393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 309807003394 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 309807003395 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 309807003396 FeS/SAM binding site; other site 309807003397 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 309807003398 Protein of unknown function (DUF433); Region: DUF433; pfam04255 309807003399 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807003400 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 309807003401 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807003402 phosphoenolpyruvate synthase; Validated; Region: PRK06464 309807003403 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 309807003404 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; cl17700 309807003405 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 309807003406 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 309807003407 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 309807003408 homotetramer interface [polypeptide binding]; other site 309807003409 ligand binding site [chemical binding]; other site 309807003410 catalytic site [active] 309807003411 NAD binding site [chemical binding]; other site 309807003412 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 309807003413 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 309807003414 Predicted archaeal kinase (sugar kinase superfamily) [General function prediction only]; Region: COG1829 309807003415 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 309807003416 Penicillin amidase; Region: Penicil_amidase; pfam01804 309807003417 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...; Region: Ntn_CA; cd01936 309807003418 active site 309807003419 Predicted membrane protein [Function unknown]; Region: COG2259 309807003420 Ferredoxin [Energy production and conversion]; Region: COG1146 309807003421 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 309807003422 4Fe-4S binding domain; Region: Fer4; pfam00037 309807003423 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 309807003424 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 309807003425 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003426 Walker A motif; other site 309807003427 ATP binding site [chemical binding]; other site 309807003428 Walker B motif; other site 309807003429 arginine finger; other site 309807003430 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 309807003431 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 309807003432 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 309807003433 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 309807003434 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 309807003435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807003436 catalytic residue [active] 309807003437 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 309807003438 elongation factor G; Reviewed; Region: PRK12740 309807003439 G1 box; other site 309807003440 putative GEF interaction site [polypeptide binding]; other site 309807003441 GTP/Mg2+ binding site [chemical binding]; other site 309807003442 Switch I region; other site 309807003443 G2 box; other site 309807003444 G3 box; other site 309807003445 Switch II region; other site 309807003446 G4 box; other site 309807003447 G5 box; other site 309807003448 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 309807003449 Elongation Factor G, domain II; Region: EFG_II; pfam14492 309807003450 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 309807003451 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 309807003452 Predicted metal-binding protein [General function prediction only]; Region: COG3019 309807003453 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 309807003454 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 309807003455 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 309807003456 putative NAD(P) binding site [chemical binding]; other site 309807003457 active site 309807003458 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 309807003459 Glycoprotease family; Region: Peptidase_M22; pfam00814 309807003460 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 309807003461 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807003462 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807003463 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807003464 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 309807003465 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 309807003466 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 309807003467 Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella; Region: VCBS; pfam13517 309807003468 Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella; Region: VCBS; pfam13517 309807003469 Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella; Region: VCBS; pfam13517 309807003470 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 309807003471 excinuclease ABC subunit B; Provisional; Region: PRK05298 309807003472 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 309807003473 ATP binding site [chemical binding]; other site 309807003474 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 309807003475 nucleotide binding region [chemical binding]; other site 309807003476 ATP-binding site [chemical binding]; other site 309807003477 Ultra-violet resistance protein B; Region: UvrB; pfam12344 309807003478 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 309807003479 homodimer interface [polypeptide binding]; other site 309807003480 substrate-cofactor binding pocket; other site 309807003481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003482 catalytic residue [active] 309807003483 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 309807003484 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 309807003485 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 309807003486 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 309807003487 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 309807003488 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 309807003489 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807003490 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 309807003491 trimer interface [polypeptide binding]; other site 309807003492 dimer interface [polypeptide binding]; other site 309807003493 putative active site [active] 309807003494 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 309807003495 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 309807003496 active site 309807003497 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807003498 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 309807003499 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 309807003500 active site 309807003501 dimer interface [polypeptide binding]; other site 309807003502 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 309807003503 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 309807003504 active site 309807003505 FMN binding site [chemical binding]; other site 309807003506 substrate binding site [chemical binding]; other site 309807003507 3Fe-4S cluster binding site [ion binding]; other site 309807003508 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 309807003509 domain interface; other site 309807003510 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 309807003511 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 309807003512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807003513 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 309807003514 putative active site [active] 309807003515 dimerization interface [polypeptide binding]; other site 309807003516 putative tRNAtyr binding site [nucleotide binding]; other site 309807003517 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 309807003518 active site 309807003519 dimerization interface [polypeptide binding]; other site 309807003520 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 309807003521 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 309807003522 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 309807003523 TPP-binding site [chemical binding]; other site 309807003524 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 309807003525 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 309807003526 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 309807003527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807003528 NAD(P) binding site [chemical binding]; other site 309807003529 active site 309807003530 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807003531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807003532 active site 309807003533 phosphorylation site [posttranslational modification] 309807003534 intermolecular recognition site; other site 309807003535 dimerization interface [polypeptide binding]; other site 309807003536 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807003537 DNA binding site [nucleotide binding] 309807003538 Recombination protein O N terminal; Region: RecO_N; pfam11967 309807003539 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 309807003540 Recombination protein O C terminal; Region: RecO_C; pfam02565 309807003541 LexA repressor; Validated; Region: PRK00215 309807003542 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 309807003543 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 309807003544 Catalytic site [active] 309807003545 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 309807003546 S-adenosylmethionine binding site [chemical binding]; other site 309807003547 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 309807003548 DNA photolyase; Region: DNA_photolyase; pfam00875 309807003549 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309807003550 Methyltransferase domain; Region: Methyltransf_31; pfam13847 309807003551 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 309807003552 S-adenosylmethionine binding site [chemical binding]; other site 309807003553 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807003554 MMPL family; Region: MMPL; cl14618 309807003555 MMPL family; Region: MMPL; cl14618 309807003556 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807003557 HlyD family secretion protein; Region: HlyD; pfam00529 309807003558 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807003559 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807003560 Uncharacterized conserved protein [Function unknown]; Region: COG1739 309807003561 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 309807003562 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 309807003563 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 309807003564 RNA/DNA hybrid binding site [nucleotide binding]; other site 309807003565 active site 309807003566 GTPase CgtA; Reviewed; Region: obgE; PRK12299 309807003567 GTP1/OBG; Region: GTP1_OBG; pfam01018 309807003568 Obg GTPase; Region: Obg; cd01898 309807003569 G1 box; other site 309807003570 GTP/Mg2+ binding site [chemical binding]; other site 309807003571 Switch I region; other site 309807003572 G2 box; other site 309807003573 G3 box; other site 309807003574 Switch II region; other site 309807003575 G4 box; other site 309807003576 G5 box; other site 309807003577 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 309807003578 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 309807003579 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 309807003580 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 309807003581 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807003582 catalytic residue [active] 309807003583 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 309807003584 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 309807003585 RNA binding surface [nucleotide binding]; other site 309807003586 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 309807003587 active site 309807003588 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 309807003589 active site 309807003590 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 309807003591 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 309807003592 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 309807003593 Penicillinase repressor; Region: Penicillinase_R; pfam03965 309807003594 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 309807003595 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 309807003596 Probable Catalytic site; other site 309807003597 Amidinotransferase; Region: Amidinotransf; cl19186 309807003598 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 309807003599 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309807003600 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 309807003601 Walker A/P-loop; other site 309807003602 ATP binding site [chemical binding]; other site 309807003603 Q-loop/lid; other site 309807003604 ABC transporter signature motif; other site 309807003605 Walker B; other site 309807003606 D-loop; other site 309807003607 H-loop/switch region; other site 309807003608 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 309807003609 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807003610 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 309807003611 substrate binding site [chemical binding]; other site 309807003612 hinge regions; other site 309807003613 ADP binding site [chemical binding]; other site 309807003614 catalytic site [active] 309807003615 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 309807003616 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 309807003617 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 309807003618 Tetratricopeptide repeat; Region: TPR_6; pfam13174 309807003619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 309807003620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807003621 active site 309807003622 phosphorylation site [posttranslational modification] 309807003623 intermolecular recognition site; other site 309807003624 dimerization interface [polypeptide binding]; other site 309807003625 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003626 Walker A motif; other site 309807003627 ATP binding site [chemical binding]; other site 309807003628 Walker B motif; other site 309807003629 arginine finger; other site 309807003630 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 309807003631 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 309807003632 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 309807003633 Walker A/P-loop; other site 309807003634 ATP binding site [chemical binding]; other site 309807003635 Q-loop/lid; other site 309807003636 ABC transporter signature motif; other site 309807003637 Walker B; other site 309807003638 D-loop; other site 309807003639 H-loop/switch region; other site 309807003640 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 309807003641 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 309807003642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807003643 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807003644 dimer interface [polypeptide binding]; other site 309807003645 phosphorylation site [posttranslational modification] 309807003646 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 309807003647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807003648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807003649 WHG domain; Region: WHG; pfam13305 309807003650 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 309807003651 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 309807003652 acyl-activating enzyme (AAE) consensus motif; other site 309807003653 putative AMP binding site [chemical binding]; other site 309807003654 putative active site [active] 309807003655 putative CoA binding site [chemical binding]; other site 309807003656 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 309807003657 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 309807003658 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309807003659 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309807003660 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 309807003661 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 309807003662 substrate binding site [chemical binding]; other site 309807003663 oxyanion hole (OAH) forming residues; other site 309807003664 trimer interface [polypeptide binding]; other site 309807003665 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 309807003666 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 309807003667 dimer interface [polypeptide binding]; other site 309807003668 active site 309807003669 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 309807003670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807003671 NAD(P) binding site [chemical binding]; other site 309807003672 active site 309807003673 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 309807003674 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309807003675 active site 309807003676 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 309807003677 short chain dehydrogenase; Provisional; Region: PRK07677 309807003678 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 309807003679 NAD(P) binding site [chemical binding]; other site 309807003680 substrate binding site [chemical binding]; other site 309807003681 homotetramer interface [polypeptide binding]; other site 309807003682 active site 309807003683 homodimer interface [polypeptide binding]; other site 309807003684 protoporphyrinogen oxidase; Region: PLN02576 309807003685 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807003686 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807003687 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 309807003688 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 309807003689 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 309807003690 Ras-mediated vulval-induction antagonist; Region: Lin-8; pfam03353 309807003691 Uncharacterized conserved protein [Function unknown]; Region: COG3339 309807003692 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 309807003693 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 309807003694 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 309807003695 substrate binding pocket [chemical binding]; other site 309807003696 chain length determination region; other site 309807003697 substrate-Mg2+ binding site; other site 309807003698 catalytic residues [active] 309807003699 aspartate-rich region 1; other site 309807003700 active site lid residues [active] 309807003701 aspartate-rich region 2; other site 309807003702 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 309807003703 ABC-ATPase subunit interface; other site 309807003704 dimer interface [polypeptide binding]; other site 309807003705 putative PBP binding regions; other site 309807003706 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 309807003707 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 309807003708 intersubunit interface [polypeptide binding]; other site 309807003709 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 309807003710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807003711 active site 309807003712 phosphorylation site [posttranslational modification] 309807003713 intermolecular recognition site; other site 309807003714 dimerization interface [polypeptide binding]; other site 309807003715 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003716 Walker A motif; other site 309807003717 ATP binding site [chemical binding]; other site 309807003718 Walker B motif; other site 309807003719 arginine finger; other site 309807003720 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 309807003721 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 309807003722 intersubunit interface [polypeptide binding]; other site 309807003723 active site 309807003724 catalytic residue [active] 309807003725 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 309807003726 NAD(P) binding site [chemical binding]; other site 309807003727 catalytic residues [active] 309807003728 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 309807003729 NAD(P) binding site [chemical binding]; other site 309807003730 Sporulation related domain; Region: SPOR; pfam05036 309807003731 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 309807003732 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807003733 catalytic residue [active] 309807003734 FAD dependent oxidoreductase; Region: DAO; pfam01266 309807003735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807003736 FAD dependent oxidoreductase; Region: DAO; pfam01266 309807003737 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 309807003738 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 309807003739 thiS-thiF/thiG interaction site; other site 309807003740 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 309807003741 ThiS interaction site; other site 309807003742 putative active site [active] 309807003743 tetramer interface [polypeptide binding]; other site 309807003744 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 309807003745 thiamine phosphate binding site [chemical binding]; other site 309807003746 active site 309807003747 pyrophosphate binding site [ion binding]; other site 309807003748 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 309807003749 dimer interface [polypeptide binding]; other site 309807003750 substrate binding site [chemical binding]; other site 309807003751 ATP binding site [chemical binding]; other site 309807003752 PAS domain S-box; Region: sensory_box; TIGR00229 309807003753 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 309807003754 putative active site [active] 309807003755 heme pocket [chemical binding]; other site 309807003756 GAF domain; Region: GAF; cl17456 309807003757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309807003758 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807003759 dimer interface [polypeptide binding]; other site 309807003760 phosphorylation site [posttranslational modification] 309807003761 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807003762 ATP binding site [chemical binding]; other site 309807003763 Mg2+ binding site [ion binding]; other site 309807003764 G-X-G motif; other site 309807003765 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 309807003766 active site residue [active] 309807003767 Protein of unknown function (DUF493); Region: DUF493; pfam04359 309807003768 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309807003769 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309807003770 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807003771 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309807003772 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309807003773 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309807003774 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309807003775 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 309807003776 active site 309807003777 catalytic residues [active] 309807003778 metal binding site [ion binding]; metal-binding site 309807003779 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 309807003780 putative active site [active] 309807003781 putative metal binding site [ion binding]; other site 309807003782 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 309807003783 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 309807003784 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 309807003785 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 309807003786 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 309807003787 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 309807003788 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 309807003789 Walker A/P-loop; other site 309807003790 ATP binding site [chemical binding]; other site 309807003791 Q-loop/lid; other site 309807003792 ABC transporter signature motif; other site 309807003793 Walker B; other site 309807003794 D-loop; other site 309807003795 H-loop/switch region; other site 309807003796 gamma-glutamyl kinase; Provisional; Region: PRK05429 309807003797 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 309807003798 nucleotide binding site [chemical binding]; other site 309807003799 homotetrameric interface [polypeptide binding]; other site 309807003800 putative phosphate binding site [ion binding]; other site 309807003801 putative allosteric binding site; other site 309807003802 PUA domain; Region: PUA; pfam01472 309807003803 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 309807003804 putative catalytic cysteine [active] 309807003805 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 309807003806 Ion channel; Region: Ion_trans_2; pfam07885 309807003807 TrkA-N domain; Region: TrkA_N; pfam02254 309807003808 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807003809 TrkA-C domain; Region: TrkA_C; pfam02080 309807003810 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807003811 TrkA-N domain; Region: TrkA_N; pfam02254 309807003812 TrkA-C domain; Region: TrkA_C; pfam02080 309807003813 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 309807003814 ADP-ribose binding site [chemical binding]; other site 309807003815 glycine dehydrogenase; Provisional; Region: PRK05367 309807003816 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 309807003817 tetramer interface [polypeptide binding]; other site 309807003818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003819 catalytic residue [active] 309807003820 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 309807003821 tetramer interface [polypeptide binding]; other site 309807003822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003823 catalytic residue [active] 309807003824 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; cl18945 309807003825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807003826 catalytic residue [active] 309807003827 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 309807003828 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309807003829 putative substrate translocation pore; other site 309807003830 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 309807003831 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 309807003832 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 309807003833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 309807003834 Family of unknown function (DUF490); Region: DUF490; pfam04357 309807003835 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807003836 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807003837 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807003838 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 309807003839 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 309807003840 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 309807003841 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 2.7.1; Region: dNK; cd01673 309807003842 Substrate-binding site [chemical binding]; other site 309807003843 Substrate specificity [chemical binding]; other site 309807003844 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 309807003845 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 309807003846 active site 309807003847 catalytic tetrad [active] 309807003848 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 309807003849 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807003850 catalytic residue [active] 309807003851 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 309807003852 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 309807003853 THF binding site; other site 309807003854 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 309807003855 substrate binding site [chemical binding]; other site 309807003856 THF binding site; other site 309807003857 zinc-binding site [ion binding]; other site 309807003858 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 309807003859 tetramer interface [polypeptide binding]; other site 309807003860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003861 catalytic residue [active] 309807003862 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 309807003863 O-Antigen ligase; Region: Wzy_C; pfam04932 309807003864 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 309807003865 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 309807003866 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 309807003867 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 309807003868 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 309807003869 Walker A motif; other site 309807003870 ATP binding site [chemical binding]; other site 309807003871 Walker B motif; other site 309807003872 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 309807003873 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 309807003874 Walker A motif; other site 309807003875 ATP binding site [chemical binding]; other site 309807003876 Walker B motif; other site 309807003877 Fimbrial assembly protein (PilN); Region: PilN; cl19830 309807003878 Sporulation related domain; Region: SPOR; pfam05036 309807003879 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 309807003880 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 309807003881 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 309807003882 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 309807003883 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 309807003884 Transcriptional regulators [Transcription]; Region: MarR; COG1846 309807003885 SnoaL-like domain; Region: SnoaL_2; pfam12680 309807003886 ADP-glucose phosphorylase; Region: PLN02643 309807003887 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 309807003888 nucleotide binding site/active site [active] 309807003889 HIT family signature motif; other site 309807003890 catalytic residue [active] 309807003891 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 309807003892 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807003893 active site 309807003894 hypothetical protein; Reviewed; Region: PRK12275 309807003895 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 309807003896 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 309807003897 Cupin domain; Region: Cupin_2; cl17218 309807003898 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 309807003899 active site 309807003900 catalytic residues [active] 309807003901 metal binding site [ion binding]; metal-binding site 309807003902 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 309807003903 S-adenosylmethionine binding site [chemical binding]; other site 309807003904 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 309807003905 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 309807003906 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 309807003907 putative peptidase; Provisional; Region: PRK11649 309807003908 Peptidase family M23; Region: Peptidase_M23; pfam01551 309807003909 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 309807003910 catalytic nucleophile [active] 309807003911 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807003912 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807003913 Stage II sporulation protein; Region: SpoIID; pfam08486 309807003914 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 309807003915 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 309807003916 active site 309807003917 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 309807003918 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 309807003919 nucleotide binding site [chemical binding]; other site 309807003920 NEF interaction site [polypeptide binding]; other site 309807003921 SBD interface [polypeptide binding]; other site 309807003922 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 309807003923 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807003924 active site 309807003925 competence damage-inducible protein A; Provisional; Region: PRK00549 309807003926 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 309807003927 putative MPT binding site; other site 309807003928 Competence-damaged protein; Region: CinA; pfam02464 309807003929 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 309807003930 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 309807003931 NAD(P) binding site [chemical binding]; other site 309807003932 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 309807003933 Conserved TM helix; Region: TM_helix; pfam05552 309807003934 mechanosensitive channel MscS; Provisional; Region: PRK10334 309807003935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807003936 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 309807003937 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309807003938 catalytic residues [active] 309807003939 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 309807003940 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 309807003941 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 309807003942 active site 309807003943 Zn binding site [ion binding]; other site 309807003944 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 309807003945 S-adenosylmethionine binding site [chemical binding]; other site 309807003946 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 309807003947 Ligand Binding Site [chemical binding]; other site 309807003948 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 309807003949 Ligand Binding Site [chemical binding]; other site 309807003950 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 309807003951 Ligand Binding Site [chemical binding]; other site 309807003952 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 309807003953 Ligand Binding Site [chemical binding]; other site 309807003954 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 309807003955 Ligand Binding Site [chemical binding]; other site 309807003956 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 309807003957 Clp amino terminal domain; Region: Clp_N; pfam02861 309807003958 Clp amino terminal domain; Region: Clp_N; pfam02861 309807003959 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003960 Walker A motif; other site 309807003961 ATP binding site [chemical binding]; other site 309807003962 Walker B motif; other site 309807003963 arginine finger; other site 309807003964 UvrB/uvrC motif; Region: UVR; pfam02151 309807003965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807003966 Walker A motif; other site 309807003967 ATP binding site [chemical binding]; other site 309807003968 Walker B motif; other site 309807003969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 309807003970 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 309807003971 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 309807003972 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807003973 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 309807003974 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807003975 Arylsulfotransferase (ASST); Region: Arylsulfotrans; cl19972 309807003976 YopX protein; Region: YopX; pfam09643 309807003977 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 309807003978 nucleoside/Zn binding site; other site 309807003979 dimer interface [polypeptide binding]; other site 309807003980 catalytic motif [active] 309807003981 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 309807003982 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 309807003983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807003984 homodimer interface [polypeptide binding]; other site 309807003985 catalytic residue [active] 309807003986 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 309807003987 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 309807003988 active site 309807003989 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 309807003990 active site 309807003991 putative lithium-binding site [ion binding]; other site 309807003992 substrate binding site [chemical binding]; other site 309807003993 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 309807003994 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 309807003995 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 309807003996 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309807003997 FtsX-like permease family; Region: FtsX; pfam02687 309807003998 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807003999 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 309807004000 FtsX-like permease family; Region: FtsX; pfam02687 309807004001 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 309807004002 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 309807004003 Walker A/P-loop; other site 309807004004 ATP binding site [chemical binding]; other site 309807004005 Q-loop/lid; other site 309807004006 ABC transporter signature motif; other site 309807004007 Walker B; other site 309807004008 D-loop; other site 309807004009 H-loop/switch region; other site 309807004010 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 309807004011 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 309807004012 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 309807004013 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807004014 active site 309807004015 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 309807004016 metal ion-dependent adhesion site (MIDAS); other site 309807004017 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 309807004018 Protein of unknown function DUF89; Region: DUF89; pfam01937 309807004019 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 309807004020 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 309807004021 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 309807004022 active site 309807004023 ribonuclease III; Reviewed; Region: rnc; PRK00102 309807004024 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 309807004025 dimerization interface [polypeptide binding]; other site 309807004026 active site 309807004027 metal binding site [ion binding]; metal-binding site 309807004028 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 309807004029 dsRNA binding site [nucleotide binding]; other site 309807004030 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 309807004031 NAD(P) binding site [chemical binding]; other site 309807004032 catalytic residues [active] 309807004033 YbbR-like protein; Region: YbbR; pfam07949 309807004034 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 309807004035 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 309807004036 catalytic core [active] 309807004037 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 309807004038 chorismate binding enzyme; Region: Chorismate_bind; cl10555 309807004039 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 309807004040 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 309807004041 dimer interface [polypeptide binding]; other site 309807004042 tetramer interface [polypeptide binding]; other site 309807004043 PYR/PP interface [polypeptide binding]; other site 309807004044 TPP binding site [chemical binding]; other site 309807004045 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, 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...; Region: TPP_SHCHC_synthase; cd02009 309807004046 TPP-binding site; other site 309807004047 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 309807004048 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 309807004049 putative active site [active] 309807004050 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 309807004051 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 309807004052 active site 309807004053 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 309807004054 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 309807004055 acyl-activating enzyme (AAE) consensus motif; other site 309807004056 putative AMP binding site [chemical binding]; other site 309807004057 putative active site [active] 309807004058 putative CoA binding site [chemical binding]; other site 309807004059 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 309807004060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807004061 Coenzyme A binding pocket [chemical binding]; other site 309807004062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807004063 intermolecular recognition site; other site 309807004064 active site 309807004065 dimerization interface [polypeptide binding]; other site 309807004066 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 309807004067 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 309807004068 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 309807004069 anti sigma factor interaction site; other site 309807004070 regulatory phosphorylation site [posttranslational modification]; other site 309807004071 Lipopolysaccharide-assembly, LptC-related; Region: LptC; cl01200 309807004072 OstA-like protein; Region: OstA; cl00844 309807004073 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 309807004074 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 309807004075 Walker A/P-loop; other site 309807004076 ATP binding site [chemical binding]; other site 309807004077 Q-loop/lid; other site 309807004078 ABC transporter signature motif; other site 309807004079 Walker B; other site 309807004080 D-loop; other site 309807004081 H-loop/switch region; other site 309807004082 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 309807004083 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 309807004084 glutaminase active site [active] 309807004085 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 309807004086 dimer interface [polypeptide binding]; other site 309807004087 active site 309807004088 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 309807004089 dimer interface [polypeptide binding]; other site 309807004090 active site 309807004091 peptide chain release factor 1; Validated; Region: prfA; PRK00591 309807004092 PCRF domain; Region: PCRF; pfam03462 309807004093 RF-1 domain; Region: RF-1; pfam00472 309807004094 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 309807004095 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 309807004096 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 309807004097 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 309807004098 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 309807004099 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 309807004100 homodimer interface [polypeptide binding]; other site 309807004101 substrate-cofactor binding pocket; other site 309807004102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807004103 catalytic residue [active] 309807004104 DnaA N-terminal domain; Region: DnaA_N; pfam11638 309807004105 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 309807004106 Spermatogenesis-associated serine-rich protein 1; Region: SASRP1; pfam15160 309807004107 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807004108 Walker A motif; other site 309807004109 ATP binding site [chemical binding]; other site 309807004110 Walker B motif; other site 309807004111 arginine finger; other site 309807004112 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 309807004113 DnaA box-binding interface [nucleotide binding]; other site 309807004114 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 309807004115 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 309807004116 dimer interface [polypeptide binding]; other site 309807004117 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 309807004118 active site 309807004119 Fe binding site [ion binding]; other site 309807004120 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 309807004121 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 309807004122 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 309807004123 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 309807004124 NADP binding site [chemical binding]; other site 309807004125 dimer interface [polypeptide binding]; other site 309807004126 FAD dependent oxidoreductase; Region: DAO; pfam01266 309807004127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004128 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 309807004129 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 309807004130 Zn binding site [ion binding]; other site 309807004131 Integration host factor (IHF) and similar proteins; Region: IHF; cd13832 309807004132 dimer interface [polypeptide binding]; other site 309807004133 DNA binding site [nucleotide binding] 309807004134 Double zinc ribbon; Region: DZR; pfam12773 309807004135 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 309807004136 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 309807004137 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 309807004138 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 309807004139 TPR motif; other site 309807004140 binding surface 309807004141 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; cl01535 309807004142 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309807004143 active site 309807004144 metal binding site [ion binding]; metal-binding site 309807004145 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 309807004146 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807004147 Walker A motif; other site 309807004148 ATP binding site [chemical binding]; other site 309807004149 Walker B motif; other site 309807004150 arginine finger; other site 309807004151 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 309807004152 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 309807004153 Fe-S metabolizm associated domain; Region: SufE; cl00951 309807004154 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 309807004155 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 309807004156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807004157 catalytic residue [active] 309807004158 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 309807004159 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 309807004160 FeS assembly ATPase SufC; Region: sufC; TIGR01978 309807004161 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 309807004162 Walker A/P-loop; other site 309807004163 ATP binding site [chemical binding]; other site 309807004164 Q-loop/lid; other site 309807004165 ABC transporter signature motif; other site 309807004166 Walker B; other site 309807004167 D-loop; other site 309807004168 H-loop/switch region; other site 309807004169 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 309807004170 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 309807004171 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 309807004172 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 309807004173 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 309807004174 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 309807004175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807004176 Coenzyme A binding pocket [chemical binding]; other site 309807004177 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 309807004178 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 309807004179 HemN C-terminal domain; Region: HemN_C; pfam06969 309807004180 NurA domain; Region: NurA; pfam09376 309807004181 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 strategy; Region: CHS_like; cd00831 309807004182 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 309807004183 malonyl-CoA binding site [chemical binding]; other site 309807004184 dimer interface [polypeptide binding]; other site 309807004185 active site 309807004186 product binding site; other site 309807004187 Bacterial Ig-like domain; Region: Big_5; pfam13205 309807004188 Lamin Tail Domain; Region: LTD; pfam00932 309807004189 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 309807004190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807004191 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807004192 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807004193 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 309807004194 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 309807004195 metal binding site [ion binding]; metal-binding site 309807004196 putative dimer interface [polypeptide binding]; other site 309807004197 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 309807004198 metal ion-dependent adhesion site (MIDAS); other site 309807004199 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 309807004200 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 309807004201 Subtilase family; Region: Peptidase_S8; pfam00082 309807004202 active site 309807004203 catalytic residues [active] 309807004204 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 309807004205 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807004206 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807004207 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 309807004208 active site 309807004209 catalytic motif [active] 309807004210 Zn binding site [ion binding]; other site 309807004211 cytidine deaminase, homotetrameric; Region: cyt_deam_tetra; TIGR01354 309807004212 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 309807004213 active site 309807004214 catalytic motif [active] 309807004215 Zn binding site [ion binding]; other site 309807004216 Outer membrane efflux protein; Region: OEP; pfam02321 309807004217 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 309807004218 Outer membrane efflux protein; Region: OEP; pfam02321 309807004219 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 309807004220 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807004221 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807004222 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309807004223 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807004224 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807004225 Walker A/P-loop; other site 309807004226 ATP binding site [chemical binding]; other site 309807004227 Q-loop/lid; other site 309807004228 ABC transporter signature motif; other site 309807004229 Walker B; other site 309807004230 D-loop; other site 309807004231 H-loop/switch region; other site 309807004232 large tegument protein UL36; Provisional; Region: PHA03247 309807004233 Pantoate-beta-alanine ligase; Region: PanC; cd00560 309807004234 active site 309807004235 ATP-binding site [chemical binding]; other site 309807004236 pantoate-binding site; other site 309807004237 HXXH motif; other site 309807004238 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 309807004239 tetramerization interface [polypeptide binding]; other site 309807004240 active site 309807004241 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 309807004242 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 309807004243 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309807004244 PhoH-like protein; Region: PhoH; pfam02562 309807004245 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 309807004246 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 309807004247 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 309807004248 SurA N-terminal domain; Region: SurA_N_3; cl07813 309807004249 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 309807004250 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 309807004251 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 309807004252 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 309807004253 Glucose-regulated metallo-peptidase M90; Region: Peptidase_M90; pfam06167 309807004254 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; cl18945 309807004255 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807004256 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 309807004257 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 309807004258 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 309807004259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 309807004260 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 309807004261 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 309807004262 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 309807004263 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 309807004264 tetramer interface [polypeptide binding]; other site 309807004265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807004266 catalytic residue [active] 309807004267 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 309807004268 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 309807004269 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 309807004270 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 309807004271 dimer interface [polypeptide binding]; other site 309807004272 catalytic triad [active] 309807004273 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 309807004274 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 309807004275 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 309807004276 active site 309807004277 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 309807004278 putative acyl-acceptor binding pocket; other site 309807004279 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 309807004280 active site lid residues [active] 309807004281 substrate binding pocket [chemical binding]; other site 309807004282 catalytic residues [active] 309807004283 substrate-Mg2+ binding site; other site 309807004284 aspartate-rich region 1; other site 309807004285 aspartate-rich region 2; other site 309807004286 carotene biosynthesis associated membrane protein; Region: crt_membr_arch; TIGR03460 309807004287 WbqC-like protein family; Region: WbqC; pfam08889 309807004288 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 309807004289 trimer interface [polypeptide binding]; other site 309807004290 active site 309807004291 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 309807004292 inhibitor site; inhibition site 309807004293 active site 309807004294 dimer interface [polypeptide binding]; other site 309807004295 catalytic residue [active] 309807004296 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 309807004297 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 309807004298 oligomer interface [polypeptide binding]; other site 309807004299 active site residues [active] 309807004300 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 309807004301 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 309807004302 hypothetical protein; Validated; Region: PRK07883 309807004303 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309807004304 active site 309807004305 catalytic site [active] 309807004306 substrate binding site [chemical binding]; other site 309807004307 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 309807004308 GIY-YIG motif/motif A; other site 309807004309 active site 309807004310 catalytic site [active] 309807004311 putative DNA binding site [nucleotide binding]; other site 309807004312 metal binding site [ion binding]; metal-binding site 309807004313 UvrB/uvrC motif; Region: UVR; pfam02151 309807004314 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 309807004315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 309807004316 nucleotide binding site [chemical binding]; other site 309807004317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807004318 Zn2+ binding site [ion binding]; other site 309807004319 Mg2+ binding site [ion binding]; other site 309807004320 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 309807004321 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 309807004322 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 309807004323 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 309807004324 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807004325 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 309807004326 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 309807004327 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807004328 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 309807004329 aromatic arch; other site 309807004330 DCoH dimer interaction site [polypeptide binding]; other site 309807004331 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 309807004332 DCoH tetramer interaction site [polypeptide binding]; other site 309807004333 substrate binding site [chemical binding]; other site 309807004334 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 309807004335 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807004336 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 309807004337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807004338 active site 309807004339 phosphorylation site [posttranslational modification] 309807004340 intermolecular recognition site; other site 309807004341 dimerization interface [polypeptide binding]; other site 309807004342 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 309807004343 PAS domain; Region: PAS_9; pfam13426 309807004344 putative active site [active] 309807004345 heme pocket [chemical binding]; other site 309807004346 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807004347 Walker A motif; other site 309807004348 ATP binding site [chemical binding]; other site 309807004349 Walker B motif; other site 309807004350 arginine finger; other site 309807004351 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 309807004352 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807004353 dimerization interface [polypeptide binding]; other site 309807004354 PAS fold; Region: PAS_4; pfam08448 309807004355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309807004356 Histidine kinase; Region: HisKA_2; pfam07568 309807004357 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807004358 Mg2+ binding site [ion binding]; other site 309807004359 G-X-G motif; other site 309807004360 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807004361 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 309807004362 Catalytic domain of Protein Kinases; Region: PKc; cd00180 309807004363 active site 309807004364 ATP binding site [chemical binding]; other site 309807004365 substrate binding site [chemical binding]; other site 309807004366 activation loop (A-loop); other site 309807004367 PEGA domain; Region: PEGA; pfam08308 309807004368 PEGA domain; Region: PEGA; pfam08308 309807004369 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 309807004370 NAD(P) binding site [chemical binding]; other site 309807004371 catalytic residues [active] 309807004372 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 309807004373 catalytic triad [active] 309807004374 metal binding site [ion binding]; metal-binding site 309807004375 conserved cis-peptide bond; other site 309807004376 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 309807004377 AAA domain; Region: AAA_33; pfam13671 309807004378 AAA domain; Region: AAA_17; cl19128 309807004379 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 309807004380 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 309807004381 substrate binding site [chemical binding]; other site 309807004382 oxyanion hole (OAH) forming residues; other site 309807004383 trimer interface [polypeptide binding]; other site 309807004384 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 309807004385 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309807004386 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309807004387 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 309807004388 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 309807004389 dimer interface [polypeptide binding]; other site 309807004390 active site 309807004391 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 309807004392 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 309807004393 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 309807004394 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807004395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807004396 dimer interface [polypeptide binding]; other site 309807004397 putative CheW interface [polypeptide binding]; other site 309807004398 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 309807004399 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004400 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 309807004401 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 309807004402 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 309807004403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 309807004404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807004405 dimer interface [polypeptide binding]; other site 309807004406 conserved gate region; other site 309807004407 putative PBP binding loops; other site 309807004408 ABC-ATPase subunit interface; other site 309807004409 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 309807004410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807004411 dimer interface [polypeptide binding]; other site 309807004412 conserved gate region; other site 309807004413 putative PBP binding loops; other site 309807004414 ABC-ATPase subunit interface; other site 309807004415 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 309807004416 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 309807004417 Walker A/P-loop; other site 309807004418 ATP binding site [chemical binding]; other site 309807004419 Q-loop/lid; other site 309807004420 ABC transporter signature motif; other site 309807004421 Walker B; other site 309807004422 D-loop; other site 309807004423 H-loop/switch region; other site 309807004424 TOBE domain; Region: TOBE_2; pfam08402 309807004425 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 309807004426 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 309807004427 Walker A/P-loop; other site 309807004428 ATP binding site [chemical binding]; other site 309807004429 Q-loop/lid; other site 309807004430 ABC transporter signature motif; other site 309807004431 Walker B; other site 309807004432 D-loop; other site 309807004433 H-loop/switch region; other site 309807004434 glycerol kinase; Provisional; Region: glpK; PRK00047 309807004435 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 309807004436 N- and C-terminal domain interface [polypeptide binding]; other site 309807004437 active site 309807004438 MgATP binding site [chemical binding]; other site 309807004439 catalytic site [active] 309807004440 metal binding site [ion binding]; metal-binding site 309807004441 glycerol binding site [chemical binding]; other site 309807004442 homotetramer interface [polypeptide binding]; other site 309807004443 homodimer interface [polypeptide binding]; other site 309807004444 FBP binding site [chemical binding]; other site 309807004445 protein IIAGlc interface [polypeptide binding]; other site 309807004446 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 309807004447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 309807004448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 309807004449 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 309807004450 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 309807004451 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 309807004452 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 309807004453 AMP binding site [chemical binding]; other site 309807004454 metal binding site [ion binding]; metal-binding site 309807004455 active site 309807004456 enoyl-CoA hydratase; Provisional; Region: PRK05995 309807004457 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 309807004458 substrate binding site [chemical binding]; other site 309807004459 oxyanion hole (OAH) forming residues; other site 309807004460 trimer interface [polypeptide binding]; other site 309807004461 aconitate hydratase; Validated; Region: PRK07229 309807004462 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 309807004463 substrate binding site [chemical binding]; other site 309807004464 ligand binding site [chemical binding]; other site 309807004465 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 309807004466 substrate binding site [chemical binding]; other site 309807004467 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 309807004468 aspartate-rich region 2; other site 309807004469 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 309807004470 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 309807004471 dimerization interface [polypeptide binding]; other site 309807004472 putative ATP binding site [chemical binding]; other site 309807004473 membrane protein; Provisional; Region: PRK14410 309807004474 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 309807004475 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 309807004476 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 309807004477 Divergent AAA domain; Region: AAA_4; pfam04326 309807004478 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 309807004479 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 309807004480 CAP-like domain; other site 309807004481 active site 309807004482 primary dimer interface [polypeptide binding]; other site 309807004483 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807004484 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 309807004485 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807004486 ATP binding site [chemical binding]; other site 309807004487 Mg2+ binding site [ion binding]; other site 309807004488 G-X-G motif; other site 309807004489 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 309807004490 anchoring element; other site 309807004491 dimer interface [polypeptide binding]; other site 309807004492 ATP binding site [chemical binding]; other site 309807004493 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 309807004494 active site 309807004495 metal binding site [ion binding]; metal-binding site 309807004496 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 309807004497 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 309807004498 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309807004499 active site 309807004500 motif I; other site 309807004501 motif II; other site 309807004502 Disulphide isomerase; Region: Disulph_isomer; pfam06491 309807004503 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 309807004504 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 309807004505 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 309807004506 RNA binding surface [nucleotide binding]; other site 309807004507 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 309807004508 active site 309807004509 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 309807004510 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 309807004511 active site 309807004512 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 309807004513 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 309807004514 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 309807004515 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 309807004516 active site 309807004517 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 309807004518 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 309807004519 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 309807004520 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 309807004521 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309807004522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004523 Putative cyclase; Region: Cyclase; cl00814 309807004524 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 309807004525 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 309807004526 active site 309807004527 Int/Topo IB signature motif; other site 309807004528 DNA binding site [nucleotide binding] 309807004529 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 309807004530 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 309807004531 active site 309807004532 DNA binding site [nucleotide binding] 309807004533 Int/Topo IB signature motif; other site 309807004534 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 309807004535 S-adenosylmethionine binding site [chemical binding]; other site 309807004536 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 309807004537 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 309807004538 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 309807004539 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 309807004540 putative NAD(P) binding site [chemical binding]; other site 309807004541 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 309807004542 dimerization interface [polypeptide binding]; other site 309807004543 active site 309807004544 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 309807004545 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 309807004546 substrate binding site [chemical binding]; other site 309807004547 ATP binding site [chemical binding]; other site 309807004548 Transcriptional regulators [Transcription]; Region: PurR; COG1609 309807004549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 309807004550 DNA binding site [nucleotide binding] 309807004551 domain linker motif; other site 309807004552 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs; Region: PBP1_LacI_like_12; cd06297 309807004553 putative dimerization interface [polypeptide binding]; other site 309807004554 putative ligand binding site [chemical binding]; other site 309807004555 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 309807004556 ATP binding site [chemical binding]; other site 309807004557 active site 309807004558 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 309807004559 substrate binding site [chemical binding]; other site 309807004560 Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Ph0642_like; cd07577 309807004561 putative active site [active] 309807004562 catalytic triad [active] 309807004563 dimer interface [polypeptide binding]; other site 309807004564 putative tetramer interface [polypeptide binding]; other site 309807004565 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 309807004566 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...; Region: PRX_family; cd02971 309807004567 catalytic triad [active] 309807004568 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309807004569 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807004570 FtsX-like permease family; Region: FtsX; pfam02687 309807004571 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 309807004572 Glutamate binding site [chemical binding]; other site 309807004573 NAD binding site [chemical binding]; other site 309807004574 catalytic residues [active] 309807004575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309807004576 DNA-binding site [nucleotide binding]; DNA binding site 309807004577 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 309807004578 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 309807004579 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807004580 Zn2+ binding site [ion binding]; other site 309807004581 Mg2+ binding site [ion binding]; other site 309807004582 large tegument protein UL36; Provisional; Region: PHA03247 309807004583 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 309807004584 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807004585 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 309807004586 NRDE protein; Region: NRDE; pfam05742 309807004587 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 309807004588 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 309807004589 active site 309807004590 dimer interface [polypeptide binding]; other site 309807004591 metal binding site [ion binding]; metal-binding site 309807004592 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 309807004593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 309807004594 Family of unknown function (DUF490); Region: DUF490; pfam04357 309807004595 ribonuclease R; Region: RNase_R; TIGR02063 309807004596 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 309807004597 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 309807004598 RNB domain; Region: RNB; pfam00773 309807004599 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 309807004600 RNA binding site [nucleotide binding]; other site 309807004601 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 309807004602 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 309807004603 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 309807004604 active site 309807004605 recombinase A; Provisional; Region: recA; PRK09354 309807004606 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 309807004607 hexamer interface [polypeptide binding]; other site 309807004608 Walker A motif; other site 309807004609 ATP binding site [chemical binding]; other site 309807004610 Walker B motif; other site 309807004611 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 309807004612 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 309807004613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807004614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807004615 active site 309807004616 phosphorylation site [posttranslational modification] 309807004617 intermolecular recognition site; other site 309807004618 dimerization interface [polypeptide binding]; other site 309807004619 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 309807004620 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 309807004621 putative active site [active] 309807004622 catalytic site [active] 309807004623 putative metal binding site [ion binding]; other site 309807004624 oligomer interface [polypeptide binding]; other site 309807004625 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 309807004626 active site 309807004627 DNA polymerase IV; Validated; Region: PRK02406 309807004628 DNA binding site [nucleotide binding] 309807004629 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 309807004630 GIY-YIG motif/motif A; other site 309807004631 putative active site [active] 309807004632 putative metal binding site [ion binding]; other site 309807004633 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 309807004634 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 309807004635 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 309807004636 motif 1; other site 309807004637 active site 309807004638 motif 2; other site 309807004639 motif 3; other site 309807004640 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 309807004641 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 309807004642 active site 309807004643 DNA binding site [nucleotide binding] 309807004644 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 309807004645 putative acyltransferase; Provisional; Region: PRK05790 309807004646 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 309807004647 dimer interface [polypeptide binding]; other site 309807004648 active site 309807004649 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 309807004650 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 309807004651 catalytic residues [active] 309807004652 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 309807004653 putative active site [active] 309807004654 Zn binding site [ion binding]; other site 309807004655 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 309807004656 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 309807004657 MOFRL family; Region: MOFRL; pfam05161 309807004658 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 309807004659 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 309807004660 thiamine phosphate binding site [chemical binding]; other site 309807004661 active site 309807004662 pyrophosphate binding site [ion binding]; other site 309807004663 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 309807004664 active site 309807004665 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 309807004666 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 309807004667 domain interfaces; other site 309807004668 active site 309807004669 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 309807004670 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 309807004671 tRNA; other site 309807004672 putative tRNA binding site [nucleotide binding]; other site 309807004673 putative NADP binding site [chemical binding]; other site 309807004674 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 309807004675 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 309807004676 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 309807004677 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 309807004678 active site 309807004679 HIGH motif; other site 309807004680 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 309807004681 KMSKS motif; other site 309807004682 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 309807004683 tRNA binding surface [nucleotide binding]; other site 309807004684 anticodon binding site; other site 309807004685 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 309807004686 putative tRNA-binding site [nucleotide binding]; other site 309807004687 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 309807004688 putative active site pocket [active] 309807004689 4-fold oligomerization interface [polypeptide binding]; other site 309807004690 metal binding residues [ion binding]; metal-binding site 309807004691 3-fold/trimer interface [polypeptide binding]; other site 309807004692 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 309807004693 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 309807004694 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 309807004695 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 309807004696 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 309807004697 putative active site [active] 309807004698 oxyanion strand; other site 309807004699 catalytic triad [active] 309807004700 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 309807004701 DNA-binding site [nucleotide binding]; DNA binding site 309807004702 RNA-binding motif; other site 309807004703 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 309807004704 catalytic residues [active] 309807004705 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 309807004706 substrate binding site [chemical binding]; other site 309807004707 glutamase interaction surface [polypeptide binding]; other site 309807004708 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 309807004709 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 309807004710 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 309807004711 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 309807004712 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 309807004713 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 309807004714 malate dehydrogenase; Reviewed; Region: PRK06223 309807004715 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 309807004716 NAD(P) binding site [chemical binding]; other site 309807004717 dimer interface [polypeptide binding]; other site 309807004718 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309807004719 substrate binding site [chemical binding]; other site 309807004720 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 309807004721 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 309807004722 dimer interface [polypeptide binding]; other site 309807004723 substrate binding site [chemical binding]; other site 309807004724 metal binding site [ion binding]; metal-binding site 309807004725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807004726 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807004727 TAP-like protein; Region: Abhydrolase_4; pfam08386 309807004728 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 309807004729 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 309807004730 active site 309807004731 catalytic tetrad [active] 309807004732 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 309807004733 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 309807004734 PIN domain; Region: PIN_3; pfam13470 309807004735 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 309807004736 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 309807004737 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 309807004738 GIY-YIG motif/motif A; other site 309807004739 active site 309807004740 catalytic site [active] 309807004741 putative DNA binding site [nucleotide binding]; other site 309807004742 metal binding site [ion binding]; metal-binding site 309807004743 UvrB/uvrC motif; Region: UVR; pfam02151 309807004744 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 309807004745 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 309807004746 DNA binding site [nucleotide binding] 309807004747 MAEBL; Provisional; Region: PTZ00121 309807004748 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 309807004749 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 309807004750 binding surface 309807004751 TPR motif; other site 309807004752 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 309807004753 TPR motif; other site 309807004754 binding surface 309807004755 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 309807004756 binding surface 309807004757 TPR motif; other site 309807004758 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 309807004759 binding surface 309807004760 TPR motif; other site 309807004761 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 309807004762 binding surface 309807004763 TPR motif; other site 309807004764 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 309807004765 binding surface 309807004766 TPR motif; other site 309807004767 Sporulation related domain; Region: SPOR; pfam05036 309807004768 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 309807004769 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 309807004770 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 309807004771 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 309807004772 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807004773 Walker A motif; other site 309807004774 ATP binding site [chemical binding]; other site 309807004775 Walker B motif; other site 309807004776 arginine finger; other site 309807004777 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 309807004778 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 309807004779 Auracyanins A and B and similar proteins; Region: Auracyanin; cd04233 309807004780 Type 1 (T1) Cu binding site [ion binding]; other site 309807004781 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 309807004782 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 309807004783 S-adenosylmethionine binding site [chemical binding]; other site 309807004784 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 309807004785 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 309807004786 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 309807004787 metal-binding site [ion binding] 309807004788 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309807004789 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 309807004790 metal-binding site [ion binding] 309807004791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309807004792 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 309807004793 active site 309807004794 motif I; other site 309807004795 motif II; other site 309807004796 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 309807004797 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004798 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 309807004799 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 309807004800 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 309807004801 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 309807004802 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 309807004803 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807004804 FOG: CBS domain [General function prediction only]; Region: COG0517 309807004805 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807004806 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 309807004807 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 309807004808 binding surface 309807004809 TPR motif; other site 309807004810 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 309807004811 binding surface 309807004812 TPR motif; other site 309807004813 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 309807004814 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 309807004815 TPR motif; other site 309807004816 binding surface 309807004817 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 309807004818 TPR motif; other site 309807004819 binding surface 309807004820 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 309807004821 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 309807004822 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807004823 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 309807004824 Peptidase family M23; Region: Peptidase_M23; pfam01551 309807004825 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 309807004826 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004827 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807004828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 309807004829 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 309807004830 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 309807004831 Zn binding site [ion binding]; other site 309807004832 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 309807004833 HSP70 interaction site [polypeptide binding]; other site 309807004834 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 309807004835 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 309807004836 MutS domain I; Region: MutS_I; pfam01624 309807004837 MutS domain II; Region: MutS_II; pfam05188 309807004838 MutS domain III; Region: MutS_III; pfam05192 309807004839 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 309807004840 Walker A/P-loop; other site 309807004841 ATP binding site [chemical binding]; other site 309807004842 Q-loop/lid; other site 309807004843 ABC transporter signature motif; other site 309807004844 Walker B; other site 309807004845 D-loop; other site 309807004846 H-loop/switch region; other site 309807004847 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309807004848 ATP-NAD kinase; Region: NAD_kinase; cl01255 309807004849 fumarate hydratase; Reviewed; Region: fumC; PRK00485 309807004850 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 309807004851 active sites [active] 309807004852 tetramer interface [polypeptide binding]; other site 309807004853 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 309807004854 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 309807004855 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 309807004856 protein binding site [polypeptide binding]; other site 309807004857 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 309807004858 protein binding site [polypeptide binding]; other site 309807004859 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 309807004860 dimer interface [polypeptide binding]; other site 309807004861 active site 309807004862 metal binding site [ion binding]; metal-binding site 309807004863 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 309807004864 prephenate dehydrogenase; Validated; Region: PRK08507 309807004865 prephenate dehydrogenase; Validated; Region: PRK06545 309807004866 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 309807004867 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 309807004868 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 309807004869 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 309807004870 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 309807004871 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 309807004872 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 309807004873 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 309807004874 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 309807004875 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 309807004876 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 309807004877 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807004878 AIR carboxylase; Region: AIRC; pfam00731 309807004879 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 309807004880 Interdomain contacts; other site 309807004881 Cytokine receptor motif; other site 309807004882 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807004883 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 309807004884 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 309807004885 active site 309807004886 HIGH motif; other site 309807004887 dimer interface [polypeptide binding]; other site 309807004888 KMSKS motif; other site 309807004889 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 309807004890 RNA binding surface [nucleotide binding]; other site 309807004891 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 309807004892 SmpB-tmRNA interface; other site 309807004893 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 309807004894 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 309807004895 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 309807004896 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 309807004897 RimM N-terminal domain; Region: RimM; pfam01782 309807004898 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 309807004899 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 309807004900 signal recognition particle protein; Provisional; Region: PRK10867 309807004901 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 309807004902 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 309807004903 P loop; other site 309807004904 GTP binding site [chemical binding]; other site 309807004905 Signal peptide binding domain; Region: SRP_SPB; pfam02978 309807004906 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 309807004907 PspC domain; Region: PspC; pfam04024 309807004908 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309807004909 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309807004910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309807004911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309807004912 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309807004913 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309807004914 DNA polymerase I; Provisional; Region: PRK05755 309807004915 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 309807004916 active site 309807004917 metal binding site 1 [ion binding]; metal-binding site 309807004918 putative 5' ssDNA interaction site; other site 309807004919 metal binding site 3; metal-binding site 309807004920 metal binding site 2 [ion binding]; metal-binding site 309807004921 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 309807004922 putative DNA binding site [nucleotide binding]; other site 309807004923 putative metal binding site [ion binding]; other site 309807004924 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 309807004925 active site 309807004926 catalytic site [active] 309807004927 substrate binding site [chemical binding]; other site 309807004928 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 309807004929 active site 309807004930 DNA binding site [nucleotide binding] 309807004931 catalytic site [active] 309807004932 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 309807004933 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 309807004934 motif II; other site 309807004935 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 309807004936 PAS domain S-box; Region: sensory_box; TIGR00229 309807004937 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 309807004938 putative active site [active] 309807004939 heme pocket [chemical binding]; other site 309807004940 PAS fold; Region: PAS_4; pfam08448 309807004941 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 309807004942 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 309807004943 putative active site [active] 309807004944 heme pocket [chemical binding]; other site 309807004945 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 309807004946 putative active site [active] 309807004947 heme pocket [chemical binding]; other site 309807004948 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807004949 dimer interface [polypeptide binding]; other site 309807004950 phosphorylation site [posttranslational modification] 309807004951 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807004952 ATP binding site [chemical binding]; other site 309807004953 Mg2+ binding site [ion binding]; other site 309807004954 G-X-G motif; other site 309807004955 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 309807004956 active site 309807004957 substrate binding site [chemical binding]; other site 309807004958 cosubstrate binding site; other site 309807004959 catalytic site [active] 309807004960 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 309807004961 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 309807004962 purine monophosphate binding site [chemical binding]; other site 309807004963 dimer interface [polypeptide binding]; other site 309807004964 putative catalytic residues [active] 309807004965 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 309807004966 rod shape-determining protein MreB; Provisional; Region: PRK13927 309807004967 MreB and similar proteins; Region: MreB_like; cd10225 309807004968 nucleotide binding site [chemical binding]; other site 309807004969 Mg binding site [ion binding]; other site 309807004970 putative protofilament interaction site [polypeptide binding]; other site 309807004971 RodZ interaction site [polypeptide binding]; other site 309807004972 rod shape-determining protein MreC; Provisional; Region: PRK13922 309807004973 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 309807004974 active site 309807004975 HslU subunit interaction site [polypeptide binding]; other site 309807004976 LabA_like proteins; Region: LabA_like; cd06167 309807004977 putative metal binding site [ion binding]; other site 309807004978 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 309807004979 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807004980 Walker A motif; other site 309807004981 ATP binding site [chemical binding]; other site 309807004982 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 309807004983 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 309807004984 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 309807004985 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807004986 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 309807004987 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 309807004988 trimer interface [polypeptide binding]; other site 309807004989 putative metal binding site [ion binding]; other site 309807004990 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 309807004991 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 309807004992 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 309807004993 homotrimer interaction site [polypeptide binding]; other site 309807004994 zinc binding site [ion binding]; other site 309807004995 CDP-binding sites; other site 309807004996 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 309807004997 substrate binding site; other site 309807004998 dimer interface; other site 309807004999 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 309807005000 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 309807005001 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 309807005002 intersubunit interface [polypeptide binding]; other site 309807005003 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 309807005004 Uncharacterized conserved protein [Function unknown]; Region: COG5613; cl19899 309807005005 Phosphate transporter family; Region: PHO4; pfam01384 309807005006 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 309807005007 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 309807005008 G1 box; other site 309807005009 putative GEF interaction site [polypeptide binding]; other site 309807005010 GTP/Mg2+ binding site [chemical binding]; other site 309807005011 Switch I region; other site 309807005012 G2 box; other site 309807005013 G3 box; other site 309807005014 Switch II region; other site 309807005015 G4 box; other site 309807005016 G5 box; other site 309807005017 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 309807005018 Elongation Factor G, domain II; Region: EFG_II; pfam14492 309807005019 MgtC family; Region: MgtC; pfam02308 309807005020 Predicted membrane protein [Function unknown]; Region: COG3174 309807005021 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 309807005022 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 309807005023 putative active site [active] 309807005024 Vitamin K epoxide reductase family in bacteria and plants; Region: VKOR_1; cd12916 309807005025 substrate binding site [chemical binding]; other site 309807005026 putative active site [active] 309807005027 redox center [active] 309807005028 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 309807005029 Thioredoxin; Region: Thioredoxin_4; pfam13462 309807005030 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 309807005031 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 309807005032 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 309807005033 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 309807005034 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 309807005035 active site 309807005036 HIGH motif; other site 309807005037 dimer interface [polypeptide binding]; other site 309807005038 KMSKS motif; other site 309807005039 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 309807005040 Glutamine amidotransferase class-I; Region: GATase; pfam00117 309807005041 glutamine binding [chemical binding]; other site 309807005042 catalytic triad [active] 309807005043 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 309807005044 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 309807005045 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 309807005046 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 309807005047 active site 309807005048 ribulose/triose binding site [chemical binding]; other site 309807005049 phosphate binding site [ion binding]; other site 309807005050 substrate (anthranilate) binding pocket [chemical binding]; other site 309807005051 product (indole) binding pocket [chemical binding]; other site 309807005052 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 309807005053 active site 309807005054 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 309807005055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807005056 catalytic residue [active] 309807005057 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 309807005058 substrate binding site [chemical binding]; other site 309807005059 active site 309807005060 catalytic residues [active] 309807005061 heterodimer interface [polypeptide binding]; other site 309807005062 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 309807005063 DEAD-like helicases superfamily; Region: DEXDc; smart00487 309807005064 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 309807005065 ATP binding site [chemical binding]; other site 309807005066 putative Mg++ binding site [ion binding]; other site 309807005067 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 309807005068 nucleotide binding region [chemical binding]; other site 309807005069 ATP-binding site [chemical binding]; other site 309807005070 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 309807005071 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 309807005072 Probable Catalytic site; other site 309807005073 metal-binding site 309807005074 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 309807005075 EamA-like transporter family; Region: EamA; pfam00892 309807005076 EamA-like transporter family; Region: EamA; pfam00892 309807005077 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 309807005078 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 309807005079 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 309807005080 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 309807005081 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 309807005082 hypothetical protein; Provisional; Region: PRK08609 309807005083 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 309807005084 metal binding triad [ion binding]; metal-binding site 309807005085 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 309807005086 active site 309807005087 Penicillin amidase; Region: Penicil_amidase; pfam01804 309807005088 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...; Region: Ntn_hydrolase; cl00467 309807005089 acetyl-CoA synthetase; Provisional; Region: PRK00174 309807005090 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 309807005091 active site 309807005092 CoA binding site [chemical binding]; other site 309807005093 acyl-activating enzyme (AAE) consensus motif; other site 309807005094 AMP binding site [chemical binding]; other site 309807005095 acetate binding site [chemical binding]; other site 309807005096 aminodeoxychorismate synthase; Provisional; Region: PRK07508 309807005097 chorismate binding enzyme; Region: Chorismate_bind; cl10555 309807005098 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 309807005099 substrate-cofactor binding pocket; other site 309807005100 homodimer interface [polypeptide binding]; other site 309807005101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807005102 catalytic residue [active] 309807005103 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 309807005104 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 309807005105 putative NAD(P) binding site [chemical binding]; other site 309807005106 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 309807005107 FMN binding site [chemical binding]; other site 309807005108 active site 309807005109 substrate binding site [chemical binding]; other site 309807005110 catalytic residue [active] 309807005111 Pirin; Region: Pirin; pfam02678 309807005112 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 309807005113 B12 binding site [chemical binding]; other site 309807005114 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 309807005115 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 309807005116 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...; Region: MM_CoA_mutase; cl00817 309807005117 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 309807005118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807005119 NAD(P) binding site [chemical binding]; other site 309807005120 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 309807005121 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 309807005122 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807005123 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 309807005124 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 309807005125 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 309807005126 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 309807005127 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807005128 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 309807005129 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 309807005130 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 309807005131 amphi-Trp domain; Region: amphi-Trp; TIGR04354 309807005132 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 309807005133 tellurium resistance terB-like protein; Region: terB_like; cd07177 309807005134 metal binding site [ion binding]; metal-binding site 309807005135 acyl-CoA oxidase; Region: PLN02312 309807005136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309807005137 active site 309807005138 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 309807005139 substrate binding site [chemical binding]; other site 309807005140 active site 309807005141 Dienelactone hydrolase family; Region: DLH; pfam01738 309807005142 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807005143 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807005144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807005145 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 309807005146 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807005147 Zn2+ binding site [ion binding]; other site 309807005148 Mg2+ binding site [ion binding]; other site 309807005149 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309807005150 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807005151 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807005152 DNA binding residues [nucleotide binding] 309807005153 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 309807005154 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 309807005155 substrate binding site [chemical binding]; other site 309807005156 tetramer interface [polypeptide binding]; other site 309807005157 catalytic residue [active] 309807005158 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 309807005159 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 309807005160 active site 309807005161 homodimer interface [polypeptide binding]; other site 309807005162 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807005163 active site 309807005164 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 309807005165 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 309807005166 Ligand Binding Site [chemical binding]; other site 309807005167 TilS substrate C-terminal domain; Region: TilS_C; smart00977 309807005168 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 309807005169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807005170 ATP binding site [chemical binding]; other site 309807005171 Mg2+ binding site [ion binding]; other site 309807005172 G-X-G motif; other site 309807005173 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 309807005174 ATP binding site [chemical binding]; other site 309807005175 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 309807005176 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 309807005177 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 309807005178 CAAX protease self-immunity; Region: Abi; pfam02517 309807005179 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 309807005180 HEAT repeats; Region: HEAT_2; pfam13646 309807005181 protein binding surface [polypeptide binding]; other site 309807005182 prohibitin homologues; Region: PHB; smart00244 309807005183 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 309807005184 trimer interface [polypeptide binding]; other site 309807005185 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 309807005186 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 309807005187 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 309807005188 intracellular protease, PfpI family; Region: PfpI; TIGR01382 309807005189 proposed catalytic triad [active] 309807005190 conserved cys residue [active] 309807005191 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 309807005192 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 309807005193 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 309807005194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807005195 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 309807005196 NAD(P) binding site [chemical binding]; other site 309807005197 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 309807005198 active site 309807005199 Zn binding site [ion binding]; other site 309807005200 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 309807005201 DNA-binding site [nucleotide binding]; DNA binding site 309807005202 RNA-binding motif; other site 309807005203 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 309807005204 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 309807005205 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 309807005206 substrate binding site [chemical binding]; other site 309807005207 nucleotide binding site [chemical binding]; other site 309807005208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309807005209 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 309807005210 active site 309807005211 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 309807005212 active site 309807005213 dimer interface [polypeptide binding]; other site 309807005214 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 309807005215 Ligand Binding Site [chemical binding]; other site 309807005216 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 309807005217 Ligand Binding Site [chemical binding]; other site 309807005218 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 309807005219 Ligand Binding Site [chemical binding]; other site 309807005220 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 309807005221 Ligand Binding Site [chemical binding]; other site 309807005222 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 309807005223 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309807005224 putative substrate translocation pore; other site 309807005225 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 309807005226 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 309807005227 inhibitor-cofactor binding pocket; inhibition site 309807005228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807005229 catalytic residue [active] 309807005230 Ferrochelatase; Region: Ferrochelatase; pfam00762 309807005231 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 309807005232 C-terminal domain interface [polypeptide binding]; other site 309807005233 active site 309807005234 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 309807005235 active site 309807005236 N-terminal domain interface [polypeptide binding]; other site 309807005237 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 309807005238 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 309807005239 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 309807005240 active site 309807005241 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 309807005242 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 309807005243 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 309807005244 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 309807005245 nucleotide binding site [chemical binding]; other site 309807005246 substrate binding site [chemical binding]; other site 309807005247 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 309807005248 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 309807005249 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 309807005250 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 309807005251 hypothetical protein; Provisional; Region: PRK08262 309807005252 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 309807005253 metal binding site [ion binding]; metal-binding site 309807005254 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 309807005255 photolyase PhrII; Region: phr2; TIGR00591 309807005256 DNA photolyase; Region: DNA_photolyase; pfam00875 309807005257 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309807005258 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 309807005259 Integral membrane protein DUF92; Region: DUF92; pfam01940 309807005260 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 309807005261 beta and beta' interface [polypeptide binding]; other site 309807005262 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 309807005263 beta' and sigma factor interface [polypeptide binding]; other site 309807005264 Zn-binding [ion binding]; other site 309807005265 active site region [active] 309807005266 catalytic site [active] 309807005267 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 309807005268 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 309807005269 DNA binding site [nucleotide binding] 309807005270 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 309807005271 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 309807005272 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 309807005273 RPB12 interaction site [polypeptide binding]; other site 309807005274 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 309807005275 RPB1 interaction site [polypeptide binding]; other site 309807005276 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 309807005277 RPB10 interaction site [polypeptide binding]; other site 309807005278 RPB11 interaction site [polypeptide binding]; other site 309807005279 RPB3 interaction site [polypeptide binding]; other site 309807005280 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 309807005281 core dimer interface [polypeptide binding]; other site 309807005282 peripheral dimer interface [polypeptide binding]; other site 309807005283 L10 interface [polypeptide binding]; other site 309807005284 L11 interface [polypeptide binding]; other site 309807005285 putative EF-Tu interaction site [polypeptide binding]; other site 309807005286 putative EF-G interaction site [polypeptide binding]; other site 309807005287 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 309807005288 23S rRNA interface [nucleotide binding]; other site 309807005289 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 309807005290 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 309807005291 mRNA/rRNA interface [nucleotide binding]; other site 309807005292 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 309807005293 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 309807005294 23S rRNA interface [nucleotide binding]; other site 309807005295 L7/L12 interface [polypeptide binding]; other site 309807005296 putative thiostrepton binding site; other site 309807005297 L25 interface [polypeptide binding]; other site 309807005298 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 309807005299 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 309807005300 putative homodimer interface [polypeptide binding]; other site 309807005301 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 309807005302 heterodimer interface [polypeptide binding]; other site 309807005303 homodimer interface [polypeptide binding]; other site 309807005304 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 309807005305 elongation factor Tu; Reviewed; Region: PRK00049 309807005306 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 309807005307 G1 box; other site 309807005308 GEF interaction site [polypeptide binding]; other site 309807005309 GTP/Mg2+ binding site [chemical binding]; other site 309807005310 Switch I region; other site 309807005311 G2 box; other site 309807005312 G3 box; other site 309807005313 Switch II region; other site 309807005314 G4 box; other site 309807005315 G5 box; other site 309807005316 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 309807005317 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 309807005318 Antibiotic Binding Site [chemical binding]; other site 309807005319 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807005320 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 309807005321 TrkA-C domain; Region: TrkA_C; pfam02080 309807005322 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807005323 ScpA/B protein; Region: ScpA_ScpB; cl00598 309807005324 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 309807005325 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 309807005326 NAD binding site [chemical binding]; other site 309807005327 homodimer interface [polypeptide binding]; other site 309807005328 active site 309807005329 substrate binding site [chemical binding]; other site 309807005330 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 309807005331 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 309807005332 oligomer interface [polypeptide binding]; other site 309807005333 RNA binding site [nucleotide binding]; other site 309807005334 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 309807005335 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 309807005336 RNase E interface [polypeptide binding]; other site 309807005337 trimer interface [polypeptide binding]; other site 309807005338 active site 309807005339 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 309807005340 putative nucleic acid binding region [nucleotide binding]; other site 309807005341 G-X-X-G motif; other site 309807005342 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 309807005343 RNA binding site [nucleotide binding]; other site 309807005344 domain interface; other site 309807005345 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 309807005346 16S/18S rRNA binding site [nucleotide binding]; other site 309807005347 S13e-L30e interaction site [polypeptide binding]; other site 309807005348 25S rRNA binding site [nucleotide binding]; other site 309807005349 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 309807005350 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 309807005351 active site 309807005352 Riboflavin kinase; Region: Flavokinase; pfam01687 309807005353 Ribosome-binding factor A; Region: RBFA; pfam02033 309807005354 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 309807005355 translation initiation factor IF-2; Region: IF-2; TIGR00487 309807005356 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 309807005357 G1 box; other site 309807005358 putative GEF interaction site [polypeptide binding]; other site 309807005359 GTP/Mg2+ binding site [chemical binding]; other site 309807005360 Switch I region; other site 309807005361 G2 box; other site 309807005362 G3 box; other site 309807005363 Switch II region; other site 309807005364 G4 box; other site 309807005365 G5 box; other site 309807005366 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 309807005367 Translation-initiation factor 2; Region: IF-2; pfam11987 309807005368 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 309807005369 transcription termination factor NusA; Region: NusA; TIGR01953 309807005370 NusA N-terminal domain; Region: NusA_N; pfam08529 309807005371 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 309807005372 RNA binding site [nucleotide binding]; other site 309807005373 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 309807005374 G-X-X-G motif; other site 309807005375 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 309807005376 G-X-X-G motif; other site 309807005377 hypothetical protein; Provisional; Region: PRK14641 309807005378 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 309807005379 putative oligomer interface [polypeptide binding]; other site 309807005380 putative RNA binding site [nucleotide binding]; other site 309807005381 peptide chain release factor 2; Validated; Region: prfB; PRK00578 309807005382 PCRF domain; Region: PCRF; pfam03462 309807005383 RF-1 domain; Region: RF-1; pfam00472 309807005384 aspartate aminotransferase; Provisional; Region: PRK05764 309807005385 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 309807005386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807005387 homodimer interface [polypeptide binding]; other site 309807005388 catalytic residue [active] 309807005389 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like; Region: ALDH_AldH-CAJ73105; cd07131 309807005390 NAD binding site [chemical binding]; other site 309807005391 catalytic residues [active] 309807005392 Uncharacterized conserved protein [Function unknown]; Region: COG2454 309807005393 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 309807005394 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 309807005395 Malic enzyme, N-terminal domain; Region: malic; pfam00390 309807005396 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 309807005397 putative NAD(P) binding site [chemical binding]; other site 309807005398 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 309807005399 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 309807005400 RNA binding site [nucleotide binding]; other site 309807005401 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 309807005402 RNA binding site [nucleotide binding]; other site 309807005403 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 309807005404 RNA binding site [nucleotide binding]; other site 309807005405 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 309807005406 RNA binding site [nucleotide binding]; other site 309807005407 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 309807005408 RNA binding site [nucleotide binding]; other site 309807005409 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; cd00164 309807005410 RNA binding site [nucleotide binding]; other site 309807005411 cytidylate kinase; Provisional; Region: cmk; PRK00023 309807005412 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 309807005413 CMP-binding site; other site 309807005414 The sites determining sugar specificity; other site 309807005415 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 309807005416 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 309807005417 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 309807005418 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...; Region: MM_CoA_mutase; cl00817 309807005419 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 309807005420 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 309807005421 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 309807005422 active site 309807005423 substrate binding site [chemical binding]; other site 309807005424 coenzyme B12 binding site [chemical binding]; other site 309807005425 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 309807005426 B12 binding site [chemical binding]; other site 309807005427 cobalt ligand [ion binding]; other site 309807005428 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 309807005429 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 309807005430 Walker A; other site 309807005431 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 309807005432 G4 box; other site 309807005433 G5 box; other site 309807005434 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 309807005435 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309807005436 active site 309807005437 nucleotide binding site [chemical binding]; other site 309807005438 HIGH motif; other site 309807005439 KMSKS motif; other site 309807005440 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 309807005441 GatB domain; Region: GatB_Yqey; smart00845 309807005442 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 309807005443 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 309807005444 active site 309807005445 HIGH motif; other site 309807005446 KMSKS motif; other site 309807005447 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 309807005448 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 309807005449 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 309807005450 SurA N-terminal domain; Region: SurA_N_3; cl07813 309807005451 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 309807005452 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 309807005453 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 309807005454 SurA N-terminal domain; Region: SurA_N; pfam09312 309807005455 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 309807005456 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 309807005457 MoxR-like ATPases [General function prediction only]; Region: COG0714 309807005458 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807005459 Walker A motif; other site 309807005460 ATP binding site [chemical binding]; other site 309807005461 Walker B motif; other site 309807005462 arginine finger; other site 309807005463 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 309807005464 FAD binding pocket [chemical binding]; other site 309807005465 FAD binding motif [chemical binding]; other site 309807005466 phosphate binding motif [ion binding]; other site 309807005467 beta-alpha-beta structure motif; other site 309807005468 NAD binding pocket [chemical binding]; other site 309807005469 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 309807005470 tellurium resistance terB-like protein; Region: terB_like; cd07177 309807005471 metal binding site [ion binding]; metal-binding site 309807005472 tellurium resistance terB-like protein; Region: terB_like; cd07177 309807005473 metal binding site [ion binding]; metal-binding site 309807005474 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 309807005475 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 309807005476 proline aminopeptidase P II; Provisional; Region: PRK10879 309807005477 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 309807005478 active site 309807005479 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 309807005480 Part of AAA domain; Region: AAA_19; pfam13245 309807005481 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 309807005482 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 309807005483 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 309807005484 Staphylococcal nuclease homologues; Region: SNc; smart00318 309807005485 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 309807005486 Catalytic site; other site 309807005487 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 309807005488 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 309807005489 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 309807005490 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 309807005491 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 309807005492 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807005493 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807005494 methionine sulfoxide reductase B; Provisional; Region: PRK00222 309807005495 FtsH Extracellular; Region: FtsH_ext; pfam06480 309807005496 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 309807005497 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807005498 Walker A motif; other site 309807005499 ATP binding site [chemical binding]; other site 309807005500 Walker B motif; other site 309807005501 arginine finger; other site 309807005502 Peptidase family M41; Region: Peptidase_M41; pfam01434 309807005503 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 309807005504 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 309807005505 acyl-activating enzyme (AAE) consensus motif; other site 309807005506 putative AMP binding site [chemical binding]; other site 309807005507 putative active site [active] 309807005508 putative CoA binding site [chemical binding]; other site 309807005509 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807005510 hypothetical protein; Reviewed; Region: PRK12497 309807005511 MarR family; Region: MarR_2; cl17246 309807005512 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 309807005513 dimerization interface [polypeptide binding]; other site 309807005514 putative DNA binding site [nucleotide binding]; other site 309807005515 putative Zn2+ binding site [ion binding]; other site 309807005516 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 309807005517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807005518 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807005519 dimer interface [polypeptide binding]; other site 309807005520 phosphorylation site [posttranslational modification] 309807005521 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807005522 ATP binding site [chemical binding]; other site 309807005523 Mg2+ binding site [ion binding]; other site 309807005524 G-X-G motif; other site 309807005525 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 309807005526 GDP-binding site [chemical binding]; other site 309807005527 ACT binding site; other site 309807005528 IMP binding site; other site 309807005529 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 309807005530 Protein export membrane protein; Region: SecD_SecF; pfam02355 309807005531 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 309807005532 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 309807005533 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 309807005534 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 309807005535 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 309807005536 Serine hydrolase; Region: Ser_hydrolase; cl17834 309807005537 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807005538 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 309807005539 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 309807005540 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 309807005541 putative dimer interface [polypeptide binding]; other site 309807005542 putative anticodon binding site; other site 309807005543 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 309807005544 motif 1; other site 309807005545 dimer interface [polypeptide binding]; other site 309807005546 active site 309807005547 motif 2; other site 309807005548 motif 3; other site 309807005549 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 309807005550 putative active site [active] 309807005551 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 309807005552 active site 309807005553 substrate-binding site [chemical binding]; other site 309807005554 metal-binding site [ion binding] 309807005555 ATP binding site [chemical binding]; other site 309807005556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807005557 Coenzyme A binding pocket [chemical binding]; other site 309807005558 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 309807005559 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 309807005560 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 309807005561 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 309807005562 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 309807005563 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 309807005564 homodimer interface [polypeptide binding]; other site 309807005565 NADP binding site [chemical binding]; other site 309807005566 substrate binding site [chemical binding]; other site 309807005567 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 309807005568 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807005569 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 309807005570 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 309807005571 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 309807005572 oligomerization interface [polypeptide binding]; other site 309807005573 active site 309807005574 metal binding site [ion binding]; metal-binding site 309807005575 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 309807005576 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 309807005577 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 309807005578 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807005579 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807005580 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807005581 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807005582 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807005583 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 309807005584 active site 309807005585 dimer interface [polypeptide binding]; other site 309807005586 RIP metalloprotease RseP; Region: TIGR00054 309807005587 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 309807005588 active site 309807005589 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807005590 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807005591 protein binding site [polypeptide binding]; other site 309807005592 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 309807005593 putative substrate binding region [chemical binding]; other site 309807005594 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 309807005595 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 309807005596 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 309807005597 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 309807005598 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 309807005599 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 309807005600 binding surface 309807005601 TPR motif; other site 309807005602 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 309807005603 binding surface 309807005604 TPR motif; other site 309807005605 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309807005606 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309807005607 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 309807005608 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 309807005609 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 309807005610 NADP binding site [chemical binding]; other site 309807005611 active site 309807005612 putative substrate binding site [chemical binding]; other site 309807005613 seryl-tRNA synthetase; Provisional; Region: PRK05431 309807005614 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 309807005615 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 309807005616 dimer interface [polypeptide binding]; other site 309807005617 active site 309807005618 motif 1; other site 309807005619 motif 2; other site 309807005620 motif 3; other site 309807005621 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 309807005622 AMP binding site [chemical binding]; other site 309807005623 metal binding site [ion binding]; metal-binding site 309807005624 active site 309807005625 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 309807005626 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 309807005627 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807005628 catalytic residue [active] 309807005629 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 309807005630 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 309807005631 hinge; other site 309807005632 active site 309807005633 Motility related/secretion protein; Region: SprA_N; pfam14349 309807005634 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 309807005635 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 309807005636 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 309807005637 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 309807005638 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 309807005639 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807005640 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 309807005641 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 309807005642 NodB motif; other site 309807005643 putative active site [active] 309807005644 putative catalytic site [active] 309807005645 putative Zn binding site [ion binding]; other site 309807005646 aconitate hydratase; Validated; Region: PRK09277 309807005647 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 309807005648 substrate binding site [chemical binding]; other site 309807005649 ligand binding site [chemical binding]; other site 309807005650 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 309807005651 substrate binding site [chemical binding]; other site 309807005652 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 309807005653 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 309807005654 DNA binding residues [nucleotide binding] 309807005655 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 309807005656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807005657 Walker A/P-loop; other site 309807005658 ATP binding site [chemical binding]; other site 309807005659 Q-loop/lid; other site 309807005660 5' nucleotidase family; Region: 5_nucleotid; cl17687 309807005661 Domain of unknown function (DUF4559); Region: DUF4559; pfam15112 309807005662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807005663 ABC transporter signature motif; other site 309807005664 Walker B; other site 309807005665 D-loop; other site 309807005666 H-loop/switch region; other site 309807005667 Colicin V production protein; Region: Colicin_V; pfam02674 309807005668 Yqey-like protein; Region: YqeY; pfam09424 309807005669 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 309807005670 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 309807005671 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 309807005672 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 309807005673 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 309807005674 dimerization domain swap beta strand [polypeptide binding]; other site 309807005675 regulatory protein interface [polypeptide binding]; other site 309807005676 active site 309807005677 regulatory phosphorylation site [posttranslational modification]; other site 309807005678 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 309807005679 substrate binding pocket [chemical binding]; other site 309807005680 chain length determination region; other site 309807005681 substrate-Mg2+ binding site; other site 309807005682 catalytic residues [active] 309807005683 aspartate-rich region 1; other site 309807005684 active site lid residues [active] 309807005685 aspartate-rich region 2; other site 309807005686 adenylate kinase; Reviewed; Region: adk; PRK00279 309807005687 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 309807005688 AMP-binding site [chemical binding]; other site 309807005689 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 309807005690 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 309807005691 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 309807005692 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309807005693 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 309807005694 Fe-S cluster binding site [ion binding]; other site 309807005695 substrate binding site [chemical binding]; other site 309807005696 catalytic site [active] 309807005697 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 309807005698 S-adenosylmethionine binding site [chemical binding]; other site 309807005699 hypothetical protein; Provisional; Region: PRK08201 309807005700 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 309807005701 metal binding site [ion binding]; metal-binding site 309807005702 putative dimer interface [polypeptide binding]; other site 309807005703 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 309807005704 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 309807005705 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 309807005706 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 309807005707 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807005708 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 309807005709 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807005710 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 309807005711 nudix motif; other site 309807005712 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 309807005713 nudix motif; other site 309807005714 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309807005715 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 309807005716 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 309807005717 motif II; other site 309807005718 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 309807005719 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 309807005720 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 309807005721 Zn binding site [ion binding]; other site 309807005722 ZIP Zinc transporter; Region: Zip; cl00437 309807005723 Zinc ribbon domain; Region: Zn-ribbon_8; cl00993 309807005724 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 309807005725 catalytic loop [active] 309807005726 iron binding site [ion binding]; other site 309807005727 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 prenylated...; Region: IPP_Isomerase; cd02885 309807005728 active site 309807005729 metal binding site [ion binding]; metal-binding site 309807005730 nudix motif; other site 309807005731 Protein of unknown function, DUF547; Region: DUF547; pfam04784 309807005732 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 309807005733 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 309807005734 GatB domain; Region: GatB_Yqey; smart00845 309807005735 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309807005736 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 309807005737 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 309807005738 substrate binding site [chemical binding]; other site 309807005739 dimer interface [polypeptide binding]; other site 309807005740 catalytic triad [active] 309807005741 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 309807005742 putative active site; other site 309807005743 catalytic residue [active] 309807005744 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309807005745 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 309807005746 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807005747 Walker A motif; other site 309807005748 ATP binding site [chemical binding]; other site 309807005749 Walker B motif; other site 309807005750 arginine finger; other site 309807005751 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807005752 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807005753 active site 309807005754 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807005755 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807005756 active site 309807005757 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807005758 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807005759 active site 309807005760 Quinolinate synthetase A protein; Region: NadA; pfam02445 309807005761 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 309807005762 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 309807005763 dimerization interface [polypeptide binding]; other site 309807005764 active site 309807005765 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 309807005766 L-aspartate oxidase; Provisional; Region: PRK06175 309807005767 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 309807005768 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 309807005769 Interdomain contacts; other site 309807005770 Cytokine receptor motif; other site 309807005771 Calx-beta domain; Region: Calx-beta; cl02522 309807005772 Endonuclease I; Region: Endonuclease_1; cl01003 309807005773 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 309807005774 generic binding surface I; other site 309807005775 generic binding surface II; other site 309807005776 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807005777 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 309807005778 generic binding surface I; other site 309807005779 generic binding surface II; other site 309807005780 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 309807005781 generic binding surface I; other site 309807005782 generic binding surface II; other site 309807005783 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 309807005784 generic binding surface I; other site 309807005785 generic binding surface II; other site 309807005786 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807005787 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807005788 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807005789 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807005790 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807005791 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807005792 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 309807005793 Sporulation related domain; Region: SPOR; pfam05036 309807005794 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 309807005795 active site 309807005796 catalytic triad [active] 309807005797 dimer interface [polypeptide binding]; other site 309807005798 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 309807005799 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 309807005800 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807005801 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 309807005802 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 309807005803 ligand binding site; other site 309807005804 oligomer interface; other site 309807005805 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 309807005806 dimer interface [polypeptide binding]; other site 309807005807 N-terminal domain interface [polypeptide binding]; other site 309807005808 sulfate 1 binding site; other site 309807005809 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 309807005810 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 309807005811 Uncharacterized conserved protein [Function unknown]; Region: COG2442 309807005812 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 309807005813 homodimer interface [polypeptide binding]; other site 309807005814 homotetramer interface [polypeptide binding]; other site 309807005815 active site pocket [active] 309807005816 cleavage site 309807005817 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 309807005818 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807005819 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807005820 DNA binding residues [nucleotide binding] 309807005821 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 309807005822 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807005823 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309807005824 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 309807005825 active site 309807005826 metal binding site [ion binding]; metal-binding site 309807005827 homotetramer interface [polypeptide binding]; other site 309807005828 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 309807005829 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 309807005830 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 motif...; Region: LbH_unknown; cd05635 309807005831 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 309807005832 active site 309807005833 intersubunit interactions; other site 309807005834 catalytic residue [active] 309807005835 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 309807005836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 309807005837 Beta-Casp domain; Region: Beta-Casp; smart01027 309807005838 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 309807005839 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 309807005840 FAD binding domain; Region: FAD_binding_4; pfam01565 309807005841 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 309807005842 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 309807005843 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 309807005844 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 309807005845 C-terminal peptidase (prc); Region: prc; TIGR00225 309807005846 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 309807005847 protein binding site [polypeptide binding]; other site 309807005848 Catalytic dyad [active] 309807005849 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 309807005850 S-adenosylmethionine binding site [chemical binding]; other site 309807005851 Uncharacterized conserved protein [Function unknown]; Region: COG1624 309807005852 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 309807005853 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 309807005854 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 309807005855 substrate binding pocket [chemical binding]; other site 309807005856 dimer interface [polypeptide binding]; other site 309807005857 inhibitor binding site; inhibition site 309807005858 indole-3-acetic acid-amido synthetase; Region: PLN02249 309807005859 GH3 auxin-responsive promoter; Region: GH3; pfam03321 309807005860 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 309807005861 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807005862 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309807005863 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807005864 DNA binding residues [nucleotide binding] 309807005865 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 309807005866 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 309807005867 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 309807005868 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 309807005869 Uncharacterized conserved protein [Function unknown]; Region: COG3595 309807005870 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 309807005871 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 309807005872 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 309807005873 Prephenate dehydratase; Region: PDT; pfam00800 309807005874 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 309807005875 putative L-Phe binding site [chemical binding]; other site 309807005876 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309807005877 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309807005878 putative dimer interface [polypeptide binding]; other site 309807005879 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309807005880 putative catalytic site [active] 309807005881 putative metal binding site [ion binding]; other site 309807005882 putative phosphate binding site [ion binding]; other site 309807005883 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 309807005884 catalytic core [active] 309807005885 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807005886 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 309807005887 trimer interface [polypeptide binding]; other site 309807005888 active site 309807005889 POT family; Region: PTR2; cl17359 309807005890 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 309807005891 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 309807005892 putative substrate translocation pore; other site 309807005893 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 309807005894 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 309807005895 dimer interface [polypeptide binding]; other site 309807005896 anticodon binding site; other site 309807005897 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 309807005898 homodimer interface [polypeptide binding]; other site 309807005899 motif 1; other site 309807005900 active site 309807005901 motif 2; other site 309807005902 GAD domain; Region: GAD; pfam02938 309807005903 motif 3; other site 309807005904 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 309807005905 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 309807005906 tetramer interface [polypeptide binding]; other site 309807005907 TPP-binding site [chemical binding]; other site 309807005908 heterodimer interface [polypeptide binding]; other site 309807005909 phosphorylation loop region [posttranslational modification] 309807005910 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309807005911 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 309807005912 alpha subunit interface [polypeptide binding]; other site 309807005913 TPP binding site [chemical binding]; other site 309807005914 heterodimer interface [polypeptide binding]; other site 309807005915 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309807005916 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 309807005917 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 309807005918 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 309807005919 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 309807005920 putative active site [active] 309807005921 putative metal binding site [ion binding]; other site 309807005922 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 309807005923 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 309807005924 E3 interaction surface; other site 309807005925 lipoyl attachment site [posttranslational modification]; other site 309807005926 e3 binding domain; Region: E3_binding; pfam02817 309807005927 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 309807005928 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309807005929 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 309807005930 alpha subunit interface [polypeptide binding]; other site 309807005931 TPP binding site [chemical binding]; other site 309807005932 heterodimer interface [polypeptide binding]; other site 309807005933 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309807005934 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 309807005935 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 309807005936 tetramer interface [polypeptide binding]; other site 309807005937 TPP-binding site [chemical binding]; other site 309807005938 heterodimer interface [polypeptide binding]; other site 309807005939 phosphorylation loop region [posttranslational modification] 309807005940 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 309807005941 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 309807005942 Ligand binding site; other site 309807005943 Putative Catalytic site; other site 309807005944 DXD motif; other site 309807005945 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 309807005946 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 309807005947 putative active site [active] 309807005948 putative CoA binding site [chemical binding]; other site 309807005949 nudix motif; other site 309807005950 metal binding site [ion binding]; metal-binding site 309807005951 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 309807005952 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 309807005953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 309807005954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807005955 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 309807005956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807005957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807005958 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 309807005959 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 309807005960 Outer membrane efflux protein; Region: OEP; pfam02321 309807005961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807005962 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807005963 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807005964 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 309807005965 MMPL family; Region: MMPL; cl14618 309807005966 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 309807005967 S-adenosylmethionine binding site [chemical binding]; other site 309807005968 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 309807005969 Ligand Binding Site [chemical binding]; other site 309807005970 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 309807005971 Ligand Binding Site [chemical binding]; other site 309807005972 Sulfatase; Region: Sulfatase; cl19157 309807005973 Peptidase S46; Region: Peptidase_S46; pfam10459 309807005974 Peptidase S46; Region: Peptidase_S46; pfam10459 309807005975 PAS domain; Region: PAS_9; pfam13426 309807005976 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 309807005977 putative active site [active] 309807005978 heme pocket [chemical binding]; other site 309807005979 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 309807005980 homodimer interface [polypeptide binding]; other site 309807005981 chemical substrate binding site [chemical binding]; other site 309807005982 oligomer interface [polypeptide binding]; other site 309807005983 metal binding site [ion binding]; metal-binding site 309807005984 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 309807005985 DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 309807005986 active site 309807005987 catalytic site [active] 309807005988 substrate binding site [chemical binding]; other site 309807005989 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...; Region: POLBc; cl10023 309807005990 active site 309807005991 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 protein; Region: Hint; cd00081 309807005992 protein-splicing catalytic site; other site 309807005993 thioester formation/cholesterol transfer; other site 309807005994 DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 309807005995 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...; Region: POLBc; cl10023 309807005996 metal-binding site 309807005997 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 309807005998 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 309807005999 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 309807006000 Na binding site [ion binding]; other site 309807006001 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 309807006002 dimer interface [polypeptide binding]; other site 309807006003 substrate binding site [chemical binding]; other site 309807006004 metal binding sites [ion binding]; metal-binding site 309807006005 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 309807006006 Histidine-specific methyltransferase, SAM-dependent; Region: Methyltransf_33; pfam10017 309807006007 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 309807006008 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807006009 putative NAD(P) binding site [chemical binding]; other site 309807006010 Uncharacterized conserved protein [Function unknown]; Region: COG4748 309807006011 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 309807006012 Predicted esterase [General function prediction only]; Region: COG0627 309807006013 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 309807006014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 309807006015 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 309807006016 Walker A/P-loop; other site 309807006017 ATP binding site [chemical binding]; other site 309807006018 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 309807006019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 309807006020 ABC transporter signature motif; other site 309807006021 Walker B; other site 309807006022 D-loop; other site 309807006023 H-loop/switch region; other site 309807006024 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 309807006025 active site 309807006026 metal binding site [ion binding]; metal-binding site 309807006027 DNA binding site [nucleotide binding] 309807006028 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807006029 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 309807006030 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807006031 putative active site [active] 309807006032 heme pocket [chemical binding]; other site 309807006033 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 309807006034 putative active site [active] 309807006035 heme pocket [chemical binding]; other site 309807006036 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 309807006037 putative active site [active] 309807006038 PAS fold; Region: PAS_3; pfam08447 309807006039 heme pocket [chemical binding]; other site 309807006040 PAS domain S-box; Region: sensory_box; TIGR00229 309807006041 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 309807006042 putative active site [active] 309807006043 heme pocket [chemical binding]; other site 309807006044 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309807006045 GAF domain; Region: GAF_2; pfam13185 309807006046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807006047 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807006048 dimer interface [polypeptide binding]; other site 309807006049 phosphorylation site [posttranslational modification] 309807006050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807006051 ATP binding site [chemical binding]; other site 309807006052 Mg2+ binding site [ion binding]; other site 309807006053 G-X-G motif; other site 309807006054 DDE superfamily endonuclease; Region: DDE_3; pfam13358 309807006055 Homeodomain-like domain; Region: HTH_23; pfam13384 309807006056 Winged helix-turn helix; Region: HTH_29; pfam13551 309807006057 Homeodomain-like domain; Region: HTH_32; pfam13565 309807006058 identified by match to protein family HMM PF03400; similar to ISSru2, transposase insAB 309807006059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807006060 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 309807006061 DNA-binding interface [nucleotide binding]; DNA binding site 309807006062 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 309807006063 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 309807006064 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 309807006065 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 309807006066 dimer interface [polypeptide binding]; other site 309807006067 active site 309807006068 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 309807006069 Class I aldolases; Region: Aldolase_Class_I; cl17187 309807006070 catalytic residue [active] 309807006071 Bacterial PH domain; Region: bPH_2; pfam03703 309807006072 Inorganic pyrophosphatase; Region: Pyrophosphatase; pfam00719 309807006073 dimer interface [polypeptide binding]; other site 309807006074 substrate binding site [chemical binding]; other site 309807006075 metal binding sites [ion binding]; metal-binding site 309807006076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807006077 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807006078 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807006079 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006080 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 309807006081 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 309807006082 N-terminal plug; other site 309807006083 ligand-binding site [chemical binding]; other site 309807006084 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 309807006085 active site 309807006086 metal binding site [ion binding]; metal-binding site 309807006087 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 309807006088 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309807006089 BNR repeat-like domain; Region: BNR_2; pfam13088 309807006090 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 309807006091 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807006092 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309807006093 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 309807006094 ParA-like protein; Provisional; Region: PHA02518 309807006095 P-loop; other site 309807006096 Magnesium ion binding site [ion binding]; other site 309807006097 DoxX-like family; Region: DoxX_2; pfam13564 309807006098 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309807006099 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807006100 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807006101 Fasciclin domain; Region: Fasciclin; pfam02469 309807006102 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309807006103 classical (c) SDRs; Region: SDR_c; cd05233 309807006104 NAD(P) binding site [chemical binding]; other site 309807006105 active site 309807006106 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 309807006107 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 309807006108 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309807006109 cysteine synthase; Region: PLN02565 309807006110 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 309807006111 dimer interface [polypeptide binding]; other site 309807006112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807006113 catalytic residue [active] 309807006114 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 309807006115 MPN+ (JAMM) motif; other site 309807006116 Zinc-binding site [ion binding]; other site 309807006117 Ubiquitin-like proteins; Region: UBQ; cl00155 309807006118 charged pocket; other site 309807006119 hydrophobic patch; other site 309807006120 hypothetical protein; Validated; Region: PRK07411 309807006121 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 309807006122 ATP binding site [chemical binding]; other site 309807006123 substrate interface [chemical binding]; other site 309807006124 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: PspE; COG0607 309807006125 active site residue [active] 309807006126 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 309807006127 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 309807006128 active site 309807006129 HIGH motif; other site 309807006130 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 309807006131 KMSKS motif; other site 309807006132 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 309807006133 tRNA binding surface [nucleotide binding]; other site 309807006134 anticodon binding site; other site 309807006135 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 309807006136 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 309807006137 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 309807006138 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 309807006139 FeoA domain; Region: FeoA; pfam04023 309807006140 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 309807006141 Protein of unknown function (DUF971); Region: DUF971; pfam06155 309807006142 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 309807006143 PAS domain; Region: PAS_9; pfam13426 309807006144 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 309807006145 putative active site [active] 309807006146 heme pocket [chemical binding]; other site 309807006147 PAS domain S-box; Region: sensory_box; TIGR00229 309807006148 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 309807006149 putative active site [active] 309807006150 heme pocket [chemical binding]; other site 309807006151 PAS domain S-box; Region: sensory_box; TIGR00229 309807006152 PAS domain; Region: PAS_8; pfam13188 309807006153 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 309807006154 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 309807006155 putative active site [active] 309807006156 heme pocket [chemical binding]; other site 309807006157 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807006158 dimer interface [polypeptide binding]; other site 309807006159 phosphorylation site [posttranslational modification] 309807006160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807006161 ATP binding site [chemical binding]; other site 309807006162 Mg2+ binding site [ion binding]; other site 309807006163 G-X-G motif; other site 309807006164 Predicted ATPase [General function prediction only]; Region: COG4637 309807006165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807006166 Walker A/P-loop; other site 309807006167 ATP binding site [chemical binding]; other site 309807006168 AAA domain; Region: AAA_21; pfam13304 309807006169 ABC transporter signature motif; other site 309807006170 Walker B; other site 309807006171 D-loop; other site 309807006172 H-loop/switch region; other site 309807006173 YceI-like domain; Region: YceI; pfam04264 309807006174 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 309807006175 putative metal binding site [ion binding]; other site 309807006176 Fe2+ transport protein; Region: Iron_transport; pfam10634 309807006177 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 309807006178 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 309807006179 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 309807006180 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 309807006181 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 309807006182 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 309807006183 HSP70 interaction site [polypeptide binding]; other site 309807006184 Polysaccharide biosynthesis C-terminal domain; Region: Polysacc_synt_C; cl10513 309807006185 phytoene desaturase; Region: crtI_fam; TIGR02734 309807006186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807006187 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807006188 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 309807006189 PAS domain; Region: PAS_9; pfam13426 309807006190 putative active site [active] 309807006191 heme pocket [chemical binding]; other site 309807006192 PAS domain; Region: PAS_9; pfam13426 309807006193 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 309807006194 putative active site [active] 309807006195 heme pocket [chemical binding]; other site 309807006196 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 309807006197 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 309807006198 putative active site [active] 309807006199 heme pocket [chemical binding]; other site 309807006200 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807006201 dimer interface [polypeptide binding]; other site 309807006202 phosphorylation site [posttranslational modification] 309807006203 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807006204 ATP binding site [chemical binding]; other site 309807006205 Mg2+ binding site [ion binding]; other site 309807006206 G-X-G motif; other site 309807006207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807006208 active site 309807006209 phosphorylation site [posttranslational modification] 309807006210 intermolecular recognition site; other site 309807006211 dimerization interface [polypeptide binding]; other site 309807006212 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 309807006213 Tetramer interface [polypeptide binding]; other site 309807006214 active site 309807006215 FMN-binding site [chemical binding]; other site 309807006216 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 309807006217 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 309807006218 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 309807006219 protein binding site [polypeptide binding]; other site 309807006220 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807006221 protein binding site [polypeptide binding]; other site 309807006222 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 309807006223 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 309807006224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807006225 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807006226 dimer interface [polypeptide binding]; other site 309807006227 phosphorylation site [posttranslational modification] 309807006228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807006229 ATP binding site [chemical binding]; other site 309807006230 Mg2+ binding site [ion binding]; other site 309807006231 G-X-G motif; other site 309807006232 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 309807006233 putative active site [active] 309807006234 Zn binding site [ion binding]; other site 309807006235 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 309807006236 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 309807006237 S-adenosylmethionine binding site [chemical binding]; other site 309807006238 Acylphosphatase; Region: Acylphosphatase; pfam00708 309807006239 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 309807006240 cofactor binding site; other site 309807006241 metal binding site [ion binding]; metal-binding site 309807006242 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 309807006243 putative catalytic residue [active] 309807006244 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 309807006245 active site 309807006246 (T/H)XGH motif; other site 309807006247 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 309807006248 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 309807006249 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309807006250 GMP synthase; Reviewed; Region: guaA; PRK00074 309807006251 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 309807006252 AMP/PPi binding site [chemical binding]; other site 309807006253 candidate oxyanion hole; other site 309807006254 catalytic triad [active] 309807006255 potential glutamine specificity residues [chemical binding]; other site 309807006256 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 309807006257 ATP Binding subdomain [chemical binding]; other site 309807006258 Ligand Binding sites [chemical binding]; other site 309807006259 Dimerization subdomain; other site 309807006260 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 309807006261 lipoyl attachment site [posttranslational modification]; other site 309807006262 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 309807006263 active site 309807006264 (T/H)XGH motif; other site 309807006265 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 309807006266 S-adenosylmethionine binding site [chemical binding]; other site 309807006267 Dispersed gene family protein 1 of Trypanosoma cruzi C-terminus; Region: DGF-1_C; pfam11040 309807006268 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 309807006269 active site 309807006270 hydrophilic channel; other site 309807006271 dimerization interface [polypeptide binding]; other site 309807006272 catalytic residues [active] 309807006273 active site lid [active] 309807006274 GTPase Era; Reviewed; Region: era; PRK00089 309807006275 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 309807006276 G1 box; other site 309807006277 GTP/Mg2+ binding site [chemical binding]; other site 309807006278 Switch I region; other site 309807006279 G2 box; other site 309807006280 Switch II region; other site 309807006281 G3 box; other site 309807006282 G4 box; other site 309807006283 G5 box; other site 309807006284 KH domain; Region: KH_2; pfam07650 309807006285 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 309807006286 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 309807006287 ligand binding site [chemical binding]; other site 309807006288 NAD binding site [chemical binding]; other site 309807006289 catalytic site [active] 309807006290 homodimer interface [polypeptide binding]; other site 309807006291 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 309807006292 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 309807006293 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 309807006294 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 309807006295 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 309807006296 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 309807006297 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 309807006298 putative SAM binding site [chemical binding]; other site 309807006299 putative homodimer interface [polypeptide binding]; other site 309807006300 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 309807006301 catalytic residues [active] 309807006302 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 309807006303 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 309807006304 DNA-binding site [nucleotide binding]; DNA binding site 309807006305 RNA-binding motif; other site 309807006306 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 309807006307 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 309807006308 30S subunit binding site; other site 309807006309 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 309807006310 FAD binding site [chemical binding]; other site 309807006311 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309807006312 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 309807006313 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 of...; Region: NorE_like; cd02862 309807006314 Subunit I/III interface [polypeptide binding]; other site 309807006315 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 309807006316 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 309807006317 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 309807006318 Uncharacterized subfamily with similarity to Heme-copper oxidase subunit II cupredoxin domain; Region: CuRO_HCO_II_like_2; cd13915 309807006319 CuA binuclear center [ion binding]; other site 309807006320 Cytochrome c; Region: Cytochrom_C; pfam00034 309807006321 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 309807006322 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 309807006323 Polysulphide reductase, NrfD; Region: NrfD; cl19193 309807006324 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309807006325 molybdopterin cofactor binding site; other site 309807006326 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 309807006327 molybdopterin cofactor binding site; other site 309807006328 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 309807006329 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 309807006330 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 309807006331 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 309807006332 heme-binding residues [chemical binding]; other site 309807006333 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807006334 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 309807006335 N-terminal plug; other site 309807006336 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 309807006337 ligand-binding site [chemical binding]; other site 309807006338 SelR domain; Region: SelR; cl15841 309807006339 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 309807006340 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 309807006341 active site 309807006342 ADP/pyrophosphate binding site [chemical binding]; other site 309807006343 dimerization interface [polypeptide binding]; other site 309807006344 allosteric effector site; other site 309807006345 fructose-1,6-bisphosphate binding site; other site 309807006346 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 309807006347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 309807006348 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 309807006349 Putative zinc ribbon domain; Region: DUF164; pfam02591 309807006350 Preprotein translocase SecG subunit; Region: SecG; pfam03840 309807006351 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 309807006352 dimer interface [polypeptide binding]; other site 309807006353 ADP-ribose binding site [chemical binding]; other site 309807006354 active site 309807006355 nudix motif; other site 309807006356 metal binding site [ion binding]; metal-binding site 309807006357 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 309807006358 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807006359 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807006360 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 309807006361 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 309807006362 minor groove reading motif; other site 309807006363 helix-hairpin-helix signature motif; other site 309807006364 substrate binding pocket [chemical binding]; other site 309807006365 active site 309807006366 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 309807006367 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 309807006368 active site 309807006369 8-oxo-dGMP binding site [chemical binding]; other site 309807006370 nudix motif; other site 309807006371 metal binding site [ion binding]; metal-binding site 309807006372 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 309807006373 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 309807006374 oligomerisation interface [polypeptide binding]; other site 309807006375 mobile loop; other site 309807006376 roof hairpin; other site 309807006377 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 309807006378 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 309807006379 ring oligomerisation interface [polypeptide binding]; other site 309807006380 ATP/Mg binding site [chemical binding]; other site 309807006381 stacking interactions; other site 309807006382 hinge regions; other site 309807006383 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 309807006384 CoA binding domain; Region: CoA_binding_2; pfam13380 309807006385 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 309807006386 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 309807006387 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 309807006388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807006389 Coenzyme A binding pocket [chemical binding]; other site 309807006390 Domain of unknown function DUF87; Region: DUF87; pfam01935 309807006391 AAA-like domain; Region: AAA_10; pfam12846 309807006392 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 309807006393 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 309807006394 FeS/SAM binding site; other site 309807006395 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 309807006396 histidinol dehydrogenase; Region: hisD; TIGR00069 309807006397 NAD binding site [chemical binding]; other site 309807006398 dimerization interface [polypeptide binding]; other site 309807006399 product binding site; other site 309807006400 substrate binding site [chemical binding]; other site 309807006401 zinc binding site [ion binding]; other site 309807006402 catalytic residues [active] 309807006403 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 309807006404 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 309807006405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807006406 homodimer interface [polypeptide binding]; other site 309807006407 catalytic residue [active] 309807006408 Bifunctional nuclease; Region: DNase-RNase; pfam02577 309807006409 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 309807006410 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 309807006411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807006412 Zn2+ binding site [ion binding]; other site 309807006413 Mg2+ binding site [ion binding]; other site 309807006414 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309807006415 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 309807006416 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 309807006417 RecX family; Region: RecX; cl00936 309807006418 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 309807006419 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006420 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807006421 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006422 FecR protein; Region: FecR; pfam04773 309807006423 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 309807006424 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309807006425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807006426 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807006427 DNA binding residues [nucleotide binding] 309807006428 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 309807006429 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 309807006430 identified by match to protein family HMM PF03400; similar to ISSru2, transposase insAB 309807006431 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807006432 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 309807006433 DNA-binding interface [nucleotide binding]; DNA binding site 309807006434 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 309807006435 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 309807006436 hydrophobic ligand binding site; other site 309807006437 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 309807006438 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309807006439 PYR/PP interface [polypeptide binding]; other site 309807006440 dimer interface [polypeptide binding]; other site 309807006441 TPP binding site [chemical binding]; other site 309807006442 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 309807006443 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 309807006444 TPP-binding site [chemical binding]; other site 309807006445 dimer interface [polypeptide binding]; other site 309807006446 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 309807006447 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 309807006448 putative valine binding site [chemical binding]; other site 309807006449 dimer interface [polypeptide binding]; other site 309807006450 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 309807006451 ketol-acid reductoisomerase; Provisional; Region: PRK05479 309807006452 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 309807006453 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 309807006454 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 309807006455 2-isopropylmalate synthase; Validated; Region: PRK00915 309807006456 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 309807006457 active site 309807006458 catalytic residues [active] 309807006459 metal binding site [ion binding]; metal-binding site 309807006460 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 309807006461 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 309807006462 substrate binding site [chemical binding]; other site 309807006463 ligand binding site [chemical binding]; other site 309807006464 four helix bundle protein; Region: TIGR02436 309807006465 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 309807006466 substrate binding site [chemical binding]; other site 309807006467 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 309807006468 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 309807006469 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 309807006470 active site 309807006471 catalytic residues [active] 309807006472 metal binding site [ion binding]; metal-binding site 309807006473 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 309807006474 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 309807006475 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 309807006476 catalytic residues [active] 309807006477 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 309807006478 Tetratricopeptide repeat; Region: TPR_16; pfam13432 309807006479 Tetratricopeptide repeat; Region: TPR_20; pfam14561 309807006480 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 309807006481 active site 309807006482 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 309807006483 Phosphotransferase enzyme family; Region: APH; pfam01636 309807006484 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 309807006485 active site 309807006486 substrate binding site [chemical binding]; other site 309807006487 ATP binding site [chemical binding]; other site 309807006488 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 309807006489 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309807006490 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807006491 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006492 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 309807006493 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 309807006494 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309807006495 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807006496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807006497 Walker A/P-loop; other site 309807006498 ATP binding site [chemical binding]; other site 309807006499 Q-loop/lid; other site 309807006500 ABC transporter signature motif; other site 309807006501 Walker B; other site 309807006502 D-loop; other site 309807006503 H-loop/switch region; other site 309807006504 ribonuclease Z; Region: RNase_Z; TIGR02651 309807006505 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309807006506 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807006507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807006508 Walker A/P-loop; other site 309807006509 ATP binding site [chemical binding]; other site 309807006510 Q-loop/lid; other site 309807006511 ABC transporter signature motif; other site 309807006512 Walker B; other site 309807006513 D-loop; other site 309807006514 H-loop/switch region; other site 309807006515 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 309807006516 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 309807006517 ligand binding site [chemical binding]; other site 309807006518 flexible hinge region; other site 309807006519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807006520 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 309807006521 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807006522 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 309807006523 Peptidase family M23; Region: Peptidase_M23; pfam01551 309807006524 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 309807006525 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 309807006526 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 309807006527 Hpr binding site; other site 309807006528 active site 309807006529 homohexamer subunit interaction site [polypeptide binding]; other site 309807006530 MoxR-like ATPases [General function prediction only]; Region: COG0714 309807006531 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807006532 Walker A motif; other site 309807006533 ATP binding site [chemical binding]; other site 309807006534 Walker B motif; other site 309807006535 arginine finger; other site 309807006536 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 309807006537 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 309807006538 putative active site [active] 309807006539 substrate binding site [chemical binding]; other site 309807006540 putative cosubstrate binding site; other site 309807006541 catalytic site [active] 309807006542 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 309807006543 substrate binding site [chemical binding]; other site 309807006544 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 309807006545 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 309807006546 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 309807006547 P loop; other site 309807006548 GTP binding site [chemical binding]; other site 309807006549 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 309807006550 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807006551 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006552 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807006553 Fasciclin domain; Region: Fasciclin; pfam02469 309807006554 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 309807006555 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807006556 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807006557 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006558 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 309807006559 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006560 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 309807006561 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 309807006562 DNA binding site [nucleotide binding] 309807006563 active site 309807006564 Protein of unknown function (DUF445); Region: DUF445; pfam04286 309807006565 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807006566 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807006567 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006568 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 309807006569 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006570 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 309807006571 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 309807006572 DNA binding site [nucleotide binding] 309807006573 active site 309807006574 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 309807006575 FAD binding domain; Region: FAD_binding_4; pfam01565 309807006576 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 309807006577 DDE superfamily endonuclease; Region: DDE_3; cl19249 309807006578 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 309807006579 CcmB protein; Region: CcmB; cl17444 309807006580 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 309807006581 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 309807006582 CcmE; Region: CcmE; cl00994 309807006583 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 309807006584 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 309807006585 MgtE intracellular N domain; Region: MgtE_N; pfam03448 309807006586 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 309807006587 Divalent cation transporter; Region: MgtE; cl00786 309807006588 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 309807006589 S-adenosylmethionine binding site [chemical binding]; other site 309807006590 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 309807006591 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 309807006592 metal ion-dependent adhesion site (MIDAS); other site 309807006593 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; cl19576 309807006594 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 309807006595 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 309807006596 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807006597 dihydroorotase; Validated; Region: pyrC; PRK09357 309807006598 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807006599 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 309807006600 active site 309807006601 DNA gyrase subunit A; Validated; Region: PRK05560 309807006602 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 309807006603 CAP-like domain; other site 309807006604 active site 309807006605 primary dimer interface [polypeptide binding]; other site 309807006606 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006607 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006608 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006609 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006610 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006611 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309807006612 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 309807006613 putative active site [active] 309807006614 putative catalytic triad [active] 309807006615 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 309807006616 Interdomain contacts; other site 309807006617 Cytokine receptor motif; other site 309807006618 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807006619 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 309807006620 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 309807006621 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 309807006622 active site 309807006623 substrate binding site [chemical binding]; other site 309807006624 metal binding site [ion binding]; metal-binding site 309807006625 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 309807006626 active site 309807006627 catalytic triad [active] 309807006628 oxyanion hole [active] 309807006629 switch loop; other site 309807006630 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 309807006631 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 309807006632 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 309807006633 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 309807006634 ligand binding site [chemical binding]; other site 309807006635 homodimer interface [polypeptide binding]; other site 309807006636 NAD(P) binding site [chemical binding]; other site 309807006637 trimer interface B [polypeptide binding]; other site 309807006638 trimer interface A [polypeptide binding]; other site 309807006639 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 309807006640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807006641 catalytic residue [active] 309807006642 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 309807006643 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 309807006644 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 309807006645 Fasciclin domain; Region: Fasciclin; pfam02469 309807006646 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 309807006647 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 309807006648 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807006649 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 309807006650 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 309807006651 putative active site [active] 309807006652 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 309807006653 Ligand Binding Site [chemical binding]; other site 309807006654 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 309807006655 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 309807006656 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 309807006657 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 309807006658 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 309807006659 inhibitor-cofactor binding pocket; inhibition site 309807006660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807006661 catalytic residue [active] 309807006662 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 309807006663 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 309807006664 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 309807006665 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 309807006666 nucleotide binding site [chemical binding]; other site 309807006667 N-acetyl-L-glutamate binding site [chemical binding]; other site 309807006668 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 309807006669 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 309807006670 metal binding site [ion binding]; metal-binding site 309807006671 argininosuccinate lyase; Provisional; Region: PRK00855 309807006672 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 309807006673 active sites [active] 309807006674 tetramer interface [polypeptide binding]; other site 309807006675 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 309807006676 photoactive yellow protein; Region: photo_yellow; TIGR02373 309807006677 PAS fold; Region: PAS; pfam00989 309807006678 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 309807006679 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 309807006680 S-adenosylmethionine binding site [chemical binding]; other site 309807006681 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 309807006682 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 309807006683 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 309807006684 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 309807006685 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 309807006686 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 309807006687 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 309807006688 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807006689 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 309807006690 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 309807006691 DHH family; Region: DHH; pfam01368 309807006692 DHHA1 domain; Region: DHHA1; pfam02272 309807006693 transcription termination factor Rho; Provisional; Region: rho; PRK09376 309807006694 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 309807006695 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 309807006696 RNA binding site [nucleotide binding]; other site 309807006697 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 309807006698 Walker A motif; other site 309807006699 ATP binding site [chemical binding]; other site 309807006700 Walker B motif; other site 309807006701 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 309807006702 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807006703 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807006704 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807006705 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 309807006706 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 309807006707 Domain interface; other site 309807006708 Active site tetrad [active] 309807006709 Peptide binding site; other site 309807006710 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 309807006711 protein binding site [polypeptide binding]; other site 309807006712 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 309807006713 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 309807006714 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 309807006715 active site 309807006716 motif I; other site 309807006717 motif II; other site 309807006718 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 309807006719 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309807006720 ligand binding site [chemical binding]; other site 309807006721 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 309807006722 active site 309807006723 Ap6A binding site [chemical binding]; other site 309807006724 nudix motif; other site 309807006725 metal binding site [ion binding]; metal-binding site 309807006726 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 309807006727 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 309807006728 Sulfate transporter family; Region: Sulfate_transp; pfam00916 309807006729 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 309807006730 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 309807006731 DinB superfamily; Region: DinB_2; pfam12867 309807006732 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 309807006733 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 309807006734 putative active site [active] 309807006735 Zn binding site [ion binding]; other site 309807006736 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 309807006737 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 309807006738 AsnC family; Region: AsnC_trans_reg; pfam01037 309807006739 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 309807006740 GIY-YIG motif/motif A; other site 309807006741 putative active site [active] 309807006742 putative metal binding site [ion binding]; other site 309807006743 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 309807006744 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 309807006745 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 309807006746 Fasciclin domain; Region: Fasciclin; pfam02469 309807006747 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 309807006748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807006749 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807006750 DNA binding residues [nucleotide binding] 309807006751 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 309807006752 FecR protein; Region: FecR; pfam04773 309807006753 Secretin and TonB N terminus short domain; Region: STN; smart00965 309807006754 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006755 Glycosyl-hydrolase 97 N-terminal; Region: GH97_N; pfam14508 309807006756 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 309807006757 Glycosyl-hydrolase 97 C-terminal, oligomerization; Region: GH97_C; pfam14509 309807006758 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 309807006759 glutamate dehydrogenase; Region: PLN02477 309807006760 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 309807006761 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 309807006762 NAD(P) binding site [chemical binding]; other site 309807006763 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 309807006764 TrkA-N domain; Region: TrkA_N; pfam02254 309807006765 Amino acid permease; Region: AA_permease; pfam00324 309807006766 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006767 amino acid transporter; Region: 2A0306; TIGR00909 309807006768 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 309807006769 Ligand Binding Site [chemical binding]; other site 309807006770 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 309807006771 Ligand Binding Site [chemical binding]; other site 309807006772 Amino acid permease; Region: AA_permease; pfam00324 309807006773 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006774 amino acid transporter; Region: 2A0306; TIGR00909 309807006775 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006776 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 309807006777 putative active site [active] 309807006778 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 309807006779 Ligand Binding Site [chemical binding]; other site 309807006780 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807006781 TrkA-N domain; Region: TrkA_N; pfam02254 309807006782 TrkA-C domain; Region: TrkA_C; pfam02080 309807006783 amino acid transporter; Region: 2A0306; TIGR00909 309807006784 Spore germination protein; Region: Spore_permease; cl17796 309807006785 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006786 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 309807006787 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 309807006788 TrkA-N domain; Region: TrkA_N; pfam02254 309807006789 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807006790 TrkA-C domain; Region: TrkA_C; pfam02080 309807006791 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807006792 TrkA-N domain; Region: TrkA_N; pfam02254 309807006793 TrkA-C domain; Region: TrkA_C; pfam02080 309807006794 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807006795 TrkA-N domain; Region: TrkA_N; pfam02254 309807006796 TrkA-C domain; Region: TrkA_C; pfam02080 309807006797 identified by similarity to GB:CAE11915.2; match to protein family HMM PF03400; similar to ISSru2, transposase insAB 309807006798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807006799 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 309807006800 DNA-binding interface [nucleotide binding]; DNA binding site 309807006801 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 309807006802 Cation transport protein; Region: TrkH; pfam02386 309807006803 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 309807006804 TrkA-N domain; Region: TrkA_N; pfam02254 309807006805 TrkA-C domain; Region: TrkA_C; pfam02080 309807006806 TrkA-N domain; Region: TrkA_N; pfam02254 309807006807 TrkA-C domain; Region: TrkA_C; pfam02080 309807006808 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 309807006809 Cation transport protein; Region: TrkH; cl17365 309807006810 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 309807006811 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309807006812 TrkA-N domain; Region: TrkA_N; pfam02254 309807006813 putative cation:proton antiport protein; Provisional; Region: PRK10669 309807006814 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 309807006815 TrkA-N domain; Region: TrkA_N; pfam02254 309807006816 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 309807006817 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006818 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 309807006819 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006820 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 309807006821 active site 309807006822 phosphorylation site [posttranslational modification] 309807006823 TrkA-C domain; Region: TrkA_C; pfam02080 309807006824 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 309807006825 Rhomboid family; Region: Rhomboid; cl11446 309807006826 F1/F0 ATPase, Methanosarcina type, subunit 2; Region: F1F0_chp_2; TIGR03165 309807006827 PAS domain; Region: PAS_9; pfam13426 309807006828 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 309807006829 putative active site [active] 309807006830 heme pocket [chemical binding]; other site 309807006831 PAS domain; Region: PAS_9; pfam13426 309807006832 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 309807006833 putative active site [active] 309807006834 heme pocket [chemical binding]; other site 309807006835 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807006836 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 309807006837 putative active site [active] 309807006838 heme pocket [chemical binding]; other site 309807006839 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 309807006840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807006841 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807006842 dimer interface [polypeptide binding]; other site 309807006843 phosphorylation site [posttranslational modification] 309807006844 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807006845 ATP binding site [chemical binding]; other site 309807006846 Mg2+ binding site [ion binding]; other site 309807006847 G-X-G motif; other site 309807006848 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 309807006849 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 309807006850 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 309807006851 shikimate binding site; other site 309807006852 NAD(P) binding site [chemical binding]; other site 309807006853 OsmC-like protein; Region: OsmC; pfam02566 309807006854 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309807006855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807006856 NAD(P) binding site [chemical binding]; other site 309807006857 active site 309807006858 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 309807006859 FOG: CBS domain [General function prediction only]; Region: COG0517 309807006860 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309807006861 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807006862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807006863 Walker A/P-loop; other site 309807006864 ATP binding site [chemical binding]; other site 309807006865 Q-loop/lid; other site 309807006866 ABC transporter signature motif; other site 309807006867 Walker B; other site 309807006868 D-loop; other site 309807006869 H-loop/switch region; other site 309807006870 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 309807006871 putative FMN binding site [chemical binding]; other site 309807006872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807006873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807006874 threonine dehydratase; Provisional; Region: PRK08198 309807006875 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 309807006876 tetramer interface [polypeptide binding]; other site 309807006877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807006878 catalytic residue [active] 309807006879 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 309807006880 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 309807006881 active site 309807006882 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 309807006883 ATP binding site [chemical binding]; other site 309807006884 putative Mg++ binding site [ion binding]; other site 309807006885 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 309807006886 nucleotide binding region [chemical binding]; other site 309807006887 ATP-binding site [chemical binding]; other site 309807006888 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 309807006889 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 309807006890 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 309807006891 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807006892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807006893 active site 309807006894 phosphorylation site [posttranslational modification] 309807006895 intermolecular recognition site; other site 309807006896 dimerization interface [polypeptide binding]; other site 309807006897 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807006898 DNA binding site [nucleotide binding] 309807006899 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 309807006900 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 309807006901 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807006902 dimer interface [polypeptide binding]; other site 309807006903 conserved gate region; other site 309807006904 putative PBP binding loops; other site 309807006905 ABC-ATPase subunit interface; other site 309807006906 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 309807006907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807006908 dimer interface [polypeptide binding]; other site 309807006909 conserved gate region; other site 309807006910 putative PBP binding loops; other site 309807006911 ABC-ATPase subunit interface; other site 309807006912 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 309807006913 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 309807006914 Walker A/P-loop; other site 309807006915 ATP binding site [chemical binding]; other site 309807006916 Q-loop/lid; other site 309807006917 ABC transporter signature motif; other site 309807006918 Walker B; other site 309807006919 D-loop; other site 309807006920 H-loop/switch region; other site 309807006921 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 309807006922 PhoU domain; Region: PhoU; pfam01895 309807006923 PhoU domain; Region: PhoU; pfam01895 309807006924 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 309807006925 dockerin binding interface [polypeptide binding]; other site 309807006926 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807006927 Peptidase S8 family domain in Fervidolysin; Region: Peptidases_S8_Fervidolysin_like; cd07485 309807006928 active site 309807006929 catalytic triad [active] 309807006930 Subtilase family; Region: Peptidase_S8; pfam00082 309807006931 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 309807006932 Interdomain contacts; other site 309807006933 Cytokine receptor motif; other site 309807006934 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 309807006935 dockerin binding interface [polypeptide binding]; other site 309807006936 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807006937 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 309807006938 putative acyl-acceptor binding pocket; other site 309807006939 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 309807006940 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 309807006941 catalytic motif [active] 309807006942 Zn binding site [ion binding]; other site 309807006943 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 309807006944 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 309807006945 Lumazine binding domain; Region: Lum_binding; pfam00677 309807006946 Lumazine binding domain; Region: Lum_binding; pfam00677 309807006947 Predicted membrane protein (DUF2207); Region: DUF2207; cl19878 309807006948 Predicted membrane protein (DUF2207); Region: DUF2207; cl19878 309807006949 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 309807006950 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 309807006951 putative NAD(P) binding site [chemical binding]; other site 309807006952 putative substrate binding site [chemical binding]; other site 309807006953 catalytic Zn binding site [ion binding]; other site 309807006954 structural Zn binding site [ion binding]; other site 309807006955 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 309807006956 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309807006957 putative substrate translocation pore; other site 309807006958 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 309807006959 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 309807006960 active site 309807006961 catalytic site [active] 309807006962 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 309807006963 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 309807006964 short chain dehydrogenase; Region: adh_short; pfam00106 309807006965 putative NAD(P) binding site [chemical binding]; other site 309807006966 homodimer interface [polypeptide binding]; other site 309807006967 Amino acid permease; Region: AA_permease_2; pfam13520 309807006968 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 309807006969 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807006970 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807006971 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807006972 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 309807006973 S-adenosylmethionine binding site [chemical binding]; other site 309807006974 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 309807006975 Part of AAA domain; Region: AAA_19; pfam13245 309807006976 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309807006977 active site 309807006978 catalytic site [active] 309807006979 substrate binding site [chemical binding]; other site 309807006980 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 309807006981 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 309807006982 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 309807006983 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 309807006984 homodimer interface [polypeptide binding]; other site 309807006985 substrate-cofactor binding pocket; other site 309807006986 catalytic residue [active] 309807006987 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 309807006988 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 309807006989 Ligand binding site; other site 309807006990 Putative Catalytic site; other site 309807006991 DXD motif; other site 309807006992 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 309807006993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807006994 Coenzyme A binding pocket [chemical binding]; other site 309807006995 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 309807006996 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 309807006997 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 309807006998 Insulin-induced protein (INSIG); Region: INSIG; pfam07281 309807006999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 309807007000 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007001 dimer interface [polypeptide binding]; other site 309807007002 phosphorylation site [posttranslational modification] 309807007003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007004 ATP binding site [chemical binding]; other site 309807007005 Mg2+ binding site [ion binding]; other site 309807007006 G-X-G motif; other site 309807007007 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807007008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007009 active site 309807007010 phosphorylation site [posttranslational modification] 309807007011 intermolecular recognition site; other site 309807007012 dimerization interface [polypeptide binding]; other site 309807007013 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 309807007014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 309807007015 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807007016 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 309807007017 Outer membrane protein beta-barrel family; Region: OMP_b-brl_3; pfam14905 309807007018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309807007019 Histidine kinase; Region: His_kinase; pfam06580 309807007020 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007021 ATP binding site [chemical binding]; other site 309807007022 Mg2+ binding site [ion binding]; other site 309807007023 G-X-G motif; other site 309807007024 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 309807007025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007026 active site 309807007027 phosphorylation site [posttranslational modification] 309807007028 intermolecular recognition site; other site 309807007029 dimerization interface [polypeptide binding]; other site 309807007030 LytTr DNA-binding domain; Region: LytTR; smart00850 309807007031 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 309807007032 active site 309807007033 dimer interface [polypeptide binding]; other site 309807007034 non-prolyl cis peptide bond; other site 309807007035 insertion regions; other site 309807007036 ATP-grasp domain; Region: ATP-grasp_4; cl17255 309807007037 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 309807007038 DNA photolyase; Region: DNA_photolyase; pfam00875 309807007039 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309807007040 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309807007041 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309807007042 putative dimer interface [polypeptide binding]; other site 309807007043 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 309807007044 S-adenosylmethionine binding site [chemical binding]; other site 309807007045 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 309807007046 glycyl-tRNA synthetase; Provisional; Region: PRK04173 309807007047 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 309807007048 dimer interface [polypeptide binding]; other site 309807007049 motif 1; other site 309807007050 active site 309807007051 motif 2; other site 309807007052 motif 3; other site 309807007053 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 309807007054 anticodon binding site; other site 309807007055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807007056 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807007057 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807007058 four helix bundle protein; Region: TIGR02436 309807007059 hypothetical protein; Reviewed; Region: PRK00024 309807007060 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 309807007061 MPN+ (JAMM) motif; other site 309807007062 Zinc-binding site [ion binding]; other site 309807007063 transcription termination factor Rho; Provisional; Region: PRK12608 309807007064 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 309807007065 RNA binding site [nucleotide binding]; other site 309807007066 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 309807007067 Walker A motif; other site 309807007068 ATP binding site [chemical binding]; other site 309807007069 Walker B motif; other site 309807007070 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807007071 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807007072 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 309807007073 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807007074 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309807007075 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309807007076 active site 309807007077 metal binding site [ion binding]; metal-binding site 309807007078 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 309807007079 active site 309807007080 Zn binding site [ion binding]; other site 309807007081 Serpin (serine protease inhibitor); Region: Serpin; pfam00079 309807007082 reactive center loop; other site 309807007083 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 309807007084 active site 309807007085 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 309807007086 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 309807007087 chaperone protein DnaJ; Provisional; Region: PRK14281 309807007088 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 309807007089 HSP70 interaction site [polypeptide binding]; other site 309807007090 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 309807007091 substrate binding site [polypeptide binding]; other site 309807007092 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 309807007093 dimer interface [polypeptide binding]; other site 309807007094 Homeobox associated leucine zipper; Region: HALZ; cl02577 309807007095 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 309807007096 dimer interface [polypeptide binding]; other site 309807007097 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 309807007098 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 309807007099 HrcA protein C terminal domain; Region: HrcA; pfam01628 309807007100 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 309807007101 tandem repeat interface [polypeptide binding]; other site 309807007102 oligomer interface [polypeptide binding]; other site 309807007103 active site residues [active] 309807007104 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 309807007105 tandem repeat interface [polypeptide binding]; other site 309807007106 oligomer interface [polypeptide binding]; other site 309807007107 active site residues [active] 309807007108 phosphoglyceromutase; Provisional; Region: PRK05434 309807007109 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 309807007110 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 309807007111 minor groove reading motif; other site 309807007112 helix-hairpin-helix signature motif; other site 309807007113 substrate binding pocket [chemical binding]; other site 309807007114 active site 309807007115 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 309807007116 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 309807007117 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309807007118 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309807007119 putative dimer interface [polypeptide binding]; other site 309807007120 fumarylacetoacetase; Region: PLN02856 309807007121 Fumarylacetoacetase N-terminal; Region: FAA_hydrolase_N; pfam09298 309807007122 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 309807007123 Tetratricopeptide repeat; Region: TPR_16; pfam13432 309807007124 TPR repeat; Region: TPR_11; pfam13414 309807007125 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 309807007126 binding surface 309807007127 TPR motif; other site 309807007128 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 309807007129 homodimer interface [polypeptide binding]; other site 309807007130 substrate-cofactor binding pocket; other site 309807007131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807007132 catalytic residue [active] 309807007133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 309807007134 AMP-binding enzyme; Region: AMP-binding; pfam00501 309807007135 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 309807007136 active site 309807007137 AMP binding site [chemical binding]; other site 309807007138 acyl-activating enzyme (AAE) consensus motif; other site 309807007139 CoA binding site [chemical binding]; other site 309807007140 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 309807007141 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-phosphohexomutase...; Region: PGM_like4; cd05803 309807007142 active site 309807007143 substrate binding site [chemical binding]; other site 309807007144 metal binding site [ion binding]; metal-binding site 309807007145 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 309807007146 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 309807007147 putative active site [active] 309807007148 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309807007149 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807007150 Walker A/P-loop; other site 309807007151 ATP binding site [chemical binding]; other site 309807007152 Q-loop/lid; other site 309807007153 ABC transporter signature motif; other site 309807007154 Walker B; other site 309807007155 D-loop; other site 309807007156 H-loop/switch region; other site 309807007157 ABC-2 type transporter; Region: ABC2_membrane; cl17235 309807007158 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 309807007159 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 309807007160 RNA/DNA hybrid binding site [nucleotide binding]; other site 309807007161 active site 309807007162 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 309807007163 active site 309807007164 substrate-binding site [chemical binding]; other site 309807007165 metal-binding site [ion binding] 309807007166 ATP binding site [chemical binding]; other site 309807007167 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309807007168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807007169 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 309807007170 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807007171 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 source...; Region: AdeC; cd01295 309807007172 active site 309807007173 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 309807007174 Predicted membrane protein [Function unknown]; Region: COG3650 309807007175 threonine synthase; Validated; Region: PRK09225 309807007176 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 309807007177 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309807007178 catalytic residue [active] 309807007179 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 309807007180 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 309807007181 acyl-activating enzyme (AAE) consensus motif; other site 309807007182 putative AMP binding site [chemical binding]; other site 309807007183 putative active site [active] 309807007184 putative CoA binding site [chemical binding]; other site 309807007185 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 309807007186 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 requires...; Region: DHOD_2_like; cd04738 309807007187 quinone interaction residues [chemical binding]; other site 309807007188 active site 309807007189 catalytic residues [active] 309807007190 FMN binding site [chemical binding]; other site 309807007191 substrate binding site [chemical binding]; other site 309807007192 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 309807007193 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 309807007194 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 309807007195 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 309807007196 structural tetrad; other site 309807007197 Surface antigen; Region: Bac_surface_Ag; pfam01103 309807007198 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 309807007199 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 309807007200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 309807007201 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 309807007202 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 309807007203 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 309807007204 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 309807007205 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 309807007206 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 309807007207 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 309807007208 Domain of unknown function (DUF307); Region: DUF307; pfam03733 309807007209 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 309807007210 GIY-YIG motif/motif A; other site 309807007211 putative active site [active] 309807007212 putative metal binding site [ion binding]; other site 309807007213 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 309807007214 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 309807007215 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 309807007216 LVIVD repeat; Region: LVIVD; pfam08309 309807007217 mercuric reductase; Validated; Region: PRK06370 309807007218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807007219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 309807007220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807007221 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 309807007222 OB-fold nucleic acid binding domain; Region: tRNA_anti-codon; pfam01336 309807007223 PAS domain S-box; Region: sensory_box; TIGR00229 309807007224 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 309807007225 putative active site [active] 309807007226 heme pocket [chemical binding]; other site 309807007227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007228 dimer interface [polypeptide binding]; other site 309807007229 phosphorylation site [posttranslational modification] 309807007230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007231 ATP binding site [chemical binding]; other site 309807007232 G-X-G motif; other site 309807007233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 309807007234 Probable transposase; Region: OrfB_IS605; pfam01385 309807007235 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 309807007236 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 309807007237 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 309807007238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807007239 Walker A/P-loop; other site 309807007240 ATP binding site [chemical binding]; other site 309807007241 Q-loop/lid; other site 309807007242 ABC transporter signature motif; other site 309807007243 Walker B; other site 309807007244 D-loop; other site 309807007245 H-loop/switch region; other site 309807007246 TOBE domain; Region: TOBE_2; pfam08402 309807007247 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 309807007248 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807007249 dimer interface [polypeptide binding]; other site 309807007250 conserved gate region; other site 309807007251 putative PBP binding loops; other site 309807007252 ABC-ATPase subunit interface; other site 309807007253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807007254 dimer interface [polypeptide binding]; other site 309807007255 conserved gate region; other site 309807007256 putative PBP binding loops; other site 309807007257 ABC-ATPase subunit interface; other site 309807007258 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 309807007259 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309807007260 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807007261 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807007262 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 309807007263 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807007264 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 309807007265 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 309807007266 active site 309807007267 catalytic tetrad [active] 309807007268 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 309807007269 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 309807007270 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 309807007271 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 309807007272 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 309807007273 heme binding site [chemical binding]; other site 309807007274 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 309807007275 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 309807007276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 309807007277 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 309807007278 dimerization interface [polypeptide binding]; other site 309807007279 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 309807007280 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 309807007281 Ligand binding site; other site 309807007282 Putative Catalytic site; other site 309807007283 DXD motif; other site 309807007284 Protein of unknown function (DUF1673); Region: DUF1673; pfam07895 309807007285 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 309807007286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007287 ATP binding site [chemical binding]; other site 309807007288 Mg2+ binding site [ion binding]; other site 309807007289 G-X-G motif; other site 309807007290 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 309807007291 anchoring element; other site 309807007292 dimer interface [polypeptide binding]; other site 309807007293 ATP binding site [chemical binding]; other site 309807007294 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 309807007295 active site 309807007296 putative metal-binding site [ion binding]; other site 309807007297 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 309807007298 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 309807007299 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 309807007300 Ca binding site [ion binding]; other site 309807007301 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 309807007302 active site 309807007303 homodimer interface [polypeptide binding]; other site 309807007304 catalytic site [active] 309807007305 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 309807007306 FOG: CBS domain [General function prediction only]; Region: COG0517 309807007307 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 309807007308 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 309807007309 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 309807007310 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 309807007311 HflX GTPase family; Region: HflX; cd01878 309807007312 G1 box; other site 309807007313 GTP/Mg2+ binding site [chemical binding]; other site 309807007314 Switch I region; other site 309807007315 G2 box; other site 309807007316 G3 box; other site 309807007317 Switch II region; other site 309807007318 G4 box; other site 309807007319 G5 box; other site 309807007320 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 309807007321 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 309807007322 CARDB; Region: CARDB; pfam07705 309807007323 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 309807007324 Fasciclin domain; Region: Fasciclin; pfam02469 309807007325 Fasciclin domain; Region: Fasciclin; pfam02469 309807007326 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807007327 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807007328 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807007329 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 309807007330 S-adenosylmethionine binding site [chemical binding]; other site 309807007331 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 309807007332 Diphtheria toxin, R domain; Region: Diphtheria_R; pfam01324 309807007333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007334 active site 309807007335 phosphorylation site [posttranslational modification] 309807007336 intermolecular recognition site; other site 309807007337 dimerization interface [polypeptide binding]; other site 309807007338 PglZ domain; Region: PglZ; pfam08665 309807007339 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 309807007340 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 309807007341 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309807007342 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 309807007343 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 309807007344 DTAP/Switch II; other site 309807007345 Switch I; other site 309807007346 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 309807007347 tetramerization interface [polypeptide binding]; other site 309807007348 substrate binding pocket [chemical binding]; other site 309807007349 catalytic residues [active] 309807007350 inhibitor binding sites; inhibition site 309807007351 NADP(H) binding site [chemical binding]; other site 309807007352 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 309807007353 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 309807007354 active site 309807007355 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 309807007356 thiamine monophosphate kinase; Provisional; Region: PRK05731 309807007357 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 309807007358 ATP binding site [chemical binding]; other site 309807007359 dimerization interface [polypeptide binding]; other site 309807007360 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 309807007361 putative binding surface; other site 309807007362 active site 309807007363 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 309807007364 active site 309807007365 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 309807007366 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 309807007367 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 309807007368 alpha subunit interaction interface [polypeptide binding]; other site 309807007369 Walker A motif; other site 309807007370 ATP binding site [chemical binding]; other site 309807007371 Walker B motif; other site 309807007372 inhibitor binding site; inhibition site 309807007373 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 309807007374 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 309807007375 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 309807007376 gamma subunit interface [polypeptide binding]; other site 309807007377 epsilon subunit interface [polypeptide binding]; other site 309807007378 LBP interface [polypeptide binding]; other site 309807007379 HEAT repeats; Region: HEAT_2; pfam13646 309807007380 HEAT repeats; Region: HEAT_2; pfam13646 309807007381 HEAT repeats; Region: HEAT_2; pfam13646 309807007382 HEAT repeats; Region: HEAT_2; pfam13646 309807007383 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 309807007384 active site 309807007385 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 309807007386 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 309807007387 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 309807007388 dimer interface [polypeptide binding]; other site 309807007389 active site 309807007390 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309807007391 substrate binding site [chemical binding]; other site 309807007392 catalytic residue [active] 309807007393 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 309807007394 putative protofilament interface [polypeptide binding]; other site 309807007395 nucleotide binding site [chemical binding]; other site 309807007396 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 309807007397 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 309807007398 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 309807007399 active site 309807007400 NTP binding site [chemical binding]; other site 309807007401 metal binding triad [ion binding]; metal-binding site 309807007402 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 309807007403 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309807007404 Zn2+ binding site [ion binding]; other site 309807007405 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 309807007406 Mg2+ binding site [ion binding]; other site 309807007407 FAD dependent oxidoreductase; Region: DAO; pfam01266 309807007408 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807007409 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 309807007410 FOG: CBS domain [General function prediction only]; Region: COG0517 309807007411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807007412 short chain dehydrogenase; Region: adh_short; pfam00106 309807007413 NAD(P) binding site [chemical binding]; other site 309807007414 active site 309807007415 Mid-1-related chloride channel (MCLC); Region: MCLC; pfam05934 309807007416 Coiled-coil domain containing protein (DUF2052); Region: DUF2052; pfam09747 309807007417 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807007418 Walker A motif; other site 309807007419 ATP binding site [chemical binding]; other site 309807007420 Walker B motif; other site 309807007421 arginine finger; other site 309807007422 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 309807007423 L-aspartate oxidase; Provisional; Region: PRK06175 309807007424 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 309807007425 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 309807007426 putative active site [active] 309807007427 putative metal binding site [ion binding]; other site 309807007428 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309807007429 catalytic residues [active] 309807007430 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 309807007431 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807007432 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807007433 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807007434 active site 309807007435 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 309807007436 DNA-binding site [nucleotide binding]; DNA binding site 309807007437 RNA-binding motif; other site 309807007438 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 309807007439 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; cl19058 309807007440 active site 309807007441 dimer interface [polypeptide binding]; other site 309807007442 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 309807007443 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 309807007444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807007445 Walker A/P-loop; other site 309807007446 ATP binding site [chemical binding]; other site 309807007447 Q-loop/lid; other site 309807007448 ABC transporter signature motif; other site 309807007449 Walker B; other site 309807007450 D-loop; other site 309807007451 H-loop/switch region; other site 309807007452 Predicted membrane protein [Function unknown]; Region: COG2259 309807007453 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 309807007454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807007455 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807007456 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807007457 Low molecular weight phosphatase family; Region: LMWPc; cd00115 309807007458 active site 309807007459 arsenical-resistance protein; Region: acr3; TIGR00832 309807007460 arsenite S-adenosylmethyltransferase; Reviewed; Region: arsM; PRK11873 309807007461 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 309807007462 S-adenosylmethionine binding site [chemical binding]; other site 309807007463 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 309807007464 dimerization interface [polypeptide binding]; other site 309807007465 putative DNA binding site [nucleotide binding]; other site 309807007466 putative Zn2+ binding site [ion binding]; other site 309807007467 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 309807007468 DinB family; Region: DinB; cl17821 309807007469 SpoIIAA-like; Region: SpoIIAA-like; pfam11964 309807007470 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 309807007471 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 309807007472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807007473 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 309807007474 Walker A/P-loop; other site 309807007475 ATP binding site [chemical binding]; other site 309807007476 Q-loop/lid; other site 309807007477 ABC transporter signature motif; other site 309807007478 Walker B; other site 309807007479 D-loop; other site 309807007480 H-loop/switch region; other site 309807007481 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 309807007482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309807007483 dimer interface [polypeptide binding]; other site 309807007484 conserved gate region; other site 309807007485 putative PBP binding loops; other site 309807007486 ABC-ATPase subunit interface; other site 309807007487 CHY zinc finger; Region: zf-CHY; cl19861 309807007488 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 309807007489 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 309807007490 Walker A/P-loop; other site 309807007491 ATP binding site [chemical binding]; other site 309807007492 Q-loop/lid; other site 309807007493 ABC transporter signature motif; other site 309807007494 Walker B; other site 309807007495 D-loop; other site 309807007496 H-loop/switch region; other site 309807007497 CAAX protease self-immunity; Region: Abi; pfam02517 309807007498 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 309807007499 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807007500 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807007501 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807007502 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 309807007503 active site 309807007504 Zn binding site [ion binding]; other site 309807007505 Spondin_N; Region: Spond_N; pfam06468 309807007506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 309807007507 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007508 dimerization interface [polypeptide binding]; other site 309807007509 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007510 dimer interface [polypeptide binding]; other site 309807007511 phosphorylation site [posttranslational modification] 309807007512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007513 ATP binding site [chemical binding]; other site 309807007514 Mg2+ binding site [ion binding]; other site 309807007515 G-X-G motif; other site 309807007516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807007517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007518 active site 309807007519 phosphorylation site [posttranslational modification] 309807007520 intermolecular recognition site; other site 309807007521 dimerization interface [polypeptide binding]; other site 309807007522 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807007523 DNA binding site [nucleotide binding] 309807007524 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 309807007525 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 309807007526 oligomer interface [polypeptide binding]; other site 309807007527 active site 309807007528 metal binding site [ion binding]; metal-binding site 309807007529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807007530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007531 active site 309807007532 phosphorylation site [posttranslational modification] 309807007533 intermolecular recognition site; other site 309807007534 dimerization interface [polypeptide binding]; other site 309807007535 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807007536 DNA binding site [nucleotide binding] 309807007537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807007538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007539 active site 309807007540 phosphorylation site [posttranslational modification] 309807007541 intermolecular recognition site; other site 309807007542 dimerization interface [polypeptide binding]; other site 309807007543 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807007544 DNA binding site [nucleotide binding] 309807007545 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 309807007546 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 309807007547 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 309807007548 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 309807007549 Ligand Binding Site [chemical binding]; other site 309807007550 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 309807007551 homotrimer interaction site [polypeptide binding]; other site 309807007552 putative active site [active] 309807007553 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 309807007554 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 309807007555 active site 309807007556 metal binding site [ion binding]; metal-binding site 309807007557 Protein of unknown function (DUF342); Region: DUF342; cl19219 309807007558 No apical meristem (NAM) protein; Region: NAM; pfam02365 309807007559 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309807007560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807007561 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 309807007562 DNA binding residues [nucleotide binding] 309807007563 DNA repair protein RadA; Provisional; Region: PRK11823 309807007564 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 309807007565 Walker A motif/ATP binding site; other site 309807007566 ATP binding site [chemical binding]; other site 309807007567 Walker B motif; other site 309807007568 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 309807007569 Permease; Region: Permease; pfam02405 309807007570 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 309807007571 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 309807007572 Walker A/P-loop; other site 309807007573 ATP binding site [chemical binding]; other site 309807007574 Q-loop/lid; other site 309807007575 ABC transporter signature motif; other site 309807007576 Walker B; other site 309807007577 D-loop; other site 309807007578 H-loop/switch region; other site 309807007579 mce related protein; Region: MCE; pfam02470 309807007580 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 309807007581 Proteins of 100 residues with WXG; Region: WXG100; cl02005 309807007582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 309807007583 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 309807007584 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 309807007585 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 309807007586 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 309807007587 transcriptional regulator ICP4; Provisional; Region: PHA03307 309807007588 FOG: CBS domain [General function prediction only]; Region: COG0517 309807007589 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 309807007590 hypothetical protein; Provisional; Region: PRK13560 309807007591 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 309807007592 putative active site [active] 309807007593 heme pocket [chemical binding]; other site 309807007594 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 309807007595 putative active site [active] 309807007596 heme pocket [chemical binding]; other site 309807007597 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 309807007598 putative active site [active] 309807007599 heme pocket [chemical binding]; other site 309807007600 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007601 dimer interface [polypeptide binding]; other site 309807007602 phosphorylation site [posttranslational modification] 309807007603 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007604 ATP binding site [chemical binding]; other site 309807007605 Mg2+ binding site [ion binding]; other site 309807007606 G-X-G motif; other site 309807007607 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007608 dimerization interface [polypeptide binding]; other site 309807007609 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 309807007610 dimer interface [polypeptide binding]; other site 309807007611 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309807007612 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807007613 dimer interface [polypeptide binding]; other site 309807007614 putative CheW interface [polypeptide binding]; other site 309807007615 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 309807007616 PAS fold; Region: PAS_4; pfam08448 309807007617 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 309807007618 putative active site [active] 309807007619 heme pocket [chemical binding]; other site 309807007620 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807007621 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 309807007622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007623 dimer interface [polypeptide binding]; other site 309807007624 phosphorylation site [posttranslational modification] 309807007625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007626 ATP binding site [chemical binding]; other site 309807007627 Mg2+ binding site [ion binding]; other site 309807007628 G-X-G motif; other site 309807007629 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 309807007630 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 309807007631 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007632 dimer interface [polypeptide binding]; other site 309807007633 phosphorylation site [posttranslational modification] 309807007634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007635 ATP binding site [chemical binding]; other site 309807007636 Mg2+ binding site [ion binding]; other site 309807007637 G-X-G motif; other site 309807007638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 309807007639 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 309807007640 SPFH domain / Band 7 family; Region: Band_7; pfam01145 309807007641 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 309807007642 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 309807007643 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 309807007644 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 309807007645 nucleoside/Zn binding site; other site 309807007646 dimer interface [polypeptide binding]; other site 309807007647 catalytic motif [active] 309807007648 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 309807007649 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 309807007650 FMN binding site [chemical binding]; other site 309807007651 active site 309807007652 catalytic residues [active] 309807007653 substrate binding site [chemical binding]; other site 309807007654 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 309807007655 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 309807007656 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 309807007657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807007658 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 309807007659 Walker A/P-loop; other site 309807007660 ATP binding site [chemical binding]; other site 309807007661 Q-loop/lid; other site 309807007662 ABC transporter signature motif; other site 309807007663 Walker B; other site 309807007664 D-loop; other site 309807007665 H-loop/switch region; other site 309807007666 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309807007667 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807007668 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 309807007669 DNA binding residues [nucleotide binding] 309807007670 large tegument protein UL36; Provisional; Region: PHA03247 309807007671 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 309807007672 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 309807007673 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 309807007674 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807007675 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 309807007676 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 309807007677 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 309807007678 active site 309807007679 trimer interface [polypeptide binding]; other site 309807007680 allosteric site; other site 309807007681 active site lid [active] 309807007682 hexamer (dimer of trimers) interface [polypeptide binding]; other site 309807007683 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309807007684 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 309807007685 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 309807007686 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 309807007687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 309807007688 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 309807007689 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 309807007690 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 309807007691 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 309807007692 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 309807007693 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 309807007694 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 309807007695 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 309807007696 dimerization interface [polypeptide binding]; other site 309807007697 putative DNA binding site [nucleotide binding]; other site 309807007698 putative Zn2+ binding site [ion binding]; other site 309807007699 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807007700 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807007701 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807007702 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 309807007703 prolyl-tRNA synthetase; Provisional; Region: PRK08661 309807007704 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 309807007705 dimer interface [polypeptide binding]; other site 309807007706 motif 1; other site 309807007707 active site 309807007708 motif 2; other site 309807007709 motif 3; other site 309807007710 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 309807007711 anticodon binding site; other site 309807007712 zinc-binding site [ion binding]; other site 309807007713 transcription termination factor Rho; Provisional; Region: PRK12678 309807007714 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 309807007715 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 309807007716 dimerization interface [polypeptide binding]; other site 309807007717 UGMP family protein; Validated; Region: PRK09604 309807007718 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 309807007719 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 309807007720 Oligomerization domain; Region: Oligomerization; pfam02410 309807007721 Protein of unknown function (DUF423); Region: DUF423; pfam04241 309807007722 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 309807007723 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309807007724 cell surface protein SprA; Region: surface_SprA; TIGR04189 309807007725 Motility related/secretion protein; Region: SprA_N; pfam14349 309807007726 Motility related/secretion protein; Region: SprA_N; pfam14349 309807007727 Motility related/secretion protein; Region: SprA_N; pfam14349 309807007728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807007729 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 309807007730 NAD(P) binding site [chemical binding]; other site 309807007731 recombination protein RecR; Reviewed; Region: recR; PRK00076 309807007732 RecR protein; Region: RecR; pfam02132 309807007733 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 309807007734 putative active site [active] 309807007735 putative metal-binding site [ion binding]; other site 309807007736 tetramer interface [polypeptide binding]; other site 309807007737 hypothetical protein; Validated; Region: PRK00153 309807007738 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 309807007739 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807007740 Walker A motif; other site 309807007741 ATP binding site [chemical binding]; other site 309807007742 Walker B motif; other site 309807007743 arginine finger; other site 309807007744 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 309807007745 Serine-rich region of AP3B1, clathrin-adaptor complex; Region: SEEEED; cl19208 309807007746 RDD family; Region: RDD; pfam06271 309807007747 thymidine kinase; Provisional; Region: PRK04296 309807007748 Predicted membrane protein [Function unknown]; Region: COG2860 309807007749 UPF0126 domain; Region: UPF0126; pfam03458 309807007750 UPF0126 domain; Region: UPF0126; pfam03458 309807007751 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 309807007752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309807007753 putative substrate translocation pore; other site 309807007754 MarC family integral membrane protein; Region: MarC; cl00919 309807007755 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 309807007756 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 309807007757 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 309807007758 dimerization interface [polypeptide binding]; other site 309807007759 substrate binding pocket [chemical binding]; other site 309807007760 TPR repeat; Region: TPR_11; pfam13414 309807007761 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 309807007762 binding surface 309807007763 TPR motif; other site 309807007764 Bacterial SH3 domain; Region: SH3_4; pfam06347 309807007765 Oxygen tolerance; Region: BatD; pfam13584 309807007766 transcription termination factor Rho; Provisional; Region: PRK12678 309807007767 von Willebrand factor type A domain; Region: VWA_2; pfam13519 309807007768 metal ion-dependent adhesion site (MIDAS); other site 309807007769 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 309807007770 metal ion-dependent adhesion site (MIDAS); other site 309807007771 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 which...; Region: SIRT5_Af1_CobB; cd01412 309807007772 NAD+ binding site [chemical binding]; other site 309807007773 substrate binding site [chemical binding]; other site 309807007774 Zn binding site [ion binding]; other site 309807007775 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 309807007776 Protein of unknown function DUF58; Region: DUF58; pfam01882 309807007777 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 309807007778 metal ion-dependent adhesion site (MIDAS); other site 309807007779 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 309807007780 GAF domain; Region: GAF_2; pfam13185 309807007781 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007782 dimer interface [polypeptide binding]; other site 309807007783 phosphorylation site [posttranslational modification] 309807007784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007785 ATP binding site [chemical binding]; other site 309807007786 Mg2+ binding site [ion binding]; other site 309807007787 G-X-G motif; other site 309807007788 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 309807007789 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 309807007790 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 309807007791 FeS/SAM binding site; other site 309807007792 TRAM domain; Region: TRAM; pfam01938 309807007793 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 309807007794 putative active site [active] 309807007795 putative metal binding site [ion binding]; other site 309807007796 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 309807007797 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 309807007798 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 309807007799 HAMP domain; Region: HAMP; pfam00672 309807007800 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807007801 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 309807007802 dimer interface [polypeptide binding]; other site 309807007803 putative CheW interface [polypeptide binding]; other site 309807007804 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807007805 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 309807007806 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309807007807 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807007808 DNA binding residues [nucleotide binding] 309807007809 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 309807007810 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 309807007811 P-loop; other site 309807007812 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 309807007813 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 309807007814 FHIPEP family; Region: FHIPEP; pfam00771 309807007815 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 309807007816 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 309807007817 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 309807007818 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 309807007819 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 309807007820 flagellar motor switch protein FliN; Region: fliN; TIGR02480 309807007821 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 309807007822 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 309807007823 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 309807007824 flagellar motor protein MotS; Reviewed; Region: PRK06925 309807007825 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 309807007826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309807007827 ligand binding site [chemical binding]; other site 309807007828 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 309807007829 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807007830 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807007831 dimer interface [polypeptide binding]; other site 309807007832 putative CheW interface [polypeptide binding]; other site 309807007833 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007834 dimerization interface [polypeptide binding]; other site 309807007835 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807007836 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007837 dimerization interface [polypeptide binding]; other site 309807007838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807007839 dimer interface [polypeptide binding]; other site 309807007840 putative CheW interface [polypeptide binding]; other site 309807007841 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 309807007842 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007843 dimerization interface [polypeptide binding]; other site 309807007844 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807007845 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807007846 dimerization interface [polypeptide binding]; other site 309807007847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807007848 dimer interface [polypeptide binding]; other site 309807007849 putative CheW interface [polypeptide binding]; other site 309807007850 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 309807007851 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 309807007852 N-acetyl-D-glucosamine binding site [chemical binding]; other site 309807007853 catalytic residue [active] 309807007854 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 309807007855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007856 active site 309807007857 phosphorylation site [posttranslational modification] 309807007858 intermolecular recognition site; other site 309807007859 dimerization interface [polypeptide binding]; other site 309807007860 CheB methylesterase; Region: CheB_methylest; pfam01339 309807007861 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 309807007862 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 309807007863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007864 ATP binding site [chemical binding]; other site 309807007865 Mg2+ binding site [ion binding]; other site 309807007866 G-X-G motif; other site 309807007867 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 309807007868 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 309807007869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007870 active site 309807007871 phosphorylation site [posttranslational modification] 309807007872 intermolecular recognition site; other site 309807007873 dimerization interface [polypeptide binding]; other site 309807007874 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 309807007875 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 309807007876 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 309807007877 S-adenosylmethionine binding site [chemical binding]; other site 309807007878 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 309807007879 putative CheA interaction surface; other site 309807007880 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 309807007881 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 309807007882 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 309807007883 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 309807007884 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 309807007885 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 309807007886 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 309807007887 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 309807007888 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 309807007889 transcription termination factor Rho; Provisional; Region: PRK12678 309807007890 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 309807007891 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 309807007892 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 309807007893 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 309807007894 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 309807007895 Walker A motif/ATP binding site; other site 309807007896 Walker B motif; other site 309807007897 Flagellar assembly protein FliH; Region: FliH; cl19405 309807007898 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 309807007899 FliG N-terminal domain; Region: FliG_N; pfam14842 309807007900 FliG middle domain; Region: FliG_M; pfam14841 309807007901 FliG C-terminal domain; Region: FliG_C; pfam01706 309807007902 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 309807007903 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 309807007904 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 309807007905 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 309807007906 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 309807007907 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 309807007908 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 309807007909 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 309807007910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807007911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007912 ATP binding site [chemical binding]; other site 309807007913 Mg2+ binding site [ion binding]; other site 309807007914 G-X-G motif; other site 309807007915 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 309807007916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807007917 active site 309807007918 phosphorylation site [posttranslational modification] 309807007919 intermolecular recognition site; other site 309807007920 dimerization interface [polypeptide binding]; other site 309807007921 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807007922 Walker A motif; other site 309807007923 ATP binding site [chemical binding]; other site 309807007924 Walker B motif; other site 309807007925 arginine finger; other site 309807007926 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 309807007927 Flagellar protein FliT; Region: FliT; pfam05400 309807007928 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 309807007929 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 309807007930 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 309807007931 Flagellar protein FliS; Region: FliS; cl00654 309807007932 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 309807007933 putative active site [active] 309807007934 heme pocket [chemical binding]; other site 309807007935 PAS domain; Region: PAS_9; pfam13426 309807007936 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 309807007937 putative active site [active] 309807007938 heme pocket [chemical binding]; other site 309807007939 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 309807007940 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 309807007941 putative active site [active] 309807007942 heme pocket [chemical binding]; other site 309807007943 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 309807007944 putative active site [active] 309807007945 heme pocket [chemical binding]; other site 309807007946 PAS domain; Region: PAS; smart00091 309807007947 PAS fold; Region: PAS_4; pfam08448 309807007948 GAF domain; Region: GAF_2; pfam13185 309807007949 PAS domain S-box; Region: sensory_box; TIGR00229 309807007950 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 309807007951 putative active site [active] 309807007952 heme pocket [chemical binding]; other site 309807007953 GAF domain; Region: GAF_2; pfam13185 309807007954 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807007955 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807007956 dimer interface [polypeptide binding]; other site 309807007957 phosphorylation site [posttranslational modification] 309807007958 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807007959 ATP binding site [chemical binding]; other site 309807007960 Mg2+ binding site [ion binding]; other site 309807007961 G-X-G motif; other site 309807007962 flagellin; Reviewed; Region: PRK08869 309807007963 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 309807007964 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 309807007965 flagellin; Reviewed; Region: PRK08869 309807007966 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 309807007967 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 309807007968 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 309807007969 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 309807007970 HDOD domain; Region: HDOD; pfam08668 309807007971 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 309807007972 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 309807007973 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 309807007974 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 309807007975 FlgN protein; Region: FlgN; pfam05130 309807007976 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 309807007977 Flagellar L-ring protein; Region: FlgH; cl19182 309807007978 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 309807007979 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 309807007980 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 309807007981 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 309807007982 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 309807007983 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 309807007984 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 309807007985 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 309807007986 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 309807007987 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807007988 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807007989 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807007990 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807007991 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 309807007992 putative active site [active] 309807007993 Zn binding site [ion binding]; other site 309807007994 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 309807007995 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309807007996 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309807007997 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807007998 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; cl19582 309807007999 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 309807008000 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807008001 Walker A motif; other site 309807008002 ATP binding site [chemical binding]; other site 309807008003 Walker B motif; other site 309807008004 arginine finger; other site 309807008005 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 309807008006 Lipopolysaccharide-assembly; Region: LptE; pfam04390 309807008007 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 309807008008 active site 309807008009 dimer interface [polypeptide binding]; other site 309807008010 catalytic nucleophile [active] 309807008011 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 309807008012 Male sterility protein; Region: NAD_binding_4; pfam07993 309807008013 putative NAD(P) binding site [chemical binding]; other site 309807008014 active site 309807008015 putative substrate binding site [chemical binding]; other site 309807008016 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 309807008017 RES domain; Region: RES; smart00953 309807008018 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 309807008019 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 309807008020 dimerization interface [polypeptide binding]; other site 309807008021 ATP binding site [chemical binding]; other site 309807008022 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 309807008023 dimerization interface [polypeptide binding]; other site 309807008024 ATP binding site [chemical binding]; other site 309807008025 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 309807008026 catalytic residues [active] 309807008027 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 309807008028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807008029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 309807008030 BON domain; Region: BON; pfam04972 309807008031 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 309807008032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 309807008033 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 309807008034 Tetratricopeptide repeat; Region: TPR_19; pfam14559 309807008035 Sulfatase; Region: Sulfatase; cl19157 309807008036 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309807008037 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 309807008038 hypothetical protein; Validated; Region: PRK00110 309807008039 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 309807008040 active site 309807008041 putative DNA-binding cleft [nucleotide binding]; other site 309807008042 dimer interface [polypeptide binding]; other site 309807008043 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 309807008044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807008045 Walker A/P-loop; other site 309807008046 ATP binding site [chemical binding]; other site 309807008047 Q-loop/lid; other site 309807008048 ABC transporter signature motif; other site 309807008049 Walker B; other site 309807008050 D-loop; other site 309807008051 H-loop/switch region; other site 309807008052 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 309807008053 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 309807008054 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 309807008055 trigger factor; Region: tig; TIGR00115 309807008056 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 309807008057 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 309807008058 oligomer interface [polypeptide binding]; other site 309807008059 active site residues [active] 309807008060 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 309807008061 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 309807008062 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 309807008063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 309807008064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807008065 Coenzyme A binding pocket [chemical binding]; other site 309807008066 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 309807008067 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 309807008068 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 309807008069 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 309807008070 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 309807008071 classical (c) SDRs; Region: SDR_c; cd05233 309807008072 NAD(P) binding site [chemical binding]; other site 309807008073 active site 309807008074 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 309807008075 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807008076 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 309807008077 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 309807008078 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 309807008079 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 309807008080 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 309807008081 active site 309807008082 nucleophile elbow; other site 309807008083 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 309807008084 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 309807008085 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 309807008086 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 309807008087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 309807008088 active site 309807008089 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 309807008090 Kelch motif; Region: Kelch_1; pfam01344 309807008091 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 309807008092 Kelch motif; Region: Kelch_1; pfam01344 309807008093 Ferrochelatase; Region: Ferrochelatase; pfam00762 309807008094 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 309807008095 C-terminal domain interface [polypeptide binding]; other site 309807008096 active site 309807008097 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 309807008098 active site 309807008099 N-terminal domain interface [polypeptide binding]; other site 309807008100 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309807008101 putative catalytic site [active] 309807008102 putative metal binding site [ion binding]; other site 309807008103 putative phosphate binding site [ion binding]; other site 309807008104 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309807008105 ligand binding site [chemical binding]; other site 309807008106 Domain of unknown function (DUF368); Region: DUF368; pfam04018 309807008107 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 309807008108 binding surface 309807008109 Bacterial transcriptional activator domain; Region: BTAD; smart01043 309807008110 TPR motif; other site 309807008111 TPR repeat; Region: TPR_11; pfam13414 309807008112 TPR repeat; Region: TPR_11; pfam13414 309807008113 TPR repeat; Region: TPR_11; pfam13414 309807008114 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 309807008115 binding surface 309807008116 TPR motif; other site 309807008117 TPR repeat; Region: TPR_11; pfam13414 309807008118 TPR repeat; Region: TPR_11; pfam13414 309807008119 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 309807008120 binding surface 309807008121 TPR motif; other site 309807008122 TPR repeat; Region: TPR_11; pfam13414 309807008123 TPR repeat; Region: TPR_11; pfam13414 309807008124 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 309807008125 binding surface 309807008126 TPR motif; other site 309807008127 TPR repeat; Region: TPR_11; pfam13414 309807008128 thymidylate kinase; Validated; Region: tmk; PRK00698 309807008129 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 309807008130 TMP-binding site; other site 309807008131 ATP-binding site [chemical binding]; other site 309807008132 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 309807008133 metal binding site 2 [ion binding]; metal-binding site 309807008134 putative DNA binding helix; other site 309807008135 metal binding site 1 [ion binding]; metal-binding site 309807008136 dimer interface [polypeptide binding]; other site 309807008137 structural Zn2+ binding site [ion binding]; other site 309807008138 PrcB C-terminal; Region: PrcB_C; pfam14343 309807008139 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 309807008140 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807008141 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 309807008142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 309807008143 Helix-turn-helix domain; Region: HTH_28; pfam13518 309807008144 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309807008145 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 309807008146 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309807008147 NAD binding site [chemical binding]; other site 309807008148 putative substrate binding site 2 [chemical binding]; other site 309807008149 putative substrate binding site 1 [chemical binding]; other site 309807008150 active site 309807008151 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 309807008152 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 309807008153 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 309807008154 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 309807008155 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 309807008156 putative catalytic residue [active] 309807008157 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 309807008158 Sulfite exporter TauE/SafE; Region: TauE; cl19196 309807008159 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 309807008160 DsbD alpha interface [polypeptide binding]; other site 309807008161 catalytic residues [active] 309807008162 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 309807008163 Ca2+ binding site [ion binding]; other site 309807008164 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807008165 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 309807008166 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 309807008167 active site 309807008168 Zn binding site [ion binding]; other site 309807008169 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 309807008170 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 309807008171 multidrug efflux protein; Reviewed; Region: PRK01766 309807008172 cation binding site [ion binding]; other site 309807008173 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309807008174 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807008175 Beta-lactamase; Region: Beta-lactamase; pfam00144 309807008176 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 309807008177 Putative lysophospholipase; Region: Hydrolase_4; cl19140 309807008178 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807008179 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309807008180 Histidine kinase; Region: His_kinase; pfam06580 309807008181 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807008182 ATP binding site [chemical binding]; other site 309807008183 Mg2+ binding site [ion binding]; other site 309807008184 G-X-G motif; other site 309807008185 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 309807008186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807008187 active site 309807008188 phosphorylation site [posttranslational modification] 309807008189 intermolecular recognition site; other site 309807008190 dimerization interface [polypeptide binding]; other site 309807008191 LytTr DNA-binding domain; Region: LytTR; smart00850 309807008192 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 309807008193 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 309807008194 N-terminal plug; other site 309807008195 ligand-binding site [chemical binding]; other site 309807008196 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 309807008197 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 309807008198 putative hemin binding site; other site 309807008199 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 309807008200 ABC-ATPase subunit interface; other site 309807008201 dimer interface [polypeptide binding]; other site 309807008202 putative PBP binding regions; other site 309807008203 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 309807008204 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 309807008205 metal binding site [ion binding]; metal-binding site 309807008206 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 309807008207 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 309807008208 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 309807008209 Walker A/P-loop; other site 309807008210 ATP binding site [chemical binding]; other site 309807008211 Q-loop/lid; other site 309807008212 ABC transporter signature motif; other site 309807008213 Walker B; other site 309807008214 D-loop; other site 309807008215 H-loop/switch region; other site 309807008216 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 309807008217 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 309807008218 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 309807008219 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 309807008220 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807008221 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807008222 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 309807008223 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807008224 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 309807008225 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 309807008226 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 309807008227 dimer interface [polypeptide binding]; other site 309807008228 active site 309807008229 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 309807008230 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 309807008231 CoenzymeA binding site [chemical binding]; other site 309807008232 subunit interaction site [polypeptide binding]; other site 309807008233 PHB binding site; other site 309807008234 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 309807008235 Zn binding site [ion binding]; other site 309807008236 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 309807008237 Zn binding site [ion binding]; other site 309807008238 Predicted esterase [General function prediction only]; Region: COG0400 309807008239 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 309807008240 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 309807008241 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 309807008242 active site 309807008243 homodimer interface [polypeptide binding]; other site 309807008244 catalytic site [active] 309807008245 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 309807008246 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 309807008247 primosome assembly protein PriA; Validated; Region: PRK05580 309807008248 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 309807008249 ATP binding site [chemical binding]; other site 309807008250 putative Mg++ binding site [ion binding]; other site 309807008251 helicase superfamily c-terminal domain; Region: HELICc; smart00490 309807008252 transcriptional activator RfaH; Region: RfaH; TIGR01955 309807008253 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 309807008254 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 309807008255 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 309807008256 ATP binding site [chemical binding]; other site 309807008257 putative Mg++ binding site [ion binding]; other site 309807008258 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 309807008259 nucleotide binding region [chemical binding]; other site 309807008260 ATP-binding site [chemical binding]; other site 309807008261 Helicase associated domain (HA2); Region: HA2; pfam04408 309807008262 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 309807008263 putative phosphatase; Provisional; Region: PRK11587 309807008264 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 309807008265 active site 309807008266 motif I; other site 309807008267 motif II; other site 309807008268 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 309807008269 active site 309807008270 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 309807008271 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 309807008272 Outer membrane efflux protein; Region: OEP; pfam02321 309807008273 Outer membrane efflux protein; Region: OEP; pfam02321 309807008274 Protein of unknown function (DUF721); Region: DUF721; pfam05258 309807008275 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 309807008276 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 309807008277 dimer interface [polypeptide binding]; other site 309807008278 active site 309807008279 acyl carrier protein; Provisional; Region: acpP; PRK00982 309807008280 S-adenosylmethionine synthetase; Validated; Region: PRK05250 309807008281 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 309807008282 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 309807008283 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 309807008284 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 309807008285 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309807008286 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807008287 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807008288 DNA binding residues [nucleotide binding] 309807008289 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 309807008290 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 309807008291 glycogen binding site [chemical binding]; other site 309807008292 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 309807008293 catalytic nucleophile [active] 309807008294 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 309807008295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309807008296 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 309807008297 DNA binding residues [nucleotide binding] 309807008298 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 309807008299 ATP binding site [chemical binding]; other site 309807008300 putative Mg++ binding site [ion binding]; other site 309807008301 Helicase conserved C-terminal domain; Region: Helicase_C; cl17351 309807008302 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 309807008303 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 309807008304 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 309807008305 Dihydroxynaphthoic acid synthase [Coenzyme metabolism]; Region: MenB; COG0447 309807008306 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 309807008307 substrate binding site [chemical binding]; other site 309807008308 oxyanion hole (OAH) forming residues; other site 309807008309 trimer interface [polypeptide binding]; other site 309807008310 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 309807008311 Predicted dehydrogenase [General function prediction only]; Region: COG0579 309807008312 hydroxyglutarate oxidase; Provisional; Region: PRK11728 309807008313 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 309807008314 Uncharacterized conserved protein [Function unknown]; Region: COG2128 309807008315 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 309807008316 putative active site [active] 309807008317 putative dimer interface [polypeptide binding]; other site 309807008318 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 309807008319 Transposase; Region: DEDD_Tnp_IS110; pfam01548 309807008320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 309807008321 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 309807008322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807008323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807008324 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 309807008325 Uncharacterized conserved protein [Function unknown]; Region: COG2128 309807008326 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 309807008327 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 309807008328 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 309807008329 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 309807008330 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 309807008331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807008332 NAD(P) binding site [chemical binding]; other site 309807008333 active site 309807008334 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 309807008335 Na binding site [ion binding]; other site 309807008336 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 309807008337 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 309807008338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309807008339 NAD(P) binding site [chemical binding]; other site 309807008340 active site 309807008341 Predicted membrane protein [Function unknown]; Region: COG4270 309807008342 5' nucleotidase family; Region: 5_nucleotid; pfam05761 309807008343 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 309807008344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309807008345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 309807008346 WHG domain; Region: WHG; pfam13305 309807008347 cysteine synthase; Region: PLN02565 309807008348 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 309807008349 dimer interface [polypeptide binding]; other site 309807008350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309807008351 catalytic residue [active] 309807008352 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309807008353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807008354 active site 309807008355 phosphorylation site [posttranslational modification] 309807008356 intermolecular recognition site; other site 309807008357 dimerization interface [polypeptide binding]; other site 309807008358 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309807008359 DNA binding residues [nucleotide binding] 309807008360 dimerization interface [polypeptide binding]; other site 309807008361 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309807008362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807008363 active site 309807008364 phosphorylation site [posttranslational modification] 309807008365 intermolecular recognition site; other site 309807008366 dimerization interface [polypeptide binding]; other site 309807008367 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309807008368 DNA binding residues [nucleotide binding] 309807008369 dimerization interface [polypeptide binding]; other site 309807008370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807008371 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807008372 dimer interface [polypeptide binding]; other site 309807008373 phosphorylation site [posttranslational modification] 309807008374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807008375 ATP binding site [chemical binding]; other site 309807008376 Mg2+ binding site [ion binding]; other site 309807008377 G-X-G motif; other site 309807008378 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 309807008379 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 309807008380 CoA-binding site [chemical binding]; other site 309807008381 ATP-binding [chemical binding]; other site 309807008382 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 309807008383 nucleotide binding site/active site [active] 309807008384 HIT family signature motif; other site 309807008385 catalytic residue [active] 309807008386 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 309807008387 active site 309807008388 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 309807008389 active site 309807008390 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 309807008391 classical (c) SDRs; Region: SDR_c; cd05233 309807008392 NAD(P) binding site [chemical binding]; other site 309807008393 active site 309807008394 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 309807008395 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 309807008396 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 309807008397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309807008398 Coenzyme A binding pocket [chemical binding]; other site 309807008399 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 309807008400 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 309807008401 metal binding site [ion binding]; metal-binding site 309807008402 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 309807008403 Active_site [active] 309807008404 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 309807008405 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 309807008406 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 309807008407 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 309807008408 active site 309807008409 dimer interface [polypeptide binding]; other site 309807008410 motif 1; other site 309807008411 motif 2; other site 309807008412 motif 3; other site 309807008413 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 309807008414 anticodon binding site; other site 309807008415 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 309807008416 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 309807008417 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 309807008418 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 309807008419 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 309807008420 23S rRNA binding site [nucleotide binding]; other site 309807008421 L21 binding site [polypeptide binding]; other site 309807008422 L13 binding site [polypeptide binding]; other site 309807008423 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 309807008424 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 309807008425 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 309807008426 dimer interface [polypeptide binding]; other site 309807008427 motif 1; other site 309807008428 active site 309807008429 motif 2; other site 309807008430 motif 3; other site 309807008431 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 309807008432 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 309807008433 putative tRNA-binding site [nucleotide binding]; other site 309807008434 B3/4 domain; Region: B3_4; pfam03483 309807008435 tRNA synthetase B5 domain; Region: B5; smart00874 309807008436 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 309807008437 dimer interface [polypeptide binding]; other site 309807008438 motif 1; other site 309807008439 motif 3; other site 309807008440 motif 2; other site 309807008441 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 309807008442 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 309807008443 cell division protein GpsB; Provisional; Region: PRK14127; cl19517 309807008444 Cell division protein ZapA; Region: ZapA; pfam05164 309807008445 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 309807008446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 309807008447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807008448 Walker A/P-loop; other site 309807008449 ATP binding site [chemical binding]; other site 309807008450 Q-loop/lid; other site 309807008451 ABC transporter signature motif; other site 309807008452 Walker B; other site 309807008453 ABC transporter; Region: ABC_tran_2; pfam12848 309807008454 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 309807008455 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807008456 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807008457 FG-GAP repeat; Region: FG-GAP_2; pfam14312 309807008458 Glyco_18 domain; Region: Glyco_18; smart00636 309807008459 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 an...; Region: GH18_chitinase; cd06548 309807008460 active site 309807008461 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 309807008462 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 309807008463 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807008464 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 309807008465 active site 309807008466 SnoaL-like domain; Region: SnoaL_2; pfam12680 309807008467 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 309807008468 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 309807008469 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 309807008470 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309807008471 catalytic residues [active] 309807008472 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309807008473 catalytic residues [active] 309807008474 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 309807008475 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 309807008476 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 309807008477 S-adenosylmethionine binding site [chemical binding]; other site 309807008478 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 309807008479 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 309807008480 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 309807008481 B-cell receptor-associated protein 31-like; Region: Bap31; cl02219 309807008482 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807008483 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807008484 dimerization interface [polypeptide binding]; other site 309807008485 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 309807008486 dimer interface [polypeptide binding]; other site 309807008487 putative CheW interface [polypeptide binding]; other site 309807008488 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 309807008489 Outer membrane efflux protein; Region: OEP; pfam02321 309807008490 Outer membrane efflux protein; Region: OEP; pfam02321 309807008491 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807008492 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807008493 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 309807008494 MMPL family; Region: MMPL; cl14618 309807008495 Nitrogen regulatory protein P-II; Region: P-II; smart00938 309807008496 High potential iron-sulfur protein; Region: HIPIP; pfam01355 309807008497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309807008498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807008499 active site 309807008500 phosphorylation site [posttranslational modification] 309807008501 intermolecular recognition site; other site 309807008502 dimerization interface [polypeptide binding]; other site 309807008503 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 309807008504 DNA binding site [nucleotide binding] 309807008505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 309807008506 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 309807008507 dimerization interface [polypeptide binding]; other site 309807008508 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 309807008509 dimer interface [polypeptide binding]; other site 309807008510 phosphorylation site [posttranslational modification] 309807008511 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807008512 ATP binding site [chemical binding]; other site 309807008513 Mg2+ binding site [ion binding]; other site 309807008514 G-X-G motif; other site 309807008515 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 309807008516 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 309807008517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 309807008518 dimer interface [polypeptide binding]; other site 309807008519 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 309807008520 Clp amino terminal domain; Region: Clp_N; pfam02861 309807008521 Clp amino terminal domain; Region: Clp_N; pfam02861 309807008522 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807008523 Walker A motif; other site 309807008524 ATP binding site [chemical binding]; other site 309807008525 Walker B motif; other site 309807008526 arginine finger; other site 309807008527 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 309807008528 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 309807008529 Walker A motif; other site 309807008530 ATP binding site [chemical binding]; other site 309807008531 Walker B motif; other site 309807008532 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 309807008533 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 309807008534 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 309807008535 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 309807008536 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 309807008537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 309807008538 Walker A/P-loop; other site 309807008539 ATP binding site [chemical binding]; other site 309807008540 Q-loop/lid; other site 309807008541 ABC transporter signature motif; other site 309807008542 Walker B; other site 309807008543 D-loop; other site 309807008544 H-loop/switch region; other site 309807008545 Transcriptional regulators [Transcription]; Region: PurR; COG1609 309807008546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 309807008547 DNA binding site [nucleotide binding] 309807008548 domain linker motif; other site 309807008549 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 309807008550 ligand binding site [chemical binding]; other site 309807008551 dimerization interface [polypeptide binding]; other site 309807008552 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 309807008553 Na binding site [ion binding]; other site 309807008554 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807008555 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807008556 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807008557 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807008558 SusD family; Region: SusD; pfam07980 309807008559 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 309807008560 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 309807008561 active site 309807008562 catalytic residues [active] 309807008563 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 309807008564 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 309807008565 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 309807008566 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 309807008567 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 309807008568 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 309807008569 putative substrate translocation pore; other site 309807008570 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807008571 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 309807008572 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 309807008573 Walker A/P-loop; other site 309807008574 ATP binding site [chemical binding]; other site 309807008575 Q-loop/lid; other site 309807008576 ABC transporter signature motif; other site 309807008577 Walker B; other site 309807008578 D-loop; other site 309807008579 H-loop/switch region; other site 309807008580 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309807008581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 309807008582 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 309807008583 HlyD family secretion protein; Region: HlyD_3; pfam13437 309807008584 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 309807008585 Outer membrane efflux protein; Region: OEP; pfam02321 309807008586 Outer membrane efflux protein; Region: OEP; pfam02321 309807008587 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807008588 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 309807008589 FtsX-like permease family; Region: FtsX; pfam02687 309807008590 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 309807008591 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 309807008592 FtsX-like permease family; Region: FtsX; pfam02687 309807008593 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 309807008594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309807008595 active site 309807008596 phosphorylation site [posttranslational modification] 309807008597 intermolecular recognition site; other site 309807008598 dimerization interface [polypeptide binding]; other site 309807008599 LytTr DNA-binding domain; Region: LytTR; smart00850 309807008600 Histidine kinase; Region: His_kinase; pfam06580 309807008601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 309807008602 ATP binding site [chemical binding]; other site 309807008603 Mg2+ binding site [ion binding]; other site 309807008604 G-X-G motif; other site 309807008605 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 309807008606 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 309807008607 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 309807008608 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 309807008609 Sporulation related domain; Region: SPOR; pfam05036 309807008610 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 309807008611 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807008612 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 309807008613 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 309807008614 starch binding outer membrane protein SusD; Region: SusD; cd08977 309807008615 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309807008616 putative catalytic site [active] 309807008617 putative metal binding site [ion binding]; other site 309807008618 putative phosphate binding site [ion binding]; other site 309807008619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 309807008620 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 309807008621 Zn binding site [ion binding]; other site 309807008622 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 309807008623 Zn binding site [ion binding]; other site 309807008624 Salinibacter ruber strain M31T DSM13855 was obtained from the DSMZ (German Collection of Microorganisms and Cell Cultures) culture collection at http://www.dsmz.de/microorganisms/html/strains/strain.dsm0 13855.html . The S. ruber growth medium is described at http://www.dsmz.de/microorganisms/html/media/medium000936. html (DSMZ medium 936). 309807008625 Initiator Replication protein; Region: Rep_3; pfam01051 309807008626 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 309807008627 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 309807008628 active site 309807008629 DNA binding site [nucleotide binding] 309807008630 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 309807008631 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 309807008632 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 309807008633 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 309807008634 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 309807008635 Fibronectin type III domain; Region: fn3; pfam00041 309807008636 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 309807008637 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 309807008638 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 309807008639 Interdomain contacts; other site 309807008640 Cytokine receptor motif; other site 309807008641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 309807008642 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 309807008643 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 309807008644 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 309807008645 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 309807008646 active site 309807008647 DNA binding site [nucleotide binding] 309807008648 Int/Topo IB signature motif; other site 309807008649 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 309807008650 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 309807008651 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 309807008652 GIY-YIG motif/motif A; other site 309807008653 active site 309807008654 catalytic site [active] 309807008655 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 309807008656 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 309807008657 putative active site [active] 309807008658 Staphylococcal nuclease homologues; Region: SNc; smart00318 309807008659 Staphylococcal nuclease homologue; Region: SNase; pfam00565 309807008660 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 309807008661 Methyltransferase domain; Region: Methyltransf_26; pfam13659 309807008662 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 309807008663 ParA-like protein; Provisional; Region: PHA02518 309807008664 VirC1 protein; Region: VirC1; cl17401 309807008665 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 309807008666 P-loop; other site 309807008667 Magnesium ion binding site [ion binding]; other site 309807008668 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 309807008669 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 309807008670 active site 309807008671 Int/Topo IB signature motif; other site 309807008672 DNA binding site [nucleotide binding]