-- dump date 20140619_045846 -- class Genbank::misc_feature -- table misc_feature_note -- id note 946483000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 946483000002 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 946483000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 946483000004 Walker A motif; other site 946483000005 ATP binding site [chemical binding]; other site 946483000006 Walker B motif; other site 946483000007 arginine finger; other site 946483000008 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 946483000009 DnaA box-binding interface [nucleotide binding]; other site 946483000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 946483000011 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 946483000012 putative DNA binding surface [nucleotide binding]; other site 946483000013 dimer interface [polypeptide binding]; other site 946483000014 beta-clamp/clamp loader binding surface; other site 946483000015 beta-clamp/translesion DNA polymerase binding surface; other site 946483000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 946483000017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483000018 ATP binding site [chemical binding]; other site 946483000019 Mg2+ binding site [ion binding]; other site 946483000020 G-X-G motif; other site 946483000021 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 946483000022 anchoring element; other site 946483000023 dimer interface [polypeptide binding]; other site 946483000024 ATP binding site [chemical binding]; other site 946483000025 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 946483000026 active site 946483000027 putative metal-binding site [ion binding]; other site 946483000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 946483000029 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 946483000030 active site 946483000031 NTP binding site [chemical binding]; other site 946483000032 metal binding triad [ion binding]; metal-binding site 946483000033 antibiotic binding site [chemical binding]; other site 946483000034 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 946483000035 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 946483000036 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483000037 Methyltransferase domain; Region: Methyltransf_11; pfam08241 946483000038 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 946483000039 FOG: CBS domain [General function prediction only]; Region: COG0517 946483000040 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 946483000041 NeuB family; Region: NeuB; pfam03102 946483000042 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 946483000043 NeuB binding interface [polypeptide binding]; other site 946483000044 putative substrate binding site [chemical binding]; other site 946483000045 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 946483000046 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 946483000047 Metal-binding active site; metal-binding site 946483000048 AP (apurinic/apyrimidinic) site pocket; other site 946483000049 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 946483000050 ligand binding site; other site 946483000051 tetramer interface; other site 946483000052 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483000053 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 946483000054 S-adenosylmethionine binding site [chemical binding]; other site 946483000055 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483000056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483000057 NAD(P) binding site [chemical binding]; other site 946483000058 active site 946483000059 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 946483000060 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 946483000061 inhibitor-cofactor binding pocket; inhibition site 946483000062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483000063 catalytic residue [active] 946483000064 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 946483000065 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 946483000066 Mg++ binding site [ion binding]; other site 946483000067 putative catalytic motif [active] 946483000068 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 946483000069 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483000070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483000071 metal binding site [ion binding]; metal-binding site 946483000072 active site 946483000073 I-site; other site 946483000074 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 946483000075 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 946483000076 dimerization interface [polypeptide binding]; other site 946483000077 DPS ferroxidase diiron center [ion binding]; other site 946483000078 ion pore; other site 946483000079 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 946483000080 RNA/DNA hybrid binding site [nucleotide binding]; other site 946483000081 active site 946483000082 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 946483000083 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 946483000084 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 946483000085 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 946483000086 active site 946483000087 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 946483000088 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 946483000089 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 946483000090 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 946483000091 trimer interface [polypeptide binding]; other site 946483000092 active site 946483000093 UDP-GlcNAc binding site [chemical binding]; other site 946483000094 lipid binding site [chemical binding]; lipid-binding site 946483000095 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 946483000096 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 946483000097 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 946483000098 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 946483000099 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 946483000100 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 946483000101 Surface antigen; Region: Bac_surface_Ag; pfam01103 946483000102 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 946483000103 zinc metallopeptidase RseP; Provisional; Region: PRK10779 946483000104 active site 946483000105 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 946483000106 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 946483000107 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 946483000108 putative substrate binding region [chemical binding]; other site 946483000109 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 946483000110 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 946483000111 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 946483000112 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 946483000113 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 946483000114 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 946483000115 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 946483000116 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 946483000117 catalytic residue [active] 946483000118 putative FPP diphosphate binding site; other site 946483000119 putative FPP binding hydrophobic cleft; other site 946483000120 dimer interface [polypeptide binding]; other site 946483000121 putative IPP diphosphate binding site; other site 946483000122 ribosome recycling factor; Reviewed; Region: frr; PRK00083 946483000123 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 946483000124 hinge region; other site 946483000125 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 946483000126 putative nucleotide binding site [chemical binding]; other site 946483000127 uridine monophosphate binding site [chemical binding]; other site 946483000128 homohexameric interface [polypeptide binding]; other site 946483000129 elongation factor Ts; Provisional; Region: tsf; PRK09377 946483000130 UBA/TS-N domain; Region: UBA; pfam00627 946483000131 Elongation factor TS; Region: EF_TS; pfam00889 946483000132 Elongation factor TS; Region: EF_TS; pfam00889 946483000133 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 946483000134 rRNA interaction site [nucleotide binding]; other site 946483000135 S8 interaction site; other site 946483000136 putative laminin-1 binding site; other site 946483000137 Cell division protein ZapA; Region: ZapA; pfam05164 946483000138 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 946483000139 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 946483000140 Walker A/P-loop; other site 946483000141 ATP binding site [chemical binding]; other site 946483000142 Q-loop/lid; other site 946483000143 ABC transporter signature motif; other site 946483000144 Walker B; other site 946483000145 D-loop; other site 946483000146 H-loop/switch region; other site 946483000147 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 946483000148 Permease; Region: Permease; pfam02405 946483000149 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 946483000150 mce related protein; Region: MCE; pfam02470 946483000151 VacJ like lipoprotein; Region: VacJ; cl01073 946483000152 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 946483000153 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483000154 Methyltransferase domain; Region: Methyltransf_11; pfam08241 946483000155 S-adenosylmethionine binding site [chemical binding]; other site 946483000156 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 946483000157 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483000158 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483000159 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 946483000160 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 946483000161 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 946483000162 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 946483000163 active site 946483000164 substrate binding site [chemical binding]; other site 946483000165 cosubstrate binding site; other site 946483000166 catalytic site [active] 946483000167 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 946483000168 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 946483000169 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483000170 active site 946483000171 integron integrase; Region: integrase_gron; TIGR02249 946483000172 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 946483000173 Int/Topo IB signature motif; other site 946483000174 MORN repeat; Region: MORN; cl14787 946483000175 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 946483000176 G1 box; other site 946483000177 GTP/Mg2+ binding site [chemical binding]; other site 946483000178 G2 box; other site 946483000179 G3 box; other site 946483000180 Switch II region; other site 946483000181 G4 box; other site 946483000182 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 946483000183 PEP-CTERM motif; Region: VPEP; pfam07589 946483000184 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 946483000185 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483000186 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483000187 Transposase; Region: HTH_Tnp_1; cl17663 946483000188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 946483000189 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 946483000190 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 946483000191 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 946483000192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483000193 Integrase core domain; Region: rve; pfam00665 946483000194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483000195 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 946483000196 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 946483000197 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 946483000198 Walker A motif; other site 946483000199 ATP binding site [chemical binding]; other site 946483000200 Walker B motif; other site 946483000201 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 946483000202 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 946483000203 putative NTP binding site [chemical binding]; other site 946483000204 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483000205 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 946483000206 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 946483000207 oligomeric interface; other site 946483000208 putative active site [active] 946483000209 homodimer interface [polypeptide binding]; other site 946483000210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 946483000211 Transposase; Region: DEDD_Tnp_IS110; pfam01548 946483000212 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 946483000213 salt bridge; other site 946483000214 non-specific DNA binding site [nucleotide binding]; other site 946483000215 sequence-specific DNA binding site [nucleotide binding]; other site 946483000216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 946483000217 Transposase; Region: DEDD_Tnp_IS110; pfam01548 946483000218 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483000219 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483000220 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 946483000221 Sel1-like repeats; Region: SEL1; smart00671 946483000222 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 946483000223 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 946483000224 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 946483000225 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 946483000226 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 946483000227 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 946483000228 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 946483000229 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 946483000230 ligand binding site [chemical binding]; other site 946483000231 flexible hinge region; other site 946483000232 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 946483000233 putative switch regulator; other site 946483000234 non-specific DNA interactions [nucleotide binding]; other site 946483000235 DNA binding site [nucleotide binding] 946483000236 sequence specific DNA binding site [nucleotide binding]; other site 946483000237 putative cAMP binding site [chemical binding]; other site 946483000238 thioredoxin reductase; Provisional; Region: PRK10262 946483000239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 946483000240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 946483000241 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 946483000242 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 946483000243 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 946483000244 PAS domain; Region: PAS_9; pfam13426 946483000245 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483000246 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483000247 dimer interface [polypeptide binding]; other site 946483000248 putative CheW interface [polypeptide binding]; other site 946483000249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483000250 dimer interface [polypeptide binding]; other site 946483000251 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483000252 putative CheW interface [polypeptide binding]; other site 946483000253 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483000254 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 946483000255 dimerization interface [polypeptide binding]; other site 946483000256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483000257 dimer interface [polypeptide binding]; other site 946483000258 putative CheW interface [polypeptide binding]; other site 946483000259 Cache domain; Region: Cache_1; pfam02743 946483000260 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 946483000261 dimerization interface [polypeptide binding]; other site 946483000262 PAS domain S-box; Region: sensory_box; TIGR00229 946483000263 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 946483000264 putative active site [active] 946483000265 heme pocket [chemical binding]; other site 946483000266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483000267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483000268 metal binding site [ion binding]; metal-binding site 946483000269 active site 946483000270 I-site; other site 946483000271 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 946483000272 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483000273 substrate binding pocket [chemical binding]; other site 946483000274 membrane-bound complex binding site; other site 946483000275 hinge residues; other site 946483000276 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 946483000277 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 946483000278 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 946483000279 Walker A/P-loop; other site 946483000280 ATP binding site [chemical binding]; other site 946483000281 Q-loop/lid; other site 946483000282 ABC transporter signature motif; other site 946483000283 Walker B; other site 946483000284 D-loop; other site 946483000285 H-loop/switch region; other site 946483000286 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 946483000287 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 946483000288 Walker A/P-loop; other site 946483000289 ATP binding site [chemical binding]; other site 946483000290 Q-loop/lid; other site 946483000291 ABC transporter signature motif; other site 946483000292 Walker B; other site 946483000293 D-loop; other site 946483000294 H-loop/switch region; other site 946483000295 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 946483000296 TM-ABC transporter signature motif; other site 946483000297 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 946483000298 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 946483000299 TM-ABC transporter signature motif; other site 946483000300 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 946483000301 Protein of unknown function (DUF342); Region: DUF342; pfam03961 946483000302 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; cl10015 946483000303 recombination factor protein RarA; Reviewed; Region: PRK13342 946483000304 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 946483000305 Walker A motif; other site 946483000306 ATP binding site [chemical binding]; other site 946483000307 Walker B motif; other site 946483000308 arginine finger; other site 946483000309 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 946483000310 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 946483000311 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 946483000312 DNA binding residues [nucleotide binding] 946483000313 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 946483000314 IHF dimer interface [polypeptide binding]; other site 946483000315 IHF - DNA interface [nucleotide binding]; other site 946483000316 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 946483000317 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 946483000318 putative tRNA-binding site [nucleotide binding]; other site 946483000319 B3/4 domain; Region: B3_4; pfam03483 946483000320 tRNA synthetase B5 domain; Region: B5; smart00874 946483000321 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 946483000322 dimer interface [polypeptide binding]; other site 946483000323 motif 1; other site 946483000324 motif 3; other site 946483000325 motif 2; other site 946483000326 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 946483000327 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 946483000328 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 946483000329 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 946483000330 dimer interface [polypeptide binding]; other site 946483000331 motif 1; other site 946483000332 active site 946483000333 motif 2; other site 946483000334 motif 3; other site 946483000335 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 946483000336 23S rRNA binding site [nucleotide binding]; other site 946483000337 L21 binding site [polypeptide binding]; other site 946483000338 L13 binding site [polypeptide binding]; other site 946483000339 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 946483000340 translation initiation factor IF-3; Region: infC; TIGR00168 946483000341 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 946483000342 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 946483000343 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 946483000344 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 946483000345 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 946483000346 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 946483000347 active site 946483000348 dimer interface [polypeptide binding]; other site 946483000349 motif 1; other site 946483000350 motif 2; other site 946483000351 motif 3; other site 946483000352 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 946483000353 anticodon binding site; other site 946483000354 ketol-acid reductoisomerase; Provisional; Region: PRK05479 946483000355 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 946483000356 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 946483000357 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 946483000358 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 946483000359 putative valine binding site [chemical binding]; other site 946483000360 dimer interface [polypeptide binding]; other site 946483000361 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 946483000362 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 946483000363 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 946483000364 PYR/PP interface [polypeptide binding]; other site 946483000365 dimer interface [polypeptide binding]; other site 946483000366 TPP binding site [chemical binding]; other site 946483000367 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 946483000368 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 946483000369 TPP-binding site [chemical binding]; other site 946483000370 dimer interface [polypeptide binding]; other site 946483000371 PAS fold; Region: PAS_4; pfam08448 946483000372 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 946483000373 putative active site [active] 946483000374 heme pocket [chemical binding]; other site 946483000375 PAS domain S-box; Region: sensory_box; TIGR00229 946483000376 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 946483000377 putative active site [active] 946483000378 heme pocket [chemical binding]; other site 946483000379 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483000380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483000381 metal binding site [ion binding]; metal-binding site 946483000382 active site 946483000383 I-site; other site 946483000384 RNA polymerase factor sigma-70; Validated; Region: PRK09047 946483000385 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 946483000386 DNA binding residues [nucleotide binding] 946483000387 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 946483000388 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 946483000389 argininosuccinate lyase; Provisional; Region: PRK00855 946483000390 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 946483000391 active sites [active] 946483000392 tetramer interface [polypeptide binding]; other site 946483000393 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 946483000394 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 946483000395 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 946483000396 Walker A motif; other site 946483000397 ATP binding site [chemical binding]; other site 946483000398 Walker B motif; other site 946483000399 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 946483000400 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 946483000401 dimer interface [polypeptide binding]; other site 946483000402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483000403 catalytic residue [active] 946483000404 diaminopimelate decarboxylase; Provisional; Region: PRK11165 946483000405 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 946483000406 active site 946483000407 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 946483000408 substrate binding site [chemical binding]; other site 946483000409 catalytic residues [active] 946483000410 dimer interface [polypeptide binding]; other site 946483000411 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 946483000412 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 946483000413 substrate binding site [chemical binding]; other site 946483000414 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 946483000415 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 946483000416 dimer interface [polypeptide binding]; other site 946483000417 conserved gate region; other site 946483000418 putative PBP binding loops; other site 946483000419 ABC-ATPase subunit interface; other site 946483000420 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 946483000421 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 946483000422 dimer interface [polypeptide binding]; other site 946483000423 conserved gate region; other site 946483000424 putative PBP binding loops; other site 946483000425 ABC-ATPase subunit interface; other site 946483000426 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 946483000427 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 946483000428 Walker A/P-loop; other site 946483000429 ATP binding site [chemical binding]; other site 946483000430 Q-loop/lid; other site 946483000431 ABC transporter signature motif; other site 946483000432 Walker B; other site 946483000433 D-loop; other site 946483000434 H-loop/switch region; other site 946483000435 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 946483000436 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 946483000437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 946483000438 Walker A/P-loop; other site 946483000439 ATP binding site [chemical binding]; other site 946483000440 Q-loop/lid; other site 946483000441 ABC transporter signature motif; other site 946483000442 Walker B; other site 946483000443 D-loop; other site 946483000444 H-loop/switch region; other site 946483000445 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 946483000446 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483000447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483000448 dimer interface [polypeptide binding]; other site 946483000449 putative CheW interface [polypeptide binding]; other site 946483000450 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 946483000451 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 946483000452 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 946483000453 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 946483000454 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 946483000455 ATP-grasp domain; Region: ATP-grasp_4; cl17255 946483000456 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 946483000457 IMP binding site; other site 946483000458 dimer interface [polypeptide binding]; other site 946483000459 interdomain contacts; other site 946483000460 partial ornithine binding site; other site 946483000461 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 946483000462 Peptidase family U32; Region: Peptidase_U32; pfam01136 946483000463 putative protease; Provisional; Region: PRK15447 946483000464 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 946483000465 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 946483000466 Catalytic site [active] 946483000467 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 946483000468 HDOD domain; Region: HDOD; pfam08668 946483000469 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 946483000470 putative active site [active] 946483000471 heme pocket [chemical binding]; other site 946483000472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483000473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483000474 metal binding site [ion binding]; metal-binding site 946483000475 active site 946483000476 I-site; other site 946483000477 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 946483000478 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 946483000479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483000480 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483000481 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 946483000482 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 946483000483 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 946483000484 antitoxin MqsA for MqsR toxin; Region: MqsA; cl15819 946483000485 toxin interface [polypeptide binding]; other site 946483000486 Zn binding site [ion binding]; other site 946483000487 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483000488 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 946483000489 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 946483000490 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483000491 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 946483000492 dimerization interface [polypeptide binding]; other site 946483000493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483000494 Zn2+ binding site [ion binding]; other site 946483000495 Mg2+ binding site [ion binding]; other site 946483000496 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 946483000497 hypothetical protein; Provisional; Region: PRK09256 946483000498 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 946483000499 CheB methylesterase; Region: CheB_methylest; pfam01339 946483000500 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483000501 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483000502 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483000503 Protein of unknown function (DUF964); Region: DUF964; cl01483 946483000504 PAS domain; Region: PAS_10; pfam13596 946483000505 PAS fold; Region: PAS_4; pfam08448 946483000506 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 946483000507 PAS domain; Region: PAS_9; pfam13426 946483000508 putative active site [active] 946483000509 heme pocket [chemical binding]; other site 946483000510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 946483000511 Histidine kinase; Region: HisKA_2; pfam07568 946483000512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483000513 ATP binding site [chemical binding]; other site 946483000514 Mg2+ binding site [ion binding]; other site 946483000515 G-X-G motif; other site 946483000516 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483000517 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483000518 substrate binding pocket [chemical binding]; other site 946483000519 membrane-bound complex binding site; other site 946483000520 hinge residues; other site 946483000521 PAS fold; Region: PAS_4; pfam08448 946483000522 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 946483000523 putative active site [active] 946483000524 heme pocket [chemical binding]; other site 946483000525 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483000526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483000527 metal binding site [ion binding]; metal-binding site 946483000528 active site 946483000529 I-site; other site 946483000530 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 946483000531 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 946483000532 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 946483000533 putative RNA binding site [nucleotide binding]; other site 946483000534 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 946483000535 S-adenosylmethionine binding site [chemical binding]; other site 946483000536 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483000537 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483000538 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483000539 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483000540 dihydrodipicolinate synthase; Region: dapA; TIGR00674 946483000541 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 946483000542 dimer interface [polypeptide binding]; other site 946483000543 active site 946483000544 catalytic residue [active] 946483000545 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 946483000546 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 946483000547 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 946483000548 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 946483000549 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 946483000550 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483000551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483000552 active site 946483000553 phosphorylation site [posttranslational modification] 946483000554 intermolecular recognition site; other site 946483000555 dimerization interface [polypeptide binding]; other site 946483000556 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 946483000557 Clp amino terminal domain; Region: Clp_N; pfam02861 946483000558 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 946483000559 Walker A motif; other site 946483000560 ATP binding site [chemical binding]; other site 946483000561 Walker B motif; other site 946483000562 arginine finger; other site 946483000563 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 946483000564 Walker A motif; other site 946483000565 ATP binding site [chemical binding]; other site 946483000566 Walker B motif; other site 946483000567 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 946483000568 Uncharacterized conserved protein [Function unknown]; Region: COG2127 946483000569 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 946483000570 Flavoprotein; Region: Flavoprotein; pfam02441 946483000571 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 946483000572 SCP-2 sterol transfer family; Region: SCP2; cl01225 946483000573 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 946483000574 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 946483000575 intersubunit interface [polypeptide binding]; other site 946483000576 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 946483000577 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 946483000578 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 946483000579 ABC-ATPase subunit interface; other site 946483000580 dimer interface [polypeptide binding]; other site 946483000581 putative PBP binding regions; other site 946483000582 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 946483000583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483000584 Walker A/P-loop; other site 946483000585 ATP binding site [chemical binding]; other site 946483000586 Q-loop/lid; other site 946483000587 ABC transporter signature motif; other site 946483000588 Walker B; other site 946483000589 D-loop; other site 946483000590 putative transposase OrfB; Reviewed; Region: PHA02517 946483000591 Homeodomain-like domain; Region: HTH_32; pfam13565 946483000592 Integrase core domain; Region: rve; pfam00665 946483000593 Integrase core domain; Region: rve_3; pfam13683 946483000594 Transposase; Region: HTH_Tnp_1; cl17663 946483000595 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 946483000596 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 946483000597 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 946483000598 alphaNTD homodimer interface [polypeptide binding]; other site 946483000599 alphaNTD - beta interaction site [polypeptide binding]; other site 946483000600 alphaNTD - beta' interaction site [polypeptide binding]; other site 946483000601 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 946483000602 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 946483000603 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 946483000604 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 946483000605 RNA binding surface [nucleotide binding]; other site 946483000606 30S ribosomal protein S11; Validated; Region: PRK05309 946483000607 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 946483000608 30S ribosomal protein S13; Region: bact_S13; TIGR03631 946483000609 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 946483000610 rRNA binding site [nucleotide binding]; other site 946483000611 predicted 30S ribosome binding site; other site 946483000612 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 946483000613 SecY translocase; Region: SecY; pfam00344 946483000614 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 946483000615 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 946483000616 23S rRNA binding site [nucleotide binding]; other site 946483000617 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 946483000618 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 946483000619 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 946483000620 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 946483000621 5S rRNA interface [nucleotide binding]; other site 946483000622 L27 interface [polypeptide binding]; other site 946483000623 23S rRNA interface [nucleotide binding]; other site 946483000624 L5 interface [polypeptide binding]; other site 946483000625 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 946483000626 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 946483000627 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 946483000628 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 946483000629 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 946483000630 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 946483000631 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 946483000632 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 946483000633 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 946483000634 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 946483000635 RNA binding site [nucleotide binding]; other site 946483000636 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 946483000637 haemagglutination activity domain; Region: Haemagg_act; cl05436 946483000638 FecR protein; Region: FecR; pfam04773 946483000639 FecR protein; Region: FecR; pfam04773 946483000640 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 946483000641 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 946483000642 Surface antigen; Region: Bac_surface_Ag; pfam01103 946483000643 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 946483000644 haemagglutination activity domain; Region: Haemagg_act; pfam05860 946483000645 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 946483000646 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 946483000647 S-adenosylmethionine binding site [chemical binding]; other site 946483000648 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 946483000649 SCP-2 sterol transfer family; Region: SCP2; cl01225 946483000650 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 946483000651 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 946483000652 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 946483000653 active site 946483000654 NTP binding site [chemical binding]; other site 946483000655 metal binding triad [ion binding]; metal-binding site 946483000656 antibiotic binding site [chemical binding]; other site 946483000657 Protein of unknown function DUF86; Region: DUF86; pfam01934 946483000658 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 946483000659 Uncharacterized conserved protein [Function unknown]; Region: COG2928 946483000660 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 946483000661 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 946483000662 dimer interface [polypeptide binding]; other site 946483000663 anticodon binding site; other site 946483000664 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 946483000665 homodimer interface [polypeptide binding]; other site 946483000666 motif 1; other site 946483000667 active site 946483000668 motif 2; other site 946483000669 GAD domain; Region: GAD; pfam02938 946483000670 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 946483000671 motif 3; other site 946483000672 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 946483000673 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 946483000674 catalytic residue [active] 946483000675 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 946483000676 catalytic residues [active] 946483000677 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 946483000678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 946483000679 peroxiredoxin; Region: AhpC; TIGR03137 946483000680 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 946483000681 dimer interface [polypeptide binding]; other site 946483000682 decamer (pentamer of dimers) interface [polypeptide binding]; other site 946483000683 catalytic triad [active] 946483000684 peroxidatic and resolving cysteines [active] 946483000685 Protein of unknown function (DUF328); Region: DUF328; pfam03883 946483000686 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 946483000687 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 946483000688 putative substrate binding site [chemical binding]; other site 946483000689 putative ATP binding site [chemical binding]; other site 946483000690 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 946483000691 HDOD domain; Region: HDOD; pfam08668 946483000692 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483000693 Zn2+ binding site [ion binding]; other site 946483000694 Mg2+ binding site [ion binding]; other site 946483000695 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 946483000696 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 946483000697 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 946483000698 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 946483000699 N-terminal plug; other site 946483000700 ligand-binding site [chemical binding]; other site 946483000701 Transglycosylase SLT domain; Region: SLT_2; pfam13406 946483000702 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 946483000703 N-acetyl-D-glucosamine binding site [chemical binding]; other site 946483000704 HEAT repeats; Region: HEAT_2; pfam13646 946483000705 HEAT repeats; Region: HEAT_2; pfam13646 946483000706 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483000707 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 946483000708 binding surface 946483000709 TPR motif; other site 946483000710 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000711 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 946483000712 binding surface 946483000713 TPR motif; other site 946483000714 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000715 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 946483000716 binding surface 946483000717 TPR motif; other site 946483000718 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000719 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 946483000720 binding surface 946483000721 TPR motif; other site 946483000722 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000723 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000724 CHAT domain; Region: CHAT; pfam12770 946483000725 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483000726 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 946483000727 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 946483000728 structural tetrad; other site 946483000729 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483000730 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 946483000731 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000732 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 946483000733 binding surface 946483000734 TPR motif; other site 946483000735 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000736 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 946483000737 binding surface 946483000738 TPR motif; other site 946483000739 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000740 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000741 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 946483000742 binding surface 946483000743 TPR motif; other site 946483000744 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000745 CHAT domain; Region: CHAT; cl17868 946483000746 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483000747 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483000748 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 946483000749 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 946483000750 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 946483000751 TPR motif; other site 946483000752 binding surface 946483000753 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 946483000754 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 946483000755 TPR motif; other site 946483000756 TPR repeat; Region: TPR_11; pfam13414 946483000757 binding surface 946483000758 RHS Repeat; Region: RHS_repeat; pfam05593 946483000759 CHAT domain; Region: CHAT; pfam12770 946483000760 Caspase domain; Region: Peptidase_C14; pfam00656 946483000761 Uncharacterized conserved protein [Function unknown]; Region: COG1262 946483000762 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 946483000763 RyR domain; Region: RyR; pfam02026 946483000764 TIR domain; Region: TIR_2; pfam13676 946483000765 AAA ATPase domain; Region: AAA_16; pfam13191 946483000766 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 946483000767 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 946483000768 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483000769 structural tetrad; other site 946483000770 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 946483000771 structural tetrad; other site 946483000772 Protein of unknown function (DUF962); Region: DUF962; cl01879 946483000773 TrkA-N domain; Region: TrkA_N; pfam02254 946483000774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483000775 Integrase core domain; Region: rve; pfam00665 946483000776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483000777 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 946483000778 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 946483000779 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 946483000780 Walker A motif; other site 946483000781 ATP binding site [chemical binding]; other site 946483000782 Walker B motif; other site 946483000783 AAA ATPase domain; Region: AAA_16; pfam13191 946483000784 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483000785 WD domain, G-beta repeat; Region: WD40; pfam00400 946483000786 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 946483000787 structural tetrad; other site 946483000788 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 946483000789 structural tetrad; other site 946483000790 SIR2-like domain; Region: SIR2_2; pfam13289 946483000791 TIR domain; Region: TIR_2; pfam13676 946483000792 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000793 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483000794 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 946483000795 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 946483000796 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 946483000797 protein binding site [polypeptide binding]; other site 946483000798 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 946483000799 pyruvate phosphate dikinase; Provisional; Region: PRK05878 946483000800 Caspase domain; Region: Peptidase_C14; pfam00656 946483000801 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 946483000802 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 946483000803 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 946483000804 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 946483000805 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483000806 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483000807 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 946483000808 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 946483000809 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 946483000810 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 946483000811 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 946483000812 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 946483000813 generic binding surface I; other site 946483000814 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 946483000815 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 946483000816 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 946483000817 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 946483000818 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 946483000819 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 946483000820 Septum formation initiator; Region: DivIC; cl17659 946483000821 enolase; Provisional; Region: eno; PRK00077 946483000822 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 946483000823 dimer interface [polypeptide binding]; other site 946483000824 metal binding site [ion binding]; metal-binding site 946483000825 substrate binding pocket [chemical binding]; other site 946483000826 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 946483000827 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 946483000828 CTP synthetase; Validated; Region: pyrG; PRK05380 946483000829 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 946483000830 Catalytic site [active] 946483000831 active site 946483000832 UTP binding site [chemical binding]; other site 946483000833 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 946483000834 active site 946483000835 putative oxyanion hole; other site 946483000836 catalytic triad [active] 946483000837 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 946483000838 Flavoprotein; Region: Flavoprotein; pfam02441 946483000839 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 946483000840 putative transporter; Validated; Region: PRK03818 946483000841 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 946483000842 TrkA-C domain; Region: TrkA_C; pfam02080 946483000843 TrkA-C domain; Region: TrkA_C; pfam02080 946483000844 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 946483000845 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 946483000846 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 946483000847 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 946483000848 DNA binding site [nucleotide binding] 946483000849 active site 946483000850 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 946483000851 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 946483000852 active site 946483000853 substrate binding site [chemical binding]; other site 946483000854 metal binding site [ion binding]; metal-binding site 946483000855 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 946483000856 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 946483000857 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 946483000858 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 946483000859 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 946483000860 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 946483000861 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 946483000862 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 946483000863 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 946483000864 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 946483000865 stringent starvation protein A; Provisional; Region: sspA; PRK09481 946483000866 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 946483000867 C-terminal domain interface [polypeptide binding]; other site 946483000868 putative GSH binding site (G-site) [chemical binding]; other site 946483000869 dimer interface [polypeptide binding]; other site 946483000870 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 946483000871 dimer interface [polypeptide binding]; other site 946483000872 N-terminal domain interface [polypeptide binding]; other site 946483000873 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 946483000874 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 946483000875 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 946483000876 active site 946483000877 substrate binding site [chemical binding]; other site 946483000878 metal binding site [ion binding]; metal-binding site 946483000879 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 946483000880 dihydropteroate synthase; Region: DHPS; TIGR01496 946483000881 substrate binding pocket [chemical binding]; other site 946483000882 dimer interface [polypeptide binding]; other site 946483000883 inhibitor binding site; inhibition site 946483000884 FtsH Extracellular; Region: FtsH_ext; pfam06480 946483000885 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 946483000886 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 946483000887 ATP binding site [chemical binding]; other site 946483000888 Walker A motif; other site 946483000889 Walker B motif; other site 946483000890 arginine finger; other site 946483000891 Peptidase family M41; Region: Peptidase_M41; pfam01434 946483000892 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 946483000893 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 946483000894 S-adenosylmethionine binding site [chemical binding]; other site 946483000895 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 946483000896 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 946483000897 active site 946483000898 (T/H)XGH motif; other site 946483000899 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 946483000900 Ligand Binding Site [chemical binding]; other site 946483000901 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 946483000902 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 946483000903 TPP-binding site [chemical binding]; other site 946483000904 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 946483000905 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 946483000906 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 946483000907 E3 interaction surface; other site 946483000908 lipoyl attachment site [posttranslational modification]; other site 946483000909 e3 binding domain; Region: E3_binding; pfam02817 946483000910 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 946483000911 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 946483000912 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 946483000913 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 946483000914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 946483000915 Predicted ATPase [General function prediction only]; Region: COG1485 946483000916 thiamine monophosphate kinase; Provisional; Region: PRK05731 946483000917 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 946483000918 ATP binding site [chemical binding]; other site 946483000919 dimerization interface [polypeptide binding]; other site 946483000920 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 946483000921 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 946483000922 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 946483000923 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 946483000924 active site 946483000925 dimerization interface [polypeptide binding]; other site 946483000926 serine O-acetyltransferase; Region: cysE; TIGR01172 946483000927 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 946483000928 trimer interface [polypeptide binding]; other site 946483000929 active site 946483000930 substrate binding site [chemical binding]; other site 946483000931 CoA binding site [chemical binding]; other site 946483000932 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 946483000933 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 946483000934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 946483000935 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 946483000936 DNA binding residues [nucleotide binding] 946483000937 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 946483000938 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 946483000939 active site 946483000940 nucleotide binding site [chemical binding]; other site 946483000941 HIGH motif; other site 946483000942 KMSKS motif; other site 946483000943 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483000944 putative glutathione S-transferase; Provisional; Region: PRK10357 946483000945 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 946483000946 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 946483000947 dimer interface [polypeptide binding]; other site 946483000948 N-terminal domain interface [polypeptide binding]; other site 946483000949 putative substrate binding pocket (H-site) [chemical binding]; other site 946483000950 adenylosuccinate lyase; Provisional; Region: PRK09285 946483000951 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 946483000952 tetramer interface [polypeptide binding]; other site 946483000953 active site 946483000954 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 946483000955 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 946483000956 amidase catalytic site [active] 946483000957 Zn binding residues [ion binding]; other site 946483000958 substrate binding site [chemical binding]; other site 946483000959 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 946483000960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483000961 active site 946483000962 phosphorylation site [posttranslational modification] 946483000963 intermolecular recognition site; other site 946483000964 dimerization interface [polypeptide binding]; other site 946483000965 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 946483000966 Walker A motif; other site 946483000967 ATP binding site [chemical binding]; other site 946483000968 Walker B motif; other site 946483000969 arginine finger; other site 946483000970 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 946483000971 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 946483000972 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 946483000973 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 946483000974 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 946483000975 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 946483000976 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 946483000977 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 946483000978 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 946483000979 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 946483000980 active site 946483000981 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 946483000982 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 946483000983 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 946483000984 FeS/SAM binding site; other site 946483000985 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 946483000986 Flagellar transcriptional activator (FlhC); Region: FlhC; pfam05280 946483000987 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 946483000988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483000989 active site 946483000990 phosphorylation site [posttranslational modification] 946483000991 intermolecular recognition site; other site 946483000992 dimerization interface [polypeptide binding]; other site 946483000993 CheB methylesterase; Region: CheB_methylest; pfam01339 946483000994 CheD chemotactic sensory transduction; Region: CheD; cl00810 946483000995 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 946483000996 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483000997 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483000998 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483000999 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483001000 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 946483001001 dimerization interface [polypeptide binding]; other site 946483001002 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483001003 dimer interface [polypeptide binding]; other site 946483001004 putative CheW interface [polypeptide binding]; other site 946483001005 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483001006 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 946483001007 dimerization interface [polypeptide binding]; other site 946483001008 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483001009 dimer interface [polypeptide binding]; other site 946483001010 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483001011 putative CheW interface [polypeptide binding]; other site 946483001012 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 946483001013 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483001014 HAMP domain; Region: HAMP; pfam00672 946483001015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483001016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483001017 dimer interface [polypeptide binding]; other site 946483001018 putative CheW interface [polypeptide binding]; other site 946483001019 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 946483001020 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 946483001021 putative binding surface; other site 946483001022 active site 946483001023 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 946483001024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001025 ATP binding site [chemical binding]; other site 946483001026 Mg2+ binding site [ion binding]; other site 946483001027 G-X-G motif; other site 946483001028 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 946483001029 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 946483001030 anti sigma factor interaction site; other site 946483001031 regulatory phosphorylation site [posttranslational modification]; other site 946483001032 Response regulator receiver domain; Region: Response_reg; pfam00072 946483001033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001034 active site 946483001035 phosphorylation site [posttranslational modification] 946483001036 intermolecular recognition site; other site 946483001037 dimerization interface [polypeptide binding]; other site 946483001038 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483001039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483001040 dimer interface [polypeptide binding]; other site 946483001041 putative CheW interface [polypeptide binding]; other site 946483001042 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 946483001043 Bacterial sugar transferase; Region: Bac_transf; pfam02397 946483001044 glutamate racemase; Provisional; Region: PRK00865 946483001045 putative fumarate hydratase; Provisional; Region: PRK15392 946483001046 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 946483001047 Fumarase C-terminus; Region: Fumerase_C; pfam05683 946483001048 hypothetical protein; Provisional; Region: PRK05208 946483001049 Cytochrome c; Region: Cytochrom_C; cl11414 946483001050 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 946483001051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001052 active site 946483001053 phosphorylation site [posttranslational modification] 946483001054 intermolecular recognition site; other site 946483001055 dimerization interface [polypeptide binding]; other site 946483001056 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001058 metal binding site [ion binding]; metal-binding site 946483001059 active site 946483001060 I-site; other site 946483001061 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 946483001062 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 946483001063 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 946483001064 FeS/SAM binding site; other site 946483001065 TRAM domain; Region: TRAM; pfam01938 946483001066 PAS domain S-box; Region: sensory_box; TIGR00229 946483001067 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 946483001068 putative active site [active] 946483001069 heme pocket [chemical binding]; other site 946483001070 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 946483001071 PAS domain; Region: PAS_9; pfam13426 946483001072 putative active site [active] 946483001073 heme pocket [chemical binding]; other site 946483001074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001076 metal binding site [ion binding]; metal-binding site 946483001077 active site 946483001078 I-site; other site 946483001079 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 946483001080 MASE1; Region: MASE1; pfam05231 946483001081 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483001082 PAS domain S-box; Region: sensory_box; TIGR00229 946483001083 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 946483001084 putative active site [active] 946483001085 heme pocket [chemical binding]; other site 946483001086 PAS fold; Region: PAS_3; pfam08447 946483001087 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 946483001088 putative active site [active] 946483001089 heme pocket [chemical binding]; other site 946483001090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001092 metal binding site [ion binding]; metal-binding site 946483001093 active site 946483001094 I-site; other site 946483001095 Sporulation related domain; Region: SPOR; pfam05036 946483001096 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 946483001097 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 946483001098 FMN binding site [chemical binding]; other site 946483001099 active site 946483001100 catalytic residues [active] 946483001101 substrate binding site [chemical binding]; other site 946483001102 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 946483001103 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 946483001104 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 946483001105 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 946483001106 putative active site [active] 946483001107 putative catalytic site [active] 946483001108 putative DNA binding site [nucleotide binding]; other site 946483001109 putative phosphate binding site [ion binding]; other site 946483001110 metal binding site A [ion binding]; metal-binding site 946483001111 putative AP binding site [nucleotide binding]; other site 946483001112 putative metal binding site B [ion binding]; other site 946483001113 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 946483001114 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 946483001115 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 946483001116 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 946483001117 DXD motif; other site 946483001118 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 946483001119 binding surface 946483001120 TPR motif; other site 946483001121 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483001122 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 946483001123 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 946483001124 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 946483001125 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 946483001126 Nitrogen regulatory protein P-II; Region: P-II; smart00938 946483001127 NAD synthetase; Provisional; Region: PRK13981 946483001128 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 946483001129 multimer interface [polypeptide binding]; other site 946483001130 active site 946483001131 catalytic triad [active] 946483001132 protein interface 1 [polypeptide binding]; other site 946483001133 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 946483001134 homodimer interface [polypeptide binding]; other site 946483001135 NAD binding pocket [chemical binding]; other site 946483001136 ATP binding pocket [chemical binding]; other site 946483001137 Mg binding site [ion binding]; other site 946483001138 active-site loop [active] 946483001139 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483001140 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 946483001141 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 946483001142 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 946483001143 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483001144 catalytic residue [active] 946483001145 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 946483001146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483001147 active site 946483001148 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 946483001149 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 946483001150 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 946483001151 GatB domain; Region: GatB_Yqey; smart00845 946483001152 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 946483001153 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 946483001154 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 946483001155 rod shape-determining protein MreB; Provisional; Region: PRK13927 946483001156 MreB and similar proteins; Region: MreB_like; cd10225 946483001157 nucleotide binding site [chemical binding]; other site 946483001158 Mg binding site [ion binding]; other site 946483001159 putative protofilament interaction site [polypeptide binding]; other site 946483001160 RodZ interaction site [polypeptide binding]; other site 946483001161 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 946483001162 rod shape-determining protein MreC; Region: MreC; pfam04085 946483001163 rod shape-determining protein MreD; Region: MreD; cl01087 946483001164 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 946483001165 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 946483001166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 946483001167 Creatinine amidohydrolase; Region: Creatininase; pfam02633 946483001168 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 946483001169 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 946483001170 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 946483001171 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 946483001172 S17 interaction site [polypeptide binding]; other site 946483001173 S8 interaction site; other site 946483001174 16S rRNA interaction site [nucleotide binding]; other site 946483001175 streptomycin interaction site [chemical binding]; other site 946483001176 23S rRNA interaction site [nucleotide binding]; other site 946483001177 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 946483001178 30S ribosomal protein S7; Validated; Region: PRK05302 946483001179 elongation factor G; Reviewed; Region: PRK00007 946483001180 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 946483001181 G1 box; other site 946483001182 putative GEF interaction site [polypeptide binding]; other site 946483001183 GTP/Mg2+ binding site [chemical binding]; other site 946483001184 Switch I region; other site 946483001185 G2 box; other site 946483001186 G3 box; other site 946483001187 Switch II region; other site 946483001188 G4 box; other site 946483001189 G5 box; other site 946483001190 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 946483001191 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 946483001192 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 946483001193 elongation factor Tu; Reviewed; Region: PRK00049 946483001194 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 946483001195 G1 box; other site 946483001196 GEF interaction site [polypeptide binding]; other site 946483001197 GTP/Mg2+ binding site [chemical binding]; other site 946483001198 Switch I region; other site 946483001199 G2 box; other site 946483001200 G3 box; other site 946483001201 Switch II region; other site 946483001202 G4 box; other site 946483001203 G5 box; other site 946483001204 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 946483001205 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 946483001206 Antibiotic Binding Site [chemical binding]; other site 946483001207 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 946483001208 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 946483001209 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 946483001210 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 946483001211 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 946483001212 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 946483001213 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 946483001214 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 946483001215 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 946483001216 putative translocon binding site; other site 946483001217 protein-rRNA interface [nucleotide binding]; other site 946483001218 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 946483001219 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 946483001220 G-X-X-G motif; other site 946483001221 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 946483001222 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 946483001223 23S rRNA interface [nucleotide binding]; other site 946483001224 5S rRNA interface [nucleotide binding]; other site 946483001225 putative antibiotic binding site [chemical binding]; other site 946483001226 L25 interface [polypeptide binding]; other site 946483001227 L27 interface [polypeptide binding]; other site 946483001228 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 946483001229 putative translocon interaction site; other site 946483001230 23S rRNA interface [nucleotide binding]; other site 946483001231 signal recognition particle (SRP54) interaction site; other site 946483001232 L23 interface [polypeptide binding]; other site 946483001233 trigger factor interaction site; other site 946483001234 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 946483001235 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 946483001236 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 946483001237 ATP binding site [chemical binding]; other site 946483001238 putative Mg++ binding site [ion binding]; other site 946483001239 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 946483001240 nucleotide binding region [chemical binding]; other site 946483001241 ATP-binding site [chemical binding]; other site 946483001242 Helicase associated domain (HA2); Region: HA2; pfam04408 946483001243 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 946483001244 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 946483001245 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 946483001246 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483001247 active site 946483001248 HIGH motif; other site 946483001249 nucleotide binding site [chemical binding]; other site 946483001250 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483001251 active site 946483001252 KMSKS motif; other site 946483001253 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 946483001254 HDOD domain; Region: HDOD; pfam08668 946483001255 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483001256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 946483001257 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 946483001258 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 946483001259 FAD binding domain; Region: FAD_binding_4; pfam01565 946483001260 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 946483001261 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 946483001262 motif 1; other site 946483001263 dimer interface [polypeptide binding]; other site 946483001264 active site 946483001265 motif 2; other site 946483001266 motif 3; other site 946483001267 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 946483001268 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 946483001269 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 946483001270 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 946483001271 active site 946483001272 motif I; other site 946483001273 motif II; other site 946483001274 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 946483001275 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 946483001276 putative acyl-acceptor binding pocket; other site 946483001277 Protein of unknown function DUF45; Region: DUF45; pfam01863 946483001278 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 946483001279 Ligand Binding Site [chemical binding]; other site 946483001280 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 946483001281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 946483001282 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 946483001283 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 946483001284 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 946483001285 TPP-binding site [chemical binding]; other site 946483001286 putative dimer interface [polypeptide binding]; other site 946483001287 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 946483001288 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 946483001289 dimer interface [polypeptide binding]; other site 946483001290 PYR/PP interface [polypeptide binding]; other site 946483001291 TPP binding site [chemical binding]; other site 946483001292 substrate binding site [chemical binding]; other site 946483001293 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 946483001294 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 946483001295 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 946483001296 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 946483001297 Beta-lactamase; Region: Beta-lactamase; pfam00144 946483001298 Septum formation topological specificity factor MinE; Region: MinE; cl00538 946483001299 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 946483001300 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 946483001301 Switch I; other site 946483001302 Switch II; other site 946483001303 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 946483001304 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483001305 active site 946483001306 HIGH motif; other site 946483001307 nucleotide binding site [chemical binding]; other site 946483001308 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 946483001309 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 946483001310 active site 946483001311 KMSKS motif; other site 946483001312 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 946483001313 tRNA binding surface [nucleotide binding]; other site 946483001314 anticodon binding site; other site 946483001315 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 946483001316 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 946483001317 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 946483001318 putative metal binding site; other site 946483001319 translocation protein TolB; Provisional; Region: tolB; PRK02889 946483001320 TolB amino-terminal domain; Region: TolB_N; pfam04052 946483001321 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 946483001322 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 946483001323 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 946483001324 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 946483001325 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 946483001326 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 946483001327 ligand binding site [chemical binding]; other site 946483001328 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 946483001329 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 946483001330 binding surface 946483001331 TPR motif; other site 946483001332 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 946483001333 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 946483001334 ATP binding site [chemical binding]; other site 946483001335 substrate interface [chemical binding]; other site 946483001336 Protein of unknown function, DUF486; Region: DUF486; cl01236 946483001337 N-acetylglutamate synthase; Validated; Region: PRK05279 946483001338 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 946483001339 putative feedback inhibition sensing region; other site 946483001340 putative nucleotide binding site [chemical binding]; other site 946483001341 putative substrate binding site [chemical binding]; other site 946483001342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 946483001343 Coenzyme A binding pocket [chemical binding]; other site 946483001344 ferrochelatase; Reviewed; Region: hemH; PRK00035 946483001345 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 946483001346 C-terminal domain interface [polypeptide binding]; other site 946483001347 active site 946483001348 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 946483001349 active site 946483001350 N-terminal domain interface [polypeptide binding]; other site 946483001351 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 946483001352 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 946483001353 homodimer interface [polypeptide binding]; other site 946483001354 substrate-cofactor binding pocket; other site 946483001355 catalytic residue [active] 946483001356 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 946483001357 EF-hand domain pair; Region: EF_hand_5; pfam13499 946483001358 Ca2+ binding site [ion binding]; other site 946483001359 Protein of unknown function (DUF808); Region: DUF808; cl01002 946483001360 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 946483001361 HDOD domain; Region: HDOD; pfam08668 946483001362 Response regulator receiver domain; Region: Response_reg; pfam00072 946483001363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001364 active site 946483001365 phosphorylation site [posttranslational modification] 946483001366 intermolecular recognition site; other site 946483001367 dimerization interface [polypeptide binding]; other site 946483001368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483001369 Zn2+ binding site [ion binding]; other site 946483001370 Mg2+ binding site [ion binding]; other site 946483001371 GAF domain; Region: GAF_2; pfam13185 946483001372 GAF domain; Region: GAF; pfam01590 946483001373 PAS domain S-box; Region: sensory_box; TIGR00229 946483001374 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 946483001375 putative active site [active] 946483001376 heme pocket [chemical binding]; other site 946483001377 PAS domain; Region: PAS; smart00091 946483001378 PAS fold; Region: PAS_4; pfam08448 946483001379 putative active site [active] 946483001380 heme pocket [chemical binding]; other site 946483001381 GAF domain; Region: GAF_2; pfam13185 946483001382 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 946483001383 dimer interface [polypeptide binding]; other site 946483001384 phosphorylation site [posttranslational modification] 946483001385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001386 ATP binding site [chemical binding]; other site 946483001387 Mg2+ binding site [ion binding]; other site 946483001388 G-X-G motif; other site 946483001389 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 946483001390 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 946483001391 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 946483001392 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 946483001393 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 946483001394 PAS domain; Region: PAS_9; pfam13426 946483001395 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483001396 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 946483001397 dimer interface [polypeptide binding]; other site 946483001398 phosphorylation site [posttranslational modification] 946483001399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001400 ATP binding site [chemical binding]; other site 946483001401 Mg2+ binding site [ion binding]; other site 946483001402 G-X-G motif; other site 946483001403 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 946483001404 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483001405 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483001406 Zn2+ binding site [ion binding]; other site 946483001407 Mg2+ binding site [ion binding]; other site 946483001408 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 946483001409 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 946483001410 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 946483001411 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 946483001412 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 946483001413 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 946483001414 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 946483001415 motif II; other site 946483001416 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 946483001417 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 946483001418 dimer interface [polypeptide binding]; other site 946483001419 active site 946483001420 heme binding site [chemical binding]; other site 946483001421 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 946483001422 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB-like; cd09875 946483001423 putative active site [active] 946483001424 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 946483001425 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 946483001426 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 946483001427 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 946483001428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001429 Walker A/P-loop; other site 946483001430 ATP binding site [chemical binding]; other site 946483001431 Q-loop/lid; other site 946483001432 ABC transporter signature motif; other site 946483001433 Walker B; other site 946483001434 D-loop; other site 946483001435 H-loop/switch region; other site 946483001436 ABC transporter; Region: ABC_tran_2; pfam12848 946483001437 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 946483001438 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 946483001439 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 946483001440 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 946483001441 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 946483001442 ATP binding site [chemical binding]; other site 946483001443 putative Mg++ binding site [ion binding]; other site 946483001444 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 946483001445 nucleotide binding region [chemical binding]; other site 946483001446 ATP-binding site [chemical binding]; other site 946483001447 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 946483001448 Protein export membrane protein; Region: SecD_SecF; cl14618 946483001449 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 946483001450 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483001451 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483001452 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 946483001453 Transposase domain (DUF772); Region: DUF772; pfam05598 946483001454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483001455 oxidative damage protection protein; Provisional; Region: PRK05408 946483001456 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 946483001457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001458 ATP binding site [chemical binding]; other site 946483001459 Mg2+ binding site [ion binding]; other site 946483001460 G-X-G motif; other site 946483001461 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 946483001462 ATP binding site [chemical binding]; other site 946483001463 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 946483001464 intracellular septation protein A; Reviewed; Region: PRK00259 946483001465 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 946483001466 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 946483001467 active site 946483001468 DNA binding site [nucleotide binding] 946483001469 Int/Topo IB signature motif; other site 946483001470 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 946483001471 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483001472 putative transposase OrfB; Reviewed; Region: PHA02517 946483001473 HTH-like domain; Region: HTH_21; pfam13276 946483001474 Integrase core domain; Region: rve; pfam00665 946483001475 Integrase core domain; Region: rve_3; pfam13683 946483001476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 946483001477 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 946483001478 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 946483001479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483001480 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 946483001481 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 946483001482 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 946483001483 non-specific DNA binding site [nucleotide binding]; other site 946483001484 salt bridge; other site 946483001485 sequence-specific DNA binding site [nucleotide binding]; other site 946483001486 HipA-like N-terminal domain; Region: HipA_N; pfam07805 946483001487 HipA-like C-terminal domain; Region: HipA_C; pfam07804 946483001488 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 946483001489 non-specific DNA binding site [nucleotide binding]; other site 946483001490 salt bridge; other site 946483001491 sequence-specific DNA binding site [nucleotide binding]; other site 946483001492 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 946483001493 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 946483001494 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 946483001495 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 946483001496 active site 946483001497 homodimer interface [polypeptide binding]; other site 946483001498 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 946483001499 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 946483001500 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 946483001501 PIN domain; Region: PIN_3; pfam13470 946483001502 Helix-turn-helix domain; Region: HTH_17; cl17695 946483001503 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 946483001504 hypothetical protein; Provisional; Region: PRK09956 946483001505 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 946483001506 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 946483001507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483001508 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 946483001509 putative glycosyl transferase; Provisional; Region: PRK10307 946483001510 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 946483001511 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 946483001512 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 946483001513 active site 946483001514 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 946483001515 homodimer interface [polypeptide binding]; other site 946483001516 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 946483001517 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 946483001518 putative NAD(P) binding site [chemical binding]; other site 946483001519 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 946483001520 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 946483001521 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 946483001522 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 946483001523 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 946483001524 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 946483001525 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 946483001526 active site 946483001527 dimer interface [polypeptide binding]; other site 946483001528 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 946483001529 Ligand Binding Site [chemical binding]; other site 946483001530 Molecular Tunnel; other site 946483001531 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 946483001532 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 946483001533 putative metal binding site; other site 946483001534 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483001535 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 946483001536 S-adenosylmethionine binding site [chemical binding]; other site 946483001537 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 946483001538 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483001539 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 946483001540 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 946483001541 active site 946483001542 dimer interface [polypeptide binding]; other site 946483001543 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 946483001544 Ligand Binding Site [chemical binding]; other site 946483001545 Molecular Tunnel; other site 946483001546 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 946483001547 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 946483001548 active site 946483001549 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 946483001550 GDP-Fucose binding site [chemical binding]; other site 946483001551 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 946483001552 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483001553 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 946483001554 trimer interface [polypeptide binding]; other site 946483001555 active site 946483001556 substrate binding site [chemical binding]; other site 946483001557 CoA binding site [chemical binding]; other site 946483001558 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 946483001559 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 946483001560 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483001561 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 946483001562 putative NAD(P) binding site [chemical binding]; other site 946483001563 active site 946483001564 putative substrate binding site [chemical binding]; other site 946483001565 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 946483001566 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 946483001567 non-specific DNA binding site [nucleotide binding]; other site 946483001568 salt bridge; other site 946483001569 sequence-specific DNA binding site [nucleotide binding]; other site 946483001570 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 946483001571 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 946483001572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001573 Walker A/P-loop; other site 946483001574 ATP binding site [chemical binding]; other site 946483001575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483001576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483001577 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483001578 hypothetical protein; Provisional; Region: PRK09956 946483001579 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 946483001580 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 946483001581 AAA domain; Region: AAA_21; pfam13304 946483001582 RloB-like protein; Region: RloB; pfam13707 946483001583 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 946483001584 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 946483001585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483001586 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 946483001587 dimer interface [polypeptide binding]; other site 946483001588 phosphorylation site [posttranslational modification] 946483001589 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001590 ATP binding site [chemical binding]; other site 946483001591 Mg2+ binding site [ion binding]; other site 946483001592 G-X-G motif; other site 946483001593 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483001594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001595 active site 946483001596 phosphorylation site [posttranslational modification] 946483001597 intermolecular recognition site; other site 946483001598 dimerization interface [polypeptide binding]; other site 946483001599 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483001600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001601 active site 946483001602 phosphorylation site [posttranslational modification] 946483001603 intermolecular recognition site; other site 946483001604 dimerization interface [polypeptide binding]; other site 946483001605 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 946483001606 putative binding surface; other site 946483001607 active site 946483001608 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 946483001609 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 946483001610 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 946483001611 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 946483001612 NAD binding site [chemical binding]; other site 946483001613 substrate binding site [chemical binding]; other site 946483001614 homodimer interface [polypeptide binding]; other site 946483001615 active site 946483001616 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 946483001617 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 946483001618 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 946483001619 Predicted flavoprotein [General function prediction only]; Region: COG0431 946483001620 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 946483001621 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 946483001622 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 946483001623 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 946483001624 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 946483001625 HDOD domain; Region: HDOD; pfam08668 946483001626 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 946483001627 DNA repair protein RadA; Provisional; Region: PRK11823 946483001628 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 946483001629 Walker A motif/ATP binding site; other site 946483001630 ATP binding site [chemical binding]; other site 946483001631 Walker B motif; other site 946483001632 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 946483001633 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 946483001634 PGAP1-like protein; Region: PGAP1; pfam07819 946483001635 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 946483001636 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 946483001637 PAS domain; Region: PAS_9; pfam13426 946483001638 putative active site [active] 946483001639 heme pocket [chemical binding]; other site 946483001640 PAS domain; Region: PAS_9; pfam13426 946483001641 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 946483001642 putative active site [active] 946483001643 heme pocket [chemical binding]; other site 946483001644 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483001645 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 946483001646 putative active site [active] 946483001647 heme pocket [chemical binding]; other site 946483001648 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 946483001649 dimer interface [polypeptide binding]; other site 946483001650 phosphorylation site [posttranslational modification] 946483001651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001652 ATP binding site [chemical binding]; other site 946483001653 Mg2+ binding site [ion binding]; other site 946483001654 G-X-G motif; other site 946483001655 Response regulator receiver domain; Region: Response_reg; pfam00072 946483001656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001657 active site 946483001658 phosphorylation site [posttranslational modification] 946483001659 intermolecular recognition site; other site 946483001660 dimerization interface [polypeptide binding]; other site 946483001661 Response regulator receiver domain; Region: Response_reg; pfam00072 946483001662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483001663 active site 946483001664 phosphorylation site [posttranslational modification] 946483001665 intermolecular recognition site; other site 946483001666 dimerization interface [polypeptide binding]; other site 946483001667 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 946483001668 putative binding surface; other site 946483001669 active site 946483001670 salicylate hydroxylase; Provisional; Region: PRK08163 946483001671 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 946483001672 mce related protein; Region: MCE; pfam02470 946483001673 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 946483001674 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483001675 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483001676 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 946483001677 Protein export membrane protein; Region: SecD_SecF; cl14618 946483001678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 946483001679 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 946483001680 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; cl00846 946483001681 putative homodimer interface [polypeptide binding]; other site 946483001682 putative homotetramer interface [polypeptide binding]; other site 946483001683 putative allosteric switch controlling residues; other site 946483001684 putative metal binding site [ion binding]; other site 946483001685 putative homodimer-homodimer interface [polypeptide binding]; other site 946483001686 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 946483001687 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 946483001688 CHASE3 domain; Region: CHASE3; pfam05227 946483001689 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 946483001690 dimerization interface [polypeptide binding]; other site 946483001691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001693 metal binding site [ion binding]; metal-binding site 946483001694 active site 946483001695 I-site; other site 946483001696 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 946483001697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 946483001698 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 946483001699 ABC transporter; Region: ABC_tran_2; pfam12848 946483001700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001701 Walker A/P-loop; other site 946483001702 ATP binding site [chemical binding]; other site 946483001703 Q-loop/lid; other site 946483001704 Walker B; other site 946483001705 D-loop; other site 946483001706 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 946483001707 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 946483001708 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 946483001709 S-adenosylmethionine binding site [chemical binding]; other site 946483001710 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 946483001711 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 946483001712 metal binding site [ion binding]; metal-binding site 946483001713 dimer interface [polypeptide binding]; other site 946483001714 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 946483001715 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 946483001716 Walker A motif; other site 946483001717 ATP binding site [chemical binding]; other site 946483001718 Walker B motif; other site 946483001719 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 946483001720 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 946483001721 active site 946483001722 substrate binding site [chemical binding]; other site 946483001723 trimer interface [polypeptide binding]; other site 946483001724 CoA binding site [chemical binding]; other site 946483001725 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 946483001726 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 946483001727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483001728 homodimer interface [polypeptide binding]; other site 946483001729 catalytic residue [active] 946483001730 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483001731 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 946483001732 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 946483001733 active site 946483001734 Riboflavin kinase; Region: Flavokinase; smart00904 946483001735 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 946483001736 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483001737 active site 946483001738 HIGH motif; other site 946483001739 nucleotide binding site [chemical binding]; other site 946483001740 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 946483001741 active site 946483001742 KMSKS motif; other site 946483001743 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 946483001744 tRNA binding surface [nucleotide binding]; other site 946483001745 anticodon binding site; other site 946483001746 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 946483001747 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 946483001748 lipoprotein signal peptidase; Provisional; Region: PRK14787 946483001749 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 946483001750 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 946483001751 trimer interface [polypeptide binding]; other site 946483001752 eyelet of channel; other site 946483001753 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 946483001754 active site 946483001755 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 946483001756 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 946483001757 catalytic loop [active] 946483001758 iron binding site [ion binding]; other site 946483001759 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 946483001760 FAD binding pocket [chemical binding]; other site 946483001761 FAD binding motif [chemical binding]; other site 946483001762 phosphate binding motif [ion binding]; other site 946483001763 beta-alpha-beta structure motif; other site 946483001764 NAD binding pocket [chemical binding]; other site 946483001765 anthranilate synthase component I; Provisional; Region: PRK13565 946483001766 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 946483001767 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 946483001768 Uncharacterized conserved protein [Function unknown]; Region: COG1565 946483001769 short chain dehydrogenase; Provisional; Region: PRK09134 946483001770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483001771 NAD(P) binding site [chemical binding]; other site 946483001772 active site 946483001773 Dihydroneopterin aldolase; Region: FolB; smart00905 946483001774 active site 946483001775 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 946483001776 AAA domain; Region: AAA_22; pfam13401 946483001777 AAA domain; Region: AAA_22; pfam13401 946483001778 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 946483001779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 946483001780 FtsX-like permease family; Region: FtsX; pfam02687 946483001781 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 946483001782 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 946483001783 Walker A/P-loop; other site 946483001784 ATP binding site [chemical binding]; other site 946483001785 Q-loop/lid; other site 946483001786 ABC transporter signature motif; other site 946483001787 Walker B; other site 946483001788 D-loop; other site 946483001789 H-loop/switch region; other site 946483001790 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 946483001791 active site 946483001792 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 946483001793 PLD-like domain; Region: PLDc_2; pfam13091 946483001794 putative homodimer interface [polypeptide binding]; other site 946483001795 putative active site [active] 946483001796 catalytic site [active] 946483001797 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483001798 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 946483001799 putative Mg++ binding site [ion binding]; other site 946483001800 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 946483001801 nucleotide binding region [chemical binding]; other site 946483001802 ATP-binding site [chemical binding]; other site 946483001803 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 946483001804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001805 AAA domain; Region: AAA_21; pfam13304 946483001806 Walker A/P-loop; other site 946483001807 ATP binding site [chemical binding]; other site 946483001808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001809 Walker B; other site 946483001810 D-loop; other site 946483001811 H-loop/switch region; other site 946483001812 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 946483001813 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 946483001814 EAL domain; Region: EAL; pfam00563 946483001815 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 946483001816 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 946483001817 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 946483001818 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 946483001819 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 946483001820 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 946483001821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001822 Q-loop/lid; other site 946483001823 ABC transporter signature motif; other site 946483001824 Walker B; other site 946483001825 D-loop; other site 946483001826 H-loop/switch region; other site 946483001827 ABC-2 type transporter; Region: ABC2_membrane; cl17235 946483001828 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 946483001829 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 946483001830 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 946483001831 hinge; other site 946483001832 active site 946483001833 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 946483001834 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 946483001835 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 946483001836 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 946483001837 NAD binding site [chemical binding]; other site 946483001838 dimerization interface [polypeptide binding]; other site 946483001839 product binding site; other site 946483001840 substrate binding site [chemical binding]; other site 946483001841 zinc binding site [ion binding]; other site 946483001842 catalytic residues [active] 946483001843 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 946483001844 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 946483001845 classical (c) SDRs; Region: SDR_c; cd05233 946483001846 NAD(P) binding site [chemical binding]; other site 946483001847 active site 946483001848 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 946483001849 non-specific DNA binding site [nucleotide binding]; other site 946483001850 salt bridge; other site 946483001851 sequence-specific DNA binding site [nucleotide binding]; other site 946483001852 HipA N-terminal domain; Region: Couple_hipA; pfam13657 946483001853 HipA-like N-terminal domain; Region: HipA_N; pfam07805 946483001854 HipA-like C-terminal domain; Region: HipA_C; pfam07804 946483001855 Uncharacterized conserved protein [Function unknown]; Region: COG3287 946483001856 FIST N domain; Region: FIST; pfam08495 946483001857 FIST C domain; Region: FIST_C; pfam10442 946483001858 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483001859 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483001860 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483001861 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 946483001862 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 946483001863 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483001864 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483001865 mobile mystery protein A; Region: mob_myst_A; TIGR02612 946483001866 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 946483001867 non-specific DNA binding site [nucleotide binding]; other site 946483001868 salt bridge; other site 946483001869 sequence-specific DNA binding site [nucleotide binding]; other site 946483001870 mobile mystery protein B; Region: mob_myst_B; TIGR02613 946483001871 Fic/DOC family; Region: Fic; pfam02661 946483001872 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 946483001873 putative active site [active] 946483001874 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_22; cd08359 946483001875 putative dimer interface [polypeptide binding]; other site 946483001876 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 946483001877 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 946483001878 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 946483001879 PhoH-like protein; Region: PhoH; pfam02562 946483001880 CcmE; Region: CcmE; pfam03100 946483001881 FtsJ-like methyltransferase; Region: FtsJ; cl17430 946483001882 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 946483001883 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 946483001884 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 946483001885 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 946483001886 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 946483001887 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 946483001888 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 946483001889 putative active site [active] 946483001890 catalytic triad [active] 946483001891 putative dimer interface [polypeptide binding]; other site 946483001892 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 946483001893 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 946483001894 Transporter associated domain; Region: CorC_HlyC; smart01091 946483001895 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 946483001896 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 946483001897 putative active site [active] 946483001898 putative metal binding site [ion binding]; other site 946483001899 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 946483001900 substrate binding site [chemical binding]; other site 946483001901 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 946483001902 TPR repeat; Region: TPR_11; pfam13414 946483001903 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 946483001904 binding surface 946483001905 TPR motif; other site 946483001906 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 946483001907 SnoaL-like domain; Region: SnoaL_3; pfam13474 946483001908 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 946483001909 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 946483001910 active site 946483001911 HIGH motif; other site 946483001912 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 946483001913 KMSKS motif; other site 946483001914 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 946483001915 tRNA binding surface [nucleotide binding]; other site 946483001916 anticodon binding site; other site 946483001917 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 946483001918 endonuclease III; Region: ENDO3c; smart00478 946483001919 minor groove reading motif; other site 946483001920 helix-hairpin-helix signature motif; other site 946483001921 substrate binding pocket [chemical binding]; other site 946483001922 active site 946483001923 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 946483001924 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 946483001925 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 946483001926 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 946483001927 TilS substrate binding domain; Region: TilS; pfam09179 946483001928 aspartate kinase; Reviewed; Region: PRK06635 946483001929 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 946483001930 putative Mg ion binding site [ion binding]; other site 946483001931 putative aspartate binding site [chemical binding]; other site 946483001932 putative catalytic residues [active] 946483001933 putative nucleotide binding site [chemical binding]; other site 946483001934 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 946483001935 putative allosteric regulatory site; other site 946483001936 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 946483001937 Barstar (barnase inhibitor); Region: Barstar; pfam01337 946483001938 RNAase interaction site [polypeptide binding]; other site 946483001939 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 946483001940 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 946483001941 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 946483001942 SurA N-terminal domain; Region: SurA_N; pfam09312 946483001943 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 946483001944 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 946483001945 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 946483001946 Organic solvent tolerance protein; Region: OstA_C; pfam04453 946483001947 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 946483001948 Phosphotransferase enzyme family; Region: APH; pfam01636 946483001949 Flavodoxin domain; Region: Flavodoxin_5; cl17428 946483001950 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 946483001951 putative active site [active] 946483001952 Zn binding site [ion binding]; other site 946483001953 SprA-related family; Region: SprA-related; pfam12118 946483001954 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 946483001955 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 946483001956 ligand binding site [chemical binding]; other site 946483001957 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 946483001958 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 946483001959 PAS fold; Region: PAS_3; pfam08447 946483001960 putative active site [active] 946483001961 heme pocket [chemical binding]; other site 946483001962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001964 metal binding site [ion binding]; metal-binding site 946483001965 active site 946483001966 I-site; other site 946483001967 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 946483001968 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 946483001969 Substrate binding site; other site 946483001970 Mg++ binding site; other site 946483001971 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 946483001972 active site 946483001973 substrate binding site [chemical binding]; other site 946483001974 CoA binding site [chemical binding]; other site 946483001975 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 946483001976 dimer interface [polypeptide binding]; other site 946483001977 phosphorylation site [posttranslational modification] 946483001978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483001979 ATP binding site [chemical binding]; other site 946483001980 Mg2+ binding site [ion binding]; other site 946483001981 G-X-G motif; other site 946483001982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483001983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483001984 metal binding site [ion binding]; metal-binding site 946483001985 active site 946483001986 I-site; other site 946483001987 HNH nucleases; Region: HNHc; smart00507 946483001988 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 946483001989 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 946483001990 active site 946483001991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483001992 Walker A/P-loop; other site 946483001993 ATP binding site [chemical binding]; other site 946483001994 AAA domain; Region: AAA_21; pfam13304 946483001995 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 946483001996 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 946483001997 glutaminase active site [active] 946483001998 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 946483001999 dimer interface [polypeptide binding]; other site 946483002000 active site 946483002001 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 946483002002 dimer interface [polypeptide binding]; other site 946483002003 active site 946483002004 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 946483002005 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 946483002006 dimer interface [polypeptide binding]; other site 946483002007 active site 946483002008 metal binding site [ion binding]; metal-binding site 946483002009 ribonuclease G; Provisional; Region: PRK11712 946483002010 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 946483002011 homodimer interface [polypeptide binding]; other site 946483002012 oligonucleotide binding site [chemical binding]; other site 946483002013 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 946483002014 dimerization interface [polypeptide binding]; other site 946483002015 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 946483002016 ATP binding site [chemical binding]; other site 946483002017 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 946483002018 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 946483002019 HupF/HypC family; Region: HupF_HypC; pfam01455 946483002020 Acylphosphatase; Region: Acylphosphatase; pfam00708 946483002021 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 946483002022 HypF finger; Region: zf-HYPF; pfam07503 946483002023 HypF finger; Region: zf-HYPF; pfam07503 946483002024 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 946483002025 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 946483002026 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 946483002027 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 946483002028 gating phenylalanine in ion channel; other site 946483002029 trigger factor; Provisional; Region: tig; PRK01490 946483002030 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 946483002031 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 946483002032 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 946483002033 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 946483002034 oligomer interface [polypeptide binding]; other site 946483002035 active site residues [active] 946483002036 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 946483002037 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 946483002038 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 946483002039 Walker A motif; other site 946483002040 ATP binding site [chemical binding]; other site 946483002041 Walker B motif; other site 946483002042 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 946483002043 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 946483002044 Found in ATP-dependent protease La (LON); Region: LON; smart00464 946483002045 Found in ATP-dependent protease La (LON); Region: LON; smart00464 946483002046 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 946483002047 Walker A motif; other site 946483002048 ATP binding site [chemical binding]; other site 946483002049 Walker B motif; other site 946483002050 arginine finger; other site 946483002051 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 946483002052 PilZ domain; Region: PilZ; cl01260 946483002053 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 946483002054 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 946483002055 active site 946483002056 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 946483002057 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 946483002058 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 946483002059 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483002060 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 946483002061 putative active site [active] 946483002062 heme pocket [chemical binding]; other site 946483002063 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 946483002064 dimer interface [polypeptide binding]; other site 946483002065 phosphorylation site [posttranslational modification] 946483002066 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002067 ATP binding site [chemical binding]; other site 946483002068 Mg2+ binding site [ion binding]; other site 946483002069 G-X-G motif; other site 946483002070 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 946483002071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002072 active site 946483002073 phosphorylation site [posttranslational modification] 946483002074 intermolecular recognition site; other site 946483002075 dimerization interface [polypeptide binding]; other site 946483002076 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 946483002077 DNA binding site [nucleotide binding] 946483002078 transcriptional regulator PhoU; Provisional; Region: PRK11115 946483002079 PhoU domain; Region: PhoU; pfam01895 946483002080 PhoU domain; Region: PhoU; pfam01895 946483002081 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 946483002082 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 946483002083 Walker A/P-loop; other site 946483002084 ATP binding site [chemical binding]; other site 946483002085 Q-loop/lid; other site 946483002086 ABC transporter signature motif; other site 946483002087 Walker B; other site 946483002088 D-loop; other site 946483002089 H-loop/switch region; other site 946483002090 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 946483002091 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 946483002092 dimer interface [polypeptide binding]; other site 946483002093 conserved gate region; other site 946483002094 ABC-ATPase subunit interface; other site 946483002095 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 946483002096 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 946483002097 dimer interface [polypeptide binding]; other site 946483002098 conserved gate region; other site 946483002099 putative PBP binding loops; other site 946483002100 ABC-ATPase subunit interface; other site 946483002101 PBP superfamily domain; Region: PBP_like_2; cl17296 946483002102 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 946483002103 cyclase homology domain; Region: CHD; cd07302 946483002104 nucleotidyl binding site; other site 946483002105 metal binding site [ion binding]; metal-binding site 946483002106 dimer interface [polypeptide binding]; other site 946483002107 FHA domain; Region: FHA; pfam00498 946483002108 phosphopeptide binding site; other site 946483002109 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 946483002110 dimer interface [polypeptide binding]; other site 946483002111 catalytic triad [active] 946483002112 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 946483002113 NlpC/P60 family; Region: NLPC_P60; pfam00877 946483002114 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 946483002115 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 946483002116 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 946483002117 putative ligand binding site [chemical binding]; other site 946483002118 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 946483002119 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 946483002120 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483002121 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 946483002122 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 946483002123 Walker A/P-loop; other site 946483002124 ATP binding site [chemical binding]; other site 946483002125 Q-loop/lid; other site 946483002126 ABC transporter signature motif; other site 946483002127 Walker B; other site 946483002128 D-loop; other site 946483002129 H-loop/switch region; other site 946483002130 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 946483002131 Cadherin repeat-like domain; Region: CA_like; cl15786 946483002132 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002133 Ca2+ binding site [ion binding]; other site 946483002134 Cadherin repeat-like domain; Region: CA_like; cl15786 946483002135 Ca2+ binding site [ion binding]; other site 946483002136 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002137 Ca2+ binding site [ion binding]; other site 946483002138 Cadherin repeat-like domain; Region: CA_like; cl15786 946483002139 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002140 Ca2+ binding site [ion binding]; other site 946483002141 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002142 Ca2+ binding site [ion binding]; other site 946483002143 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002144 Ca2+ binding site [ion binding]; other site 946483002145 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002146 Ca2+ binding site [ion binding]; other site 946483002147 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002148 Ca2+ binding site [ion binding]; other site 946483002149 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 946483002150 Ca2+ binding site [ion binding]; other site 946483002151 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 946483002152 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 946483002153 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 946483002154 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 946483002155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483002156 catalytic residue [active] 946483002157 homoserine dehydrogenase; Provisional; Region: PRK06349 946483002158 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 946483002159 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 946483002160 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 946483002161 aminotransferase AlaT; Validated; Region: PRK09265 946483002162 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 946483002163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483002164 homodimer interface [polypeptide binding]; other site 946483002165 catalytic residue [active] 946483002166 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 946483002167 PAS fold; Region: PAS_3; pfam08447 946483002168 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 946483002169 putative active site [active] 946483002170 heme pocket [chemical binding]; other site 946483002171 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 946483002172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483002173 putative active site [active] 946483002174 heme pocket [chemical binding]; other site 946483002175 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 946483002176 putative active site [active] 946483002177 heme pocket [chemical binding]; other site 946483002178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483002179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483002180 metal binding site [ion binding]; metal-binding site 946483002181 active site 946483002182 I-site; other site 946483002183 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 946483002184 putative SAM binding site [chemical binding]; other site 946483002185 homodimer interface [polypeptide binding]; other site 946483002186 Maf-like protein; Region: Maf; pfam02545 946483002187 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 946483002188 active site 946483002189 dimer interface [polypeptide binding]; other site 946483002190 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 946483002191 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 946483002192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483002193 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 946483002194 dimer interface [polypeptide binding]; other site 946483002195 phosphorylation site [posttranslational modification] 946483002196 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002197 ATP binding site [chemical binding]; other site 946483002198 Mg2+ binding site [ion binding]; other site 946483002199 G-X-G motif; other site 946483002200 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483002201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002202 active site 946483002203 phosphorylation site [posttranslational modification] 946483002204 intermolecular recognition site; other site 946483002205 dimerization interface [polypeptide binding]; other site 946483002206 Response regulator receiver domain; Region: Response_reg; pfam00072 946483002207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002208 active site 946483002209 phosphorylation site [posttranslational modification] 946483002210 intermolecular recognition site; other site 946483002211 dimerization interface [polypeptide binding]; other site 946483002212 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 946483002213 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483002214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002215 active site 946483002216 phosphorylation site [posttranslational modification] 946483002217 intermolecular recognition site; other site 946483002218 dimerization interface [polypeptide binding]; other site 946483002219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483002220 Zn2+ binding site [ion binding]; other site 946483002221 Mg2+ binding site [ion binding]; other site 946483002222 PBP superfamily domain; Region: PBP_like_2; cl17296 946483002223 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483002224 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483002225 dimer interface [polypeptide binding]; other site 946483002226 putative CheW interface [polypeptide binding]; other site 946483002227 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483002228 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 946483002229 dimerization interface [polypeptide binding]; other site 946483002230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483002231 dimer interface [polypeptide binding]; other site 946483002232 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483002233 putative CheW interface [polypeptide binding]; other site 946483002234 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483002235 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 946483002236 dimerization interface [polypeptide binding]; other site 946483002237 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483002238 dimer interface [polypeptide binding]; other site 946483002239 putative CheW interface [polypeptide binding]; other site 946483002240 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 946483002241 S-adenosylmethionine binding site [chemical binding]; other site 946483002242 Domain of unknown function (DUF389); Region: DUF389; pfam04087 946483002243 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 946483002244 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 946483002245 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483002246 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 946483002247 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 946483002248 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 946483002249 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 946483002250 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 946483002251 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 946483002252 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 946483002253 ATP binding site [chemical binding]; other site 946483002254 putative Mg++ binding site [ion binding]; other site 946483002255 KilA-N domain; Region: KilA-N; pfam04383 946483002256 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 946483002257 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 946483002258 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 946483002259 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 946483002260 active site 946483002261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483002262 AAA domain; Region: AAA_23; pfam13476 946483002263 Walker A/P-loop; other site 946483002264 ATP binding site [chemical binding]; other site 946483002265 AAA domain; Region: AAA_21; pfam13304 946483002266 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 946483002267 Divergent AAA domain; Region: AAA_4; pfam04326 946483002268 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 946483002269 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483002270 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 946483002271 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483002272 S-adenosylmethionine binding site [chemical binding]; other site 946483002273 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483002274 RmuC family; Region: RmuC; pfam02646 946483002275 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 946483002276 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 946483002277 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 946483002278 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 946483002279 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 946483002280 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 946483002281 catalytic site [active] 946483002282 subunit interface [polypeptide binding]; other site 946483002283 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 946483002284 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 946483002285 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 946483002286 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 946483002287 active site 946483002288 (T/H)XGH motif; other site 946483002289 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 946483002290 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 946483002291 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 946483002292 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 946483002293 hypothetical protein; Validated; Region: PRK00110 946483002294 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 946483002295 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 946483002296 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 946483002297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483002298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483002299 metal binding site [ion binding]; metal-binding site 946483002300 active site 946483002301 I-site; other site 946483002302 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 946483002303 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 946483002304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483002305 homodimer interface [polypeptide binding]; other site 946483002306 catalytic residue [active] 946483002307 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 946483002308 putative active site pocket [active] 946483002309 4-fold oligomerization interface [polypeptide binding]; other site 946483002310 metal binding residues [ion binding]; metal-binding site 946483002311 3-fold/trimer interface [polypeptide binding]; other site 946483002312 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 946483002313 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 946483002314 putative active site [active] 946483002315 oxyanion strand; other site 946483002316 catalytic triad [active] 946483002317 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 946483002318 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 946483002319 catalytic residues [active] 946483002320 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 946483002321 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 946483002322 substrate binding site [chemical binding]; other site 946483002323 glutamase interaction surface [polypeptide binding]; other site 946483002324 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 946483002325 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 946483002326 metal binding site [ion binding]; metal-binding site 946483002327 Predicted membrane protein [Function unknown]; Region: COG3671 946483002328 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 946483002329 nucleotide binding site/active site [active] 946483002330 HIT family signature motif; other site 946483002331 catalytic residue [active] 946483002332 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 946483002333 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 946483002334 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 946483002335 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 946483002336 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 946483002337 protein binding site [polypeptide binding]; other site 946483002338 hypothetical protein; Provisional; Region: PRK11820 946483002339 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 946483002340 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 946483002341 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 946483002342 Catalytic domain of Protein Kinases; Region: PKc; cd00180 946483002343 active site 946483002344 ATP binding site [chemical binding]; other site 946483002345 substrate binding site [chemical binding]; other site 946483002346 activation loop (A-loop); other site 946483002347 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 946483002348 active site 946483002349 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 946483002350 active site 946483002351 dimerization interface [polypeptide binding]; other site 946483002352 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 946483002353 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 946483002354 FeS/SAM binding site; other site 946483002355 HemN C-terminal domain; Region: HemN_C; pfam06969 946483002356 Ferredoxin [Energy production and conversion]; Region: COG1146 946483002357 4Fe-4S binding domain; Region: Fer4; pfam00037 946483002358 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 946483002359 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 946483002360 putative phosphate acyltransferase; Provisional; Region: PRK05331 946483002361 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 946483002362 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 946483002363 dimer interface [polypeptide binding]; other site 946483002364 active site 946483002365 CoA binding pocket [chemical binding]; other site 946483002366 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 946483002367 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 946483002368 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 946483002369 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 946483002370 NAD(P) binding site [chemical binding]; other site 946483002371 homotetramer interface [polypeptide binding]; other site 946483002372 homodimer interface [polypeptide binding]; other site 946483002373 active site 946483002374 acyl carrier protein; Provisional; Region: acpP; PRK00982 946483002375 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 946483002376 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 946483002377 dimer interface [polypeptide binding]; other site 946483002378 active site 946483002379 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 946483002380 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 946483002381 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 946483002382 catalytic site [active] 946483002383 G-X2-G-X-G-K; other site 946483002384 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 946483002385 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 946483002386 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483002387 Zn2+ binding site [ion binding]; other site 946483002388 Mg2+ binding site [ion binding]; other site 946483002389 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 946483002390 synthetase active site [active] 946483002391 NTP binding site [chemical binding]; other site 946483002392 metal binding site [ion binding]; metal-binding site 946483002393 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 946483002394 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 946483002395 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 946483002396 substrate binding site [chemical binding]; other site 946483002397 multimerization interface [polypeptide binding]; other site 946483002398 ATP binding site [chemical binding]; other site 946483002399 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 946483002400 thiamine phosphate binding site [chemical binding]; other site 946483002401 active site 946483002402 pyrophosphate binding site [ion binding]; other site 946483002403 glutamate dehydrogenase; Provisional; Region: PRK09414 946483002404 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 946483002405 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 946483002406 NAD(P) binding site [chemical binding]; other site 946483002407 peroxiredoxin; Provisional; Region: PRK13189 946483002408 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 946483002409 dimer interface [polypeptide binding]; other site 946483002410 decamer (pentamer of dimers) interface [polypeptide binding]; other site 946483002411 catalytic triad [active] 946483002412 Staphylococcal nuclease homologues; Region: SNc; smart00318 946483002413 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 946483002414 Catalytic site; other site 946483002415 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483002416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483002417 metal binding site [ion binding]; metal-binding site 946483002418 active site 946483002419 I-site; other site 946483002420 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 946483002421 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 946483002422 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 946483002423 active site 946483002424 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 946483002425 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 946483002426 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 946483002427 protein binding site [polypeptide binding]; other site 946483002428 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 946483002429 Catalytic dyad [active] 946483002430 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 946483002431 catalytic core [active] 946483002432 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 946483002433 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 946483002434 active site residue [active] 946483002435 preprotein translocase subunit SecB; Validated; Region: PRK05751 946483002436 SecA binding site; other site 946483002437 Preprotein binding site; other site 946483002438 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 946483002439 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 946483002440 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 946483002441 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 946483002442 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 946483002443 dimerization interface [polypeptide binding]; other site 946483002444 active site 946483002445 quinolinate synthetase; Provisional; Region: PRK09375 946483002446 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 946483002447 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 946483002448 2-isopropylmalate synthase; Validated; Region: PRK00915 946483002449 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 946483002450 active site 946483002451 catalytic residues [active] 946483002452 metal binding site [ion binding]; metal-binding site 946483002453 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 946483002454 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 946483002455 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 946483002456 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 946483002457 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 946483002458 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 946483002459 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 946483002460 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 946483002461 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 946483002462 Walker A/P-loop; other site 946483002463 ATP binding site [chemical binding]; other site 946483002464 Q-loop/lid; other site 946483002465 ABC transporter signature motif; other site 946483002466 Walker B; other site 946483002467 D-loop; other site 946483002468 H-loop/switch region; other site 946483002469 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 946483002470 OstA-like protein; Region: OstA; pfam03968 946483002471 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 946483002472 catalytic residues [active] 946483002473 hinge region; other site 946483002474 alpha helical domain; other site 946483002475 Sporulation related domain; Region: SPOR; pfam05036 946483002476 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 946483002477 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 946483002478 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483002479 active site 946483002480 HIGH motif; other site 946483002481 nucleotide binding site [chemical binding]; other site 946483002482 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 946483002483 KMSK motif region; other site 946483002484 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 946483002485 tRNA binding surface [nucleotide binding]; other site 946483002486 anticodon binding site; other site 946483002487 PBP superfamily domain; Region: PBP_like_2; cl17296 946483002488 MAEBL; Provisional; Region: PTZ00121 946483002489 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 946483002490 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 946483002491 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 946483002492 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 946483002493 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 946483002494 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 946483002495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483002496 AAA domain; Region: AAA_21; pfam13304 946483002497 Walker A/P-loop; other site 946483002498 ATP binding site [chemical binding]; other site 946483002499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483002500 ABC transporter signature motif; other site 946483002501 Walker B; other site 946483002502 D-loop; other site 946483002503 H-loop/switch region; other site 946483002504 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 946483002505 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 946483002506 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 946483002507 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 946483002508 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 946483002509 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 946483002510 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 946483002511 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 946483002512 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 946483002513 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 946483002514 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 946483002515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 946483002516 Coenzyme A binding pocket [chemical binding]; other site 946483002517 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 946483002518 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 946483002519 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 946483002520 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483002521 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 946483002522 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 946483002523 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 946483002524 generic binding surface II; other site 946483002525 generic binding surface I; other site 946483002526 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 946483002527 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 946483002528 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; cl17257 946483002529 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 946483002530 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483002531 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 946483002532 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 946483002533 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 946483002534 active site 946483002535 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 946483002536 putative active site [active] 946483002537 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483002538 GAF domain; Region: GAF; pfam01590 946483002539 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 946483002540 dimer interface [polypeptide binding]; other site 946483002541 phosphorylation site [posttranslational modification] 946483002542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002543 ATP binding site [chemical binding]; other site 946483002544 Mg2+ binding site [ion binding]; other site 946483002545 G-X-G motif; other site 946483002546 Response regulator receiver domain; Region: Response_reg; pfam00072 946483002547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002548 active site 946483002549 phosphorylation site [posttranslational modification] 946483002550 intermolecular recognition site; other site 946483002551 dimerization interface [polypeptide binding]; other site 946483002552 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 946483002553 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 946483002554 membrane-bound complex binding site; other site 946483002555 hinge residues; other site 946483002556 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 946483002557 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 946483002558 FAD binding domain; Region: FAD_binding_4; pfam01565 946483002559 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 946483002560 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 946483002561 Cysteine-rich domain; Region: CCG; pfam02754 946483002562 Cysteine-rich domain; Region: CCG; pfam02754 946483002563 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 946483002564 Beta propeller domain; Region: Beta_propel; pfam09826 946483002565 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 946483002566 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 946483002567 NAD binding site [chemical binding]; other site 946483002568 homodimer interface [polypeptide binding]; other site 946483002569 active site 946483002570 substrate binding site [chemical binding]; other site 946483002571 Hemerythrin; Region: Hemerythrin; cd12107 946483002572 Fe binding site [ion binding]; other site 946483002573 PAS domain S-box; Region: sensory_box; TIGR00229 946483002574 PAS fold; Region: PAS_4; pfam08448 946483002575 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 946483002576 putative active site [active] 946483002577 heme pocket [chemical binding]; other site 946483002578 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 946483002579 PAS fold; Region: PAS_3; pfam08447 946483002580 putative active site [active] 946483002581 heme pocket [chemical binding]; other site 946483002582 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483002583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483002584 metal binding site [ion binding]; metal-binding site 946483002585 active site 946483002586 I-site; other site 946483002587 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 946483002588 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 946483002589 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 946483002590 active site residue [active] 946483002591 HAMP domain; Region: HAMP; pfam00672 946483002592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483002593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483002594 dimer interface [polypeptide binding]; other site 946483002595 putative CheW interface [polypeptide binding]; other site 946483002596 exopolyphosphatase; Region: exo_poly_only; TIGR03706 946483002597 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 946483002598 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 946483002599 CHASE domain; Region: CHASE; pfam03924 946483002600 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 946483002601 PAS domain; Region: PAS_9; pfam13426 946483002602 putative active site [active] 946483002603 heme pocket [chemical binding]; other site 946483002604 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 946483002605 PAS domain; Region: PAS_9; pfam13426 946483002606 putative active site [active] 946483002607 heme pocket [chemical binding]; other site 946483002608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483002609 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 946483002610 dimer interface [polypeptide binding]; other site 946483002611 phosphorylation site [posttranslational modification] 946483002612 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002613 ATP binding site [chemical binding]; other site 946483002614 Mg2+ binding site [ion binding]; other site 946483002615 G-X-G motif; other site 946483002616 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483002617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002618 active site 946483002619 phosphorylation site [posttranslational modification] 946483002620 intermolecular recognition site; other site 946483002621 dimerization interface [polypeptide binding]; other site 946483002622 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 946483002623 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 946483002624 active site 946483002625 HIGH motif; other site 946483002626 dimer interface [polypeptide binding]; other site 946483002627 KMSKS motif; other site 946483002628 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 946483002629 RNA binding surface [nucleotide binding]; other site 946483002630 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 946483002631 Peptidase family M23; Region: Peptidase_M23; pfam01551 946483002632 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 946483002633 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 946483002634 active site 946483002635 putative DNA-binding cleft [nucleotide binding]; other site 946483002636 dimer interface [polypeptide binding]; other site 946483002637 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 946483002638 PLD-like domain; Region: PLDc_2; pfam13091 946483002639 putative active site [active] 946483002640 catalytic site [active] 946483002641 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 946483002642 ATP binding site [chemical binding]; other site 946483002643 putative Mg++ binding site [ion binding]; other site 946483002644 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 946483002645 ATP-binding site [chemical binding]; other site 946483002646 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 946483002647 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 946483002648 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 946483002649 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 946483002650 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 946483002651 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 946483002652 oligomeric interface; other site 946483002653 putative active site [active] 946483002654 homodimer interface [polypeptide binding]; other site 946483002655 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 946483002656 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 946483002657 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 946483002658 Protein of unknown function (DUF499); Region: DUF499; pfam04465 946483002659 Fn3 associated; Region: Fn3_assoc; pfam13287 946483002660 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 946483002661 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 946483002662 substrate binding pocket [chemical binding]; other site 946483002663 chain length determination region; other site 946483002664 substrate-Mg2+ binding site; other site 946483002665 catalytic residues [active] 946483002666 aspartate-rich region 1; other site 946483002667 active site lid residues [active] 946483002668 aspartate-rich region 2; other site 946483002669 recombination protein RecR; Reviewed; Region: recR; PRK00076 946483002670 RecR protein; Region: RecR; pfam02132 946483002671 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 946483002672 putative active site [active] 946483002673 putative metal-binding site [ion binding]; other site 946483002674 tetramer interface [polypeptide binding]; other site 946483002675 hypothetical protein; Validated; Region: PRK00153 946483002676 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 946483002677 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 946483002678 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 946483002679 Walker A motif; other site 946483002680 ATP binding site [chemical binding]; other site 946483002681 Walker B motif; other site 946483002682 arginine finger; other site 946483002683 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 946483002684 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 946483002685 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 946483002686 substrate binding site [chemical binding]; other site 946483002687 active site 946483002688 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 946483002689 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 946483002690 nucleotide binding site [chemical binding]; other site 946483002691 SulA interaction site; other site 946483002692 cell division protein FtsA; Region: ftsA; TIGR01174 946483002693 Cell division protein FtsA; Region: FtsA; smart00842 946483002694 Cell division protein FtsA; Region: FtsA; pfam14450 946483002695 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 946483002696 Cell division protein FtsQ; Region: FtsQ; pfam03799 946483002697 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 946483002698 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 946483002699 ATP-grasp domain; Region: ATP-grasp_4; cl17255 946483002700 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 946483002701 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 946483002702 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483002703 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483002704 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 946483002705 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 946483002706 active site 946483002707 homodimer interface [polypeptide binding]; other site 946483002708 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 946483002709 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 946483002710 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483002711 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483002712 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 946483002713 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 946483002714 Mg++ binding site [ion binding]; other site 946483002715 putative catalytic motif [active] 946483002716 putative substrate binding site [chemical binding]; other site 946483002717 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 946483002718 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 946483002719 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483002720 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483002721 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 946483002722 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483002723 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483002724 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 946483002725 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 946483002726 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 946483002727 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 946483002728 Cell division protein FtsL; Region: FtsL; cl11433 946483002729 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 946483002730 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 946483002731 S-adenosylmethionine binding site [chemical binding]; other site 946483002732 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 946483002733 cell division protein MraZ; Reviewed; Region: PRK00326 946483002734 MraZ protein; Region: MraZ; pfam02381 946483002735 MraZ protein; Region: MraZ; pfam02381 946483002736 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 946483002737 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 946483002738 active site 946483002739 ADP/pyrophosphate binding site [chemical binding]; other site 946483002740 dimerization interface [polypeptide binding]; other site 946483002741 allosteric effector site; other site 946483002742 fructose-1,6-bisphosphate binding site; other site 946483002743 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 946483002744 putative catalytic site [active] 946483002745 putative phosphate binding site [ion binding]; other site 946483002746 active site 946483002747 metal binding site A [ion binding]; metal-binding site 946483002748 DNA binding site [nucleotide binding] 946483002749 putative AP binding site [nucleotide binding]; other site 946483002750 putative metal binding site B [ion binding]; other site 946483002751 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 946483002752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002753 active site 946483002754 phosphorylation site [posttranslational modification] 946483002755 intermolecular recognition site; other site 946483002756 dimerization interface [polypeptide binding]; other site 946483002757 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 946483002758 Walker A motif; other site 946483002759 ATP binding site [chemical binding]; other site 946483002760 Walker B motif; other site 946483002761 arginine finger; other site 946483002762 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 946483002763 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 946483002764 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 946483002765 dimer interface [polypeptide binding]; other site 946483002766 phosphorylation site [posttranslational modification] 946483002767 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002768 ATP binding site [chemical binding]; other site 946483002769 Mg2+ binding site [ion binding]; other site 946483002770 G-X-G motif; other site 946483002771 glutamine synthetase; Provisional; Region: glnA; PRK09469 946483002772 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 946483002773 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 946483002774 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 946483002775 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 946483002776 putative MPT binding site; other site 946483002777 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 946483002778 Acetokinase family; Region: Acetate_kinase; cl17229 946483002779 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 946483002780 (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 946483002781 dimer interaction site [polypeptide binding]; other site 946483002782 substrate-binding tunnel; other site 946483002783 active site 946483002784 catalytic site [active] 946483002785 substrate binding site [chemical binding]; other site 946483002786 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 946483002787 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 946483002788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 946483002789 ligand binding site [chemical binding]; other site 946483002790 DNA gyrase subunit A; Validated; Region: PRK05560 946483002791 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 946483002792 CAP-like domain; other site 946483002793 active site 946483002794 primary dimer interface [polypeptide binding]; other site 946483002795 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002796 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002797 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002798 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002799 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002800 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 946483002801 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 946483002802 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483002803 catalytic residue [active] 946483002804 Chorismate mutase type II; Region: CM_2; smart00830 946483002805 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 946483002806 Prephenate dehydratase; Region: PDT; pfam00800 946483002807 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 946483002808 putative L-Phe binding site [chemical binding]; other site 946483002809 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 946483002810 prephenate dehydrogenase; Validated; Region: PRK08507 946483002811 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 946483002812 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 946483002813 hinge; other site 946483002814 active site 946483002815 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 946483002816 CMP-binding site; other site 946483002817 The sites determining sugar specificity; other site 946483002818 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 946483002819 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 946483002820 RNA binding site [nucleotide binding]; other site 946483002821 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 946483002822 RNA binding site [nucleotide binding]; other site 946483002823 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 946483002824 RNA binding site [nucleotide binding]; other site 946483002825 S1_RPS1_repeat_ec4: 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_ec4; cd05689 946483002826 RNA binding site [nucleotide binding]; other site 946483002827 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 946483002828 RNA binding site [nucleotide binding]; other site 946483002829 S1_RPS1_repeat_ec6: 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_ec6; cd05691 946483002830 RNA binding site [nucleotide binding]; other site 946483002831 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 946483002832 IHF - DNA interface [nucleotide binding]; other site 946483002833 IHF dimer interface [polypeptide binding]; other site 946483002834 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 946483002835 tetratricopeptide repeat protein; Provisional; Region: PRK11788 946483002836 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 946483002837 TPR motif; other site 946483002838 binding surface 946483002839 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 946483002840 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 946483002841 putative ribose interaction site [chemical binding]; other site 946483002842 putative ADP binding site [chemical binding]; other site 946483002843 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 946483002844 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 946483002845 NADP binding site [chemical binding]; other site 946483002846 homopentamer interface [polypeptide binding]; other site 946483002847 substrate binding site [chemical binding]; other site 946483002848 active site 946483002849 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 946483002850 Transcriptional regulator; Region: Rrf2; cl17282 946483002851 Rrf2 family protein; Region: rrf2_super; TIGR00738 946483002852 cysteine desulfurase; Provisional; Region: PRK14012 946483002853 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 946483002854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483002855 catalytic residue [active] 946483002856 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 946483002857 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 946483002858 trimerization site [polypeptide binding]; other site 946483002859 active site 946483002860 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 946483002861 co-chaperone HscB; Provisional; Region: hscB; PRK03578 946483002862 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 946483002863 HSP70 interaction site [polypeptide binding]; other site 946483002864 chaperone protein HscA; Provisional; Region: hscA; PRK05183 946483002865 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 946483002866 nucleotide binding site [chemical binding]; other site 946483002867 putative NEF/HSP70 interaction site [polypeptide binding]; other site 946483002868 SBD interface [polypeptide binding]; other site 946483002869 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 946483002870 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 946483002871 catalytic loop [active] 946483002872 iron binding site [ion binding]; other site 946483002873 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 946483002874 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 946483002875 active site 946483002876 catalytic site [active] 946483002877 substrate binding site [chemical binding]; other site 946483002878 Lipopolysaccharide-assembly; Region: LptE; pfam04390 946483002879 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 946483002880 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 946483002881 HIGH motif; other site 946483002882 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 946483002883 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483002884 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 946483002885 active site 946483002886 KMSKS motif; other site 946483002887 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 946483002888 tRNA binding surface [nucleotide binding]; other site 946483002889 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 946483002890 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 946483002891 purine monophosphate binding site [chemical binding]; other site 946483002892 dimer interface [polypeptide binding]; other site 946483002893 putative catalytic residues [active] 946483002894 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 946483002895 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 946483002896 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 946483002897 HPr kinase/phosphorylase; Provisional; Region: PRK05428 946483002898 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 946483002899 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 946483002900 Hpr binding site; other site 946483002901 active site 946483002902 homohexamer subunit interaction site [polypeptide binding]; other site 946483002903 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 946483002904 active site 946483002905 phosphorylation site [posttranslational modification] 946483002906 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 946483002907 30S subunit binding site; other site 946483002908 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 946483002909 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 946483002910 Cl binding site [ion binding]; other site 946483002911 oligomer interface [polypeptide binding]; other site 946483002912 putative transposase OrfB; Reviewed; Region: PHA02517 946483002913 Homeodomain-like domain; Region: HTH_32; pfam13565 946483002914 Integrase core domain; Region: rve; pfam00665 946483002915 Integrase core domain; Region: rve_3; pfam13683 946483002916 Transposase; Region: HTH_Tnp_1; cl17663 946483002917 MgtC family; Region: MgtC; pfam02308 946483002918 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 946483002919 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 946483002920 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 946483002921 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 946483002922 ligand binding site [chemical binding]; other site 946483002923 homodimer interface [polypeptide binding]; other site 946483002924 NAD(P) binding site [chemical binding]; other site 946483002925 trimer interface B [polypeptide binding]; other site 946483002926 trimer interface A [polypeptide binding]; other site 946483002927 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 946483002928 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 946483002929 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 946483002930 Ligand Binding Site [chemical binding]; other site 946483002931 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 946483002932 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 946483002933 NAD binding site [chemical binding]; other site 946483002934 substrate binding site [chemical binding]; other site 946483002935 homodimer interface [polypeptide binding]; other site 946483002936 active site 946483002937 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 946483002938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483002939 active site 946483002940 phosphorylation site [posttranslational modification] 946483002941 intermolecular recognition site; other site 946483002942 dimerization interface [polypeptide binding]; other site 946483002943 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 946483002944 binding surface 946483002945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483002946 TPR motif; other site 946483002947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483002948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483002949 ATP binding site [chemical binding]; other site 946483002950 Mg2+ binding site [ion binding]; other site 946483002951 G-X-G motif; other site 946483002952 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 946483002953 Clp amino terminal domain; Region: Clp_N; pfam02861 946483002954 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 946483002955 Walker A motif; other site 946483002956 ATP binding site [chemical binding]; other site 946483002957 Walker B motif; other site 946483002958 arginine finger; other site 946483002959 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 946483002960 Walker A motif; other site 946483002961 ATP binding site [chemical binding]; other site 946483002962 Walker B motif; other site 946483002963 arginine finger; other site 946483002964 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 946483002965 Transposase domain (DUF772); Region: DUF772; pfam05598 946483002966 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483002967 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 946483002968 HicB family; Region: HicB; pfam05534 946483002969 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 946483002970 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 946483002971 active site 946483002972 DNA binding site [nucleotide binding] 946483002973 Int/Topo IB signature motif; other site 946483002974 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 946483002975 HicB family; Region: HicB; pfam05534 946483002976 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483002977 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 946483002978 nucleoside/Zn binding site; other site 946483002979 dimer interface [polypeptide binding]; other site 946483002980 catalytic motif [active] 946483002981 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 946483002982 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 946483002983 UbiA prenyltransferase family; Region: UbiA; pfam01040 946483002984 Protein of unknown function (DUF497); Region: DUF497; cl01108 946483002985 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 946483002986 Predicted transcriptional regulator [Transcription]; Region: COG2944 946483002987 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 946483002988 non-specific DNA binding site [nucleotide binding]; other site 946483002989 salt bridge; other site 946483002990 sequence-specific DNA binding site [nucleotide binding]; other site 946483002991 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 946483002992 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 946483002993 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 946483002994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 946483002995 Coenzyme A binding pocket [chemical binding]; other site 946483002996 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 946483002997 nickel binding site [ion binding]; other site 946483002998 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 946483002999 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 946483003000 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 946483003001 catalytic loop [active] 946483003002 iron binding site [ion binding]; other site 946483003003 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 946483003004 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 946483003005 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 946483003006 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 946483003007 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 946483003008 SLBB domain; Region: SLBB; pfam10531 946483003009 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 946483003010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483003011 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 946483003012 dimerization interface [polypeptide binding]; other site 946483003013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483003014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003015 dimer interface [polypeptide binding]; other site 946483003016 putative CheW interface [polypeptide binding]; other site 946483003017 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 946483003018 RuvA N terminal domain; Region: RuvA_N; pfam01330 946483003019 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 946483003020 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 946483003021 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 946483003022 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 946483003023 G1 box; other site 946483003024 putative GEF interaction site [polypeptide binding]; other site 946483003025 GTP/Mg2+ binding site [chemical binding]; other site 946483003026 Switch I region; other site 946483003027 G2 box; other site 946483003028 G3 box; other site 946483003029 Switch II region; other site 946483003030 G4 box; other site 946483003031 G5 box; other site 946483003032 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 946483003033 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 946483003034 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 946483003035 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 946483003036 RNA binding site [nucleotide binding]; other site 946483003037 active site 946483003038 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 946483003039 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 946483003040 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 946483003041 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 946483003042 translation initiation factor IF-2; Region: IF-2; TIGR00487 946483003043 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 946483003044 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 946483003045 G1 box; other site 946483003046 putative GEF interaction site [polypeptide binding]; other site 946483003047 GTP/Mg2+ binding site [chemical binding]; other site 946483003048 Switch I region; other site 946483003049 G2 box; other site 946483003050 G3 box; other site 946483003051 Switch II region; other site 946483003052 G4 box; other site 946483003053 G5 box; other site 946483003054 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 946483003055 Translation-initiation factor 2; Region: IF-2; pfam11987 946483003056 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 946483003057 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 946483003058 NusA N-terminal domain; Region: NusA_N; pfam08529 946483003059 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 946483003060 RNA binding site [nucleotide binding]; other site 946483003061 homodimer interface [polypeptide binding]; other site 946483003062 NusA-like KH domain; Region: KH_5; pfam13184 946483003063 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 946483003064 G-X-X-G motif; other site 946483003065 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 946483003066 Sm and related proteins; Region: Sm_like; cl00259 946483003067 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 946483003068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 946483003069 Walker A/P-loop; other site 946483003070 ATP binding site [chemical binding]; other site 946483003071 Q-loop/lid; other site 946483003072 ABC transporter signature motif; other site 946483003073 Walker B; other site 946483003074 D-loop; other site 946483003075 H-loop/switch region; other site 946483003076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 946483003077 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 946483003078 Walker A/P-loop; other site 946483003079 ATP binding site [chemical binding]; other site 946483003080 Q-loop/lid; other site 946483003081 ABC transporter signature motif; other site 946483003082 Walker B; other site 946483003083 D-loop; other site 946483003084 H-loop/switch region; other site 946483003085 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 946483003086 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 946483003087 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 946483003088 ABC-ATPase subunit interface; other site 946483003089 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 946483003090 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 946483003091 dimer interface [polypeptide binding]; other site 946483003092 conserved gate region; other site 946483003093 putative PBP binding loops; other site 946483003094 ABC-ATPase subunit interface; other site 946483003095 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 946483003096 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 946483003097 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 946483003098 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 946483003099 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 946483003100 NAD binding site [chemical binding]; other site 946483003101 homotetramer interface [polypeptide binding]; other site 946483003102 homodimer interface [polypeptide binding]; other site 946483003103 substrate binding site [chemical binding]; other site 946483003104 active site 946483003105 argininosuccinate synthase; Validated; Region: PRK05370 946483003106 argininosuccinate synthase; Provisional; Region: PRK13820 946483003107 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 946483003108 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 946483003109 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 946483003110 active site 946483003111 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 946483003112 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 946483003113 Walker A motif; other site 946483003114 ATP binding site [chemical binding]; other site 946483003115 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 946483003116 Walker B motif; other site 946483003117 arginine finger; other site 946483003118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 946483003119 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 946483003120 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 946483003121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483003122 homodimer interface [polypeptide binding]; other site 946483003123 catalytic residue [active] 946483003124 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 946483003125 cation binding site [ion binding]; other site 946483003126 CHASE domain; Region: CHASE; pfam03924 946483003127 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 946483003128 PAS fold; Region: PAS_3; pfam08447 946483003129 putative active site [active] 946483003130 heme pocket [chemical binding]; other site 946483003131 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 946483003132 PAS domain; Region: PAS_9; pfam13426 946483003133 putative active site [active] 946483003134 heme pocket [chemical binding]; other site 946483003135 PAS domain S-box; Region: sensory_box; TIGR00229 946483003136 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 946483003137 putative active site [active] 946483003138 heme pocket [chemical binding]; other site 946483003139 PAS fold; Region: PAS_7; pfam12860 946483003140 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 946483003141 dimer interface [polypeptide binding]; other site 946483003142 phosphorylation site [posttranslational modification] 946483003143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003144 ATP binding site [chemical binding]; other site 946483003145 Mg2+ binding site [ion binding]; other site 946483003146 G-X-G motif; other site 946483003147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003148 active site 946483003149 phosphorylation site [posttranslational modification] 946483003150 intermolecular recognition site; other site 946483003151 dimerization interface [polypeptide binding]; other site 946483003152 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003154 active site 946483003155 phosphorylation site [posttranslational modification] 946483003156 intermolecular recognition site; other site 946483003157 dimerization interface [polypeptide binding]; other site 946483003158 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 946483003159 substrate binding pocket [chemical binding]; other site 946483003160 substrate-Mg2+ binding site; other site 946483003161 aspartate-rich region 1; other site 946483003162 aspartate-rich region 2; other site 946483003163 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 946483003164 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 946483003165 nucleotide binding pocket [chemical binding]; other site 946483003166 K-X-D-G motif; other site 946483003167 catalytic site [active] 946483003168 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 946483003169 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 946483003170 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 946483003171 Dimer interface [polypeptide binding]; other site 946483003172 BRCT sequence motif; other site 946483003173 GTP-binding protein YchF; Reviewed; Region: PRK09601 946483003174 YchF GTPase; Region: YchF; cd01900 946483003175 G1 box; other site 946483003176 GTP/Mg2+ binding site [chemical binding]; other site 946483003177 Switch I region; other site 946483003178 G2 box; other site 946483003179 Switch II region; other site 946483003180 G3 box; other site 946483003181 G4 box; other site 946483003182 G5 box; other site 946483003183 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 946483003184 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483003185 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483003186 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 946483003187 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 946483003188 isocitrate dehydrogenase; Validated; Region: PRK07362 946483003189 isocitrate dehydrogenase; Reviewed; Region: PRK07006 946483003190 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 946483003191 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483003192 putative active site [active] 946483003193 heme pocket [chemical binding]; other site 946483003194 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 946483003195 PAS domain; Region: PAS_9; pfam13426 946483003196 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 946483003197 putative active site [active] 946483003198 heme pocket [chemical binding]; other site 946483003199 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 946483003200 dimer interface [polypeptide binding]; other site 946483003201 phosphorylation site [posttranslational modification] 946483003202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003203 ATP binding site [chemical binding]; other site 946483003204 Mg2+ binding site [ion binding]; other site 946483003205 G-X-G motif; other site 946483003206 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003208 active site 946483003209 phosphorylation site [posttranslational modification] 946483003210 intermolecular recognition site; other site 946483003211 dimerization interface [polypeptide binding]; other site 946483003212 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 946483003213 putative binding surface; other site 946483003214 active site 946483003215 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 946483003216 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 946483003217 Tetramer interface [polypeptide binding]; other site 946483003218 active site 946483003219 FMN-binding site [chemical binding]; other site 946483003220 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 946483003221 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 946483003222 ornithine carbamoyltransferase; Provisional; Region: PRK00779 946483003223 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 946483003224 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 946483003225 acetylornithine aminotransferase; Provisional; Region: PRK02627 946483003226 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 946483003227 inhibitor-cofactor binding pocket; inhibition site 946483003228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483003229 catalytic residue [active] 946483003230 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 946483003231 active site 946483003232 substrate-binding site [chemical binding]; other site 946483003233 metal-binding site [ion binding] 946483003234 GTP binding site [chemical binding]; other site 946483003235 pyruvate kinase; Provisional; Region: PRK05826 946483003236 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 946483003237 domain interfaces; other site 946483003238 active site 946483003239 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003241 active site 946483003242 phosphorylation site [posttranslational modification] 946483003243 intermolecular recognition site; other site 946483003244 dimerization interface [polypeptide binding]; other site 946483003245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483003246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483003247 metal binding site [ion binding]; metal-binding site 946483003248 active site 946483003249 I-site; other site 946483003250 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 946483003251 PAS domain; Region: PAS_9; pfam13426 946483003252 putative active site [active] 946483003253 heme pocket [chemical binding]; other site 946483003254 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 946483003255 dimer interface [polypeptide binding]; other site 946483003256 phosphorylation site [posttranslational modification] 946483003257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003258 ATP binding site [chemical binding]; other site 946483003259 Mg2+ binding site [ion binding]; other site 946483003260 G-X-G motif; other site 946483003261 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003263 active site 946483003264 phosphorylation site [posttranslational modification] 946483003265 intermolecular recognition site; other site 946483003266 dimerization interface [polypeptide binding]; other site 946483003267 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003269 active site 946483003270 phosphorylation site [posttranslational modification] 946483003271 intermolecular recognition site; other site 946483003272 dimerization interface [polypeptide binding]; other site 946483003273 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 946483003274 putative binding surface; other site 946483003275 active site 946483003276 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 946483003277 catalytic center binding site [active] 946483003278 ATP binding site [chemical binding]; other site 946483003279 poly(A) polymerase; Region: pcnB; TIGR01942 946483003280 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 946483003281 active site 946483003282 NTP binding site [chemical binding]; other site 946483003283 metal binding triad [ion binding]; metal-binding site 946483003284 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 946483003285 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 946483003286 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 946483003287 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 946483003288 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 946483003289 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 946483003290 Walker A motif; other site 946483003291 ATP binding site [chemical binding]; other site 946483003292 Walker B motif; other site 946483003293 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 946483003294 arginine finger; other site 946483003295 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 946483003296 Domain of unknown function DUF20; Region: UPF0118; pfam01594 946483003297 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 946483003298 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 946483003299 dimerization interface [polypeptide binding]; other site 946483003300 putative ATP binding site [chemical binding]; other site 946483003301 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003303 active site 946483003304 phosphorylation site [posttranslational modification] 946483003305 intermolecular recognition site; other site 946483003306 dimerization interface [polypeptide binding]; other site 946483003307 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 946483003308 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 946483003309 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 946483003310 dimerization interface [polypeptide binding]; other site 946483003311 PAS domain; Region: PAS; smart00091 946483003312 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 946483003313 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 946483003314 dimer interface [polypeptide binding]; other site 946483003315 phosphorylation site [posttranslational modification] 946483003316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003317 ATP binding site [chemical binding]; other site 946483003318 Mg2+ binding site [ion binding]; other site 946483003319 G-X-G motif; other site 946483003320 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 946483003321 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 946483003322 16S rRNA methyltransferase B; Provisional; Region: PRK10901 946483003323 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 946483003324 S-adenosylmethionine binding site [chemical binding]; other site 946483003325 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 946483003326 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 946483003327 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 946483003328 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 946483003329 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 946483003330 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 946483003331 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 946483003332 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 946483003333 DNA binding site [nucleotide binding] 946483003334 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 946483003335 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 946483003336 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 946483003337 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 946483003338 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 946483003339 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 946483003340 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 946483003341 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 946483003342 RPB3 interaction site [polypeptide binding]; other site 946483003343 RPB1 interaction site [polypeptide binding]; other site 946483003344 RPB11 interaction site [polypeptide binding]; other site 946483003345 RPB10 interaction site [polypeptide binding]; other site 946483003346 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 946483003347 peripheral dimer interface [polypeptide binding]; other site 946483003348 core dimer interface [polypeptide binding]; other site 946483003349 L10 interface [polypeptide binding]; other site 946483003350 L11 interface [polypeptide binding]; other site 946483003351 putative EF-Tu interaction site [polypeptide binding]; other site 946483003352 putative EF-G interaction site [polypeptide binding]; other site 946483003353 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 946483003354 23S rRNA interface [nucleotide binding]; other site 946483003355 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 946483003356 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 946483003357 mRNA/rRNA interface [nucleotide binding]; other site 946483003358 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 946483003359 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 946483003360 23S rRNA interface [nucleotide binding]; other site 946483003361 L7/L12 interface [polypeptide binding]; other site 946483003362 putative thiostrepton binding site; other site 946483003363 L25 interface [polypeptide binding]; other site 946483003364 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 946483003365 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 946483003366 putative homodimer interface [polypeptide binding]; other site 946483003367 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 946483003368 heterodimer interface [polypeptide binding]; other site 946483003369 homodimer interface [polypeptide binding]; other site 946483003370 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 946483003371 elongation factor Tu; Reviewed; Region: PRK00049 946483003372 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 946483003373 G1 box; other site 946483003374 GEF interaction site [polypeptide binding]; other site 946483003375 GTP/Mg2+ binding site [chemical binding]; other site 946483003376 Switch I region; other site 946483003377 G2 box; other site 946483003378 G3 box; other site 946483003379 Switch II region; other site 946483003380 G4 box; other site 946483003381 G5 box; other site 946483003382 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 946483003383 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 946483003384 Antibiotic Binding Site [chemical binding]; other site 946483003385 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 946483003386 ligand binding site [chemical binding]; other site 946483003387 active site 946483003388 UGI interface [polypeptide binding]; other site 946483003389 catalytic site [active] 946483003390 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 946483003391 active site 946483003392 ribulose/triose binding site [chemical binding]; other site 946483003393 phosphate binding site [ion binding]; other site 946483003394 substrate (anthranilate) binding pocket [chemical binding]; other site 946483003395 product (indole) binding pocket [chemical binding]; other site 946483003396 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 946483003397 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 946483003398 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 946483003399 transcription termination factor Rho; Provisional; Region: rho; PRK09376 946483003400 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 946483003401 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 946483003402 RNA binding site [nucleotide binding]; other site 946483003403 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 946483003404 multimer interface [polypeptide binding]; other site 946483003405 Walker A motif; other site 946483003406 ATP binding site [chemical binding]; other site 946483003407 Walker B motif; other site 946483003408 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 946483003409 catalytic residues [active] 946483003410 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 946483003411 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 946483003412 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 946483003413 active site 946483003414 NTP binding site [chemical binding]; other site 946483003415 metal binding triad [ion binding]; metal-binding site 946483003416 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 946483003417 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 946483003418 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 946483003419 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 946483003420 Walker A motif; other site 946483003421 ATP binding site [chemical binding]; other site 946483003422 Walker B motif; other site 946483003423 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 946483003424 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483003425 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483003426 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 946483003427 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 946483003428 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 946483003429 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 946483003430 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 946483003431 CoA-binding site [chemical binding]; other site 946483003432 ATP-binding [chemical binding]; other site 946483003433 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 946483003434 Domain of unknown function (DUF329); Region: DUF329; pfam03884 946483003435 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003436 dimer interface [polypeptide binding]; other site 946483003437 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483003438 putative CheW interface [polypeptide binding]; other site 946483003439 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 946483003440 tetramer (dimer of dimers) interface [polypeptide binding]; other site 946483003441 active site 946483003442 dimer interface [polypeptide binding]; other site 946483003443 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 946483003444 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 946483003445 quinone interaction residues [chemical binding]; other site 946483003446 active site 946483003447 catalytic residues [active] 946483003448 FMN binding site [chemical binding]; other site 946483003449 substrate binding site [chemical binding]; other site 946483003450 peptidase PmbA; Provisional; Region: PRK11040 946483003451 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483003452 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 946483003453 substrate binding pocket [chemical binding]; other site 946483003454 membrane-bound complex binding site; other site 946483003455 hinge residues; other site 946483003456 PAS fold; Region: PAS_4; pfam08448 946483003457 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 946483003458 putative active site [active] 946483003459 heme pocket [chemical binding]; other site 946483003460 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483003461 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483003462 metal binding site [ion binding]; metal-binding site 946483003463 active site 946483003464 I-site; other site 946483003465 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 946483003466 PAS domain; Region: PAS_9; pfam13426 946483003467 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483003468 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 946483003469 dimer interface [polypeptide binding]; other site 946483003470 phosphorylation site [posttranslational modification] 946483003471 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003472 ATP binding site [chemical binding]; other site 946483003473 Mg2+ binding site [ion binding]; other site 946483003474 G-X-G motif; other site 946483003475 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003476 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003477 active site 946483003478 phosphorylation site [posttranslational modification] 946483003479 intermolecular recognition site; other site 946483003480 dimerization interface [polypeptide binding]; other site 946483003481 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003483 active site 946483003484 phosphorylation site [posttranslational modification] 946483003485 intermolecular recognition site; other site 946483003486 dimerization interface [polypeptide binding]; other site 946483003487 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 946483003488 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483003489 Zn2+ binding site [ion binding]; other site 946483003490 Mg2+ binding site [ion binding]; other site 946483003491 PAS fold; Region: PAS_4; pfam08448 946483003492 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 946483003493 putative active site [active] 946483003494 heme pocket [chemical binding]; other site 946483003495 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 946483003496 PAS domain; Region: PAS_9; pfam13426 946483003497 putative active site [active] 946483003498 heme pocket [chemical binding]; other site 946483003499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483003500 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 946483003501 dimer interface [polypeptide binding]; other site 946483003502 phosphorylation site [posttranslational modification] 946483003503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003504 ATP binding site [chemical binding]; other site 946483003505 Mg2+ binding site [ion binding]; other site 946483003506 G-X-G motif; other site 946483003507 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003509 active site 946483003510 phosphorylation site [posttranslational modification] 946483003511 intermolecular recognition site; other site 946483003512 dimerization interface [polypeptide binding]; other site 946483003513 putative cation:proton antiport protein; Provisional; Region: PRK10669 946483003514 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 946483003515 TrkA-N domain; Region: TrkA_N; pfam02254 946483003516 TrkA-C domain; Region: TrkA_C; pfam02080 946483003517 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 946483003518 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 946483003519 putative active site [active] 946483003520 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 946483003521 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 946483003522 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 946483003523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 946483003524 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 946483003525 short chain dehydrogenase; Provisional; Region: PRK07024 946483003526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483003527 NAD(P) binding site [chemical binding]; other site 946483003528 active site 946483003529 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 946483003530 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 946483003531 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 946483003532 Type II transport protein GspH; Region: GspH; pfam12019 946483003533 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 946483003534 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 946483003535 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 946483003536 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 946483003537 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 946483003538 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 946483003539 substrate binding site [chemical binding]; other site 946483003540 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 946483003541 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 946483003542 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 946483003543 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 946483003544 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 946483003545 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 946483003546 intersubunit interface [polypeptide binding]; other site 946483003547 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 946483003548 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 946483003549 ABC-ATPase subunit interface; other site 946483003550 dimer interface [polypeptide binding]; other site 946483003551 putative PBP binding regions; other site 946483003552 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 946483003553 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 946483003554 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 946483003555 dimerization domain [polypeptide binding]; other site 946483003556 dimer interface [polypeptide binding]; other site 946483003557 catalytic residues [active] 946483003558 Peptidase family M48; Region: Peptidase_M48; cl12018 946483003559 DNA polymerase III subunit delta'; Validated; Region: PRK06964 946483003560 DNA polymerase III subunit delta'; Validated; Region: PRK08485 946483003561 thymidylate kinase; Validated; Region: tmk; PRK00698 946483003562 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 946483003563 TMP-binding site; other site 946483003564 ATP-binding site [chemical binding]; other site 946483003565 YceG-like family; Region: YceG; pfam02618 946483003566 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 946483003567 dimerization interface [polypeptide binding]; other site 946483003568 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 946483003569 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 946483003570 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 946483003571 putative active site [active] 946483003572 Virulence protein [General function prediction only]; Region: COG3943 946483003573 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 946483003574 NMT1/THI5 like; Region: NMT1; pfam09084 946483003575 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 946483003576 SurA N-terminal domain; Region: SurA_N_3; cl07813 946483003577 periplasmic folding chaperone; Provisional; Region: PRK10788 946483003578 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 946483003579 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 946483003580 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 946483003581 minor groove reading motif; other site 946483003582 helix-hairpin-helix signature motif; other site 946483003583 substrate binding pocket [chemical binding]; other site 946483003584 active site 946483003585 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 946483003586 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483003587 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 946483003588 TPR repeat; Region: TPR_11; pfam13414 946483003589 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 946483003590 Secretin and TonB N terminus short domain; Region: STN; smart00965 946483003591 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 946483003592 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 946483003593 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 946483003594 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 946483003595 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 946483003596 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 946483003597 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 946483003598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 946483003599 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 946483003600 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 946483003601 DNA binding residues [nucleotide binding] 946483003602 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 946483003603 putative binding surface; other site 946483003604 active site 946483003605 Hpt domain; Region: Hpt; pfam01627 946483003606 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 946483003607 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003608 ATP binding site [chemical binding]; other site 946483003609 Mg2+ binding site [ion binding]; other site 946483003610 G-X-G motif; other site 946483003611 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483003612 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003614 active site 946483003615 phosphorylation site [posttranslational modification] 946483003616 intermolecular recognition site; other site 946483003617 dimerization interface [polypeptide binding]; other site 946483003618 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483003619 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003620 dimer interface [polypeptide binding]; other site 946483003621 putative CheW interface [polypeptide binding]; other site 946483003622 CheW-like domain; Region: CheW; pfam01584 946483003623 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003625 active site 946483003626 phosphorylation site [posttranslational modification] 946483003627 intermolecular recognition site; other site 946483003628 dimerization interface [polypeptide binding]; other site 946483003629 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003631 active site 946483003632 phosphorylation site [posttranslational modification] 946483003633 intermolecular recognition site; other site 946483003634 dimerization interface [polypeptide binding]; other site 946483003635 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 946483003636 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 946483003637 inhibitor-cofactor binding pocket; inhibition site 946483003638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483003639 catalytic residue [active] 946483003640 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 946483003641 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 946483003642 ligand binding site [chemical binding]; other site 946483003643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483003644 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003645 ATP binding site [chemical binding]; other site 946483003646 Mg2+ binding site [ion binding]; other site 946483003647 G-X-G motif; other site 946483003648 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483003649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003650 active site 946483003651 phosphorylation site [posttranslational modification] 946483003652 intermolecular recognition site; other site 946483003653 dimerization interface [polypeptide binding]; other site 946483003654 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003656 active site 946483003657 phosphorylation site [posttranslational modification] 946483003658 intermolecular recognition site; other site 946483003659 dimerization interface [polypeptide binding]; other site 946483003660 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 946483003661 PAS domain; Region: PAS_9; pfam13426 946483003662 putative active site [active] 946483003663 heme pocket [chemical binding]; other site 946483003664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483003665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483003666 metal binding site [ion binding]; metal-binding site 946483003667 active site 946483003668 I-site; other site 946483003669 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 946483003670 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 946483003671 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 946483003672 homodimer interface [polypeptide binding]; other site 946483003673 substrate-cofactor binding pocket; other site 946483003674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483003675 catalytic residue [active] 946483003676 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 946483003677 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 946483003678 NlpC/P60 family; Region: NLPC_P60; pfam00877 946483003679 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 946483003680 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 946483003681 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 946483003682 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 946483003683 S-adenosylmethionine binding site [chemical binding]; other site 946483003684 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 946483003685 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 946483003686 ATP-grasp domain; Region: ATP-grasp_4; cl17255 946483003687 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 946483003688 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 946483003689 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 946483003690 carboxyltransferase (CT) interaction site; other site 946483003691 biotinylation site [posttranslational modification]; other site 946483003692 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 946483003693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 946483003694 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483003695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483003696 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 946483003697 transaldolase-like protein; Provisional; Region: PTZ00411 946483003698 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 946483003699 active site 946483003700 dimer interface [polypeptide binding]; other site 946483003701 catalytic residue [active] 946483003702 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 946483003703 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 946483003704 active site 946483003705 dimer interface [polypeptide binding]; other site 946483003706 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 946483003707 dimer interface [polypeptide binding]; other site 946483003708 active site 946483003709 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 946483003710 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 946483003711 motif II; other site 946483003712 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 946483003713 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 946483003714 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 946483003715 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483003716 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483003717 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483003718 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483003719 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483003720 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483003721 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 946483003722 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 946483003723 dimer interface [polypeptide binding]; other site 946483003724 putative anticodon binding site; other site 946483003725 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 946483003726 motif 1; other site 946483003727 active site 946483003728 motif 2; other site 946483003729 motif 3; other site 946483003730 YGGT family; Region: YGGT; pfam02325 946483003731 YGGT family; Region: YGGT; pfam02325 946483003732 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 946483003733 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 946483003734 active site 946483003735 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 946483003736 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 946483003737 DHH family; Region: DHH; pfam01368 946483003738 DHHA1 domain; Region: DHHA1; pfam02272 946483003739 PAS fold; Region: PAS_2; pfam08446 946483003740 GAF domain; Region: GAF; pfam01590 946483003741 Phytochrome region; Region: PHY; pfam00360 946483003742 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 946483003743 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 946483003744 putative active site [active] 946483003745 heme pocket [chemical binding]; other site 946483003746 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 946483003747 putative active site [active] 946483003748 heme pocket [chemical binding]; other site 946483003749 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 946483003750 putative active site [active] 946483003751 heme pocket [chemical binding]; other site 946483003752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483003753 metal binding site [ion binding]; metal-binding site 946483003754 active site 946483003755 I-site; other site 946483003756 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 946483003757 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 946483003758 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 946483003759 PAS domain; Region: PAS_9; pfam13426 946483003760 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483003761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003762 dimer interface [polypeptide binding]; other site 946483003763 putative CheW interface [polypeptide binding]; other site 946483003764 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 946483003765 MutS domain I; Region: MutS_I; pfam01624 946483003766 MutS domain II; Region: MutS_II; pfam05188 946483003767 MutS domain III; Region: MutS_III; pfam05192 946483003768 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 946483003769 Walker A/P-loop; other site 946483003770 ATP binding site [chemical binding]; other site 946483003771 Q-loop/lid; other site 946483003772 ABC transporter signature motif; other site 946483003773 Walker B; other site 946483003774 D-loop; other site 946483003775 H-loop/switch region; other site 946483003776 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 946483003777 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 946483003778 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 946483003779 putative metal binding site [ion binding]; other site 946483003780 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 946483003781 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 946483003782 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 946483003783 putative metal binding site [ion binding]; other site 946483003784 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 946483003785 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 946483003786 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483003787 active site 946483003788 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 946483003789 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 946483003790 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 946483003791 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 946483003792 putative active site [active] 946483003793 catalytic residue [active] 946483003794 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 946483003795 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 946483003796 5S rRNA interface [nucleotide binding]; other site 946483003797 CTC domain interface [polypeptide binding]; other site 946483003798 L16 interface [polypeptide binding]; other site 946483003799 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 946483003800 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 946483003801 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483003802 active site 946483003803 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 946483003804 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 946483003805 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 946483003806 TPR repeat; Region: TPR_11; pfam13414 946483003807 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 946483003808 binding surface 946483003809 TPR motif; other site 946483003810 Dynamin family; Region: Dynamin_N; pfam00350 946483003811 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 946483003812 G1 box; other site 946483003813 GTP/Mg2+ binding site [chemical binding]; other site 946483003814 G2 box; other site 946483003815 Switch I region; other site 946483003816 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 946483003817 G3 box; other site 946483003818 Switch II region; other site 946483003819 GTP/Mg2+ binding site [chemical binding]; other site 946483003820 G4 box; other site 946483003821 G5 box; other site 946483003822 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 946483003823 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 946483003824 minor groove reading motif; other site 946483003825 helix-hairpin-helix signature motif; other site 946483003826 substrate binding pocket [chemical binding]; other site 946483003827 active site 946483003828 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 946483003829 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 946483003830 DNA binding and oxoG recognition site [nucleotide binding] 946483003831 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 946483003832 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 946483003833 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483003834 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 946483003835 putative active site [active] 946483003836 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 946483003837 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 946483003838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483003839 Walker A/P-loop; other site 946483003840 ATP binding site [chemical binding]; other site 946483003841 Q-loop/lid; other site 946483003842 ABC transporter signature motif; other site 946483003843 Walker B; other site 946483003844 D-loop; other site 946483003845 H-loop/switch region; other site 946483003846 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 946483003847 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 946483003848 binding surface 946483003849 TPR motif; other site 946483003850 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 946483003851 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 946483003852 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 946483003853 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 946483003854 trimer interface [polypeptide binding]; other site 946483003855 active site 946483003856 helicase 45; Provisional; Region: PTZ00424 946483003857 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 946483003858 ATP binding site [chemical binding]; other site 946483003859 Mg++ binding site [ion binding]; other site 946483003860 motif III; other site 946483003861 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 946483003862 nucleotide binding region [chemical binding]; other site 946483003863 ATP-binding site [chemical binding]; other site 946483003864 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 946483003865 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 946483003866 active site 946483003867 metal binding site [ion binding]; metal-binding site 946483003868 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 946483003869 Domain of unknown function DUF21; Region: DUF21; pfam01595 946483003870 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 946483003871 Transporter associated domain; Region: CorC_HlyC; smart01091 946483003872 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 946483003873 Lumazine binding domain; Region: Lum_binding; pfam00677 946483003874 Lumazine binding domain; Region: Lum_binding; pfam00677 946483003875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003876 dimer interface [polypeptide binding]; other site 946483003877 putative CheW interface [polypeptide binding]; other site 946483003878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003879 dimer interface [polypeptide binding]; other site 946483003880 putative CheW interface [polypeptide binding]; other site 946483003881 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 946483003882 CheW-like domain; Region: CheW; pfam01584 946483003883 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 946483003884 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 946483003885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003886 active site 946483003887 phosphorylation site [posttranslational modification] 946483003888 intermolecular recognition site; other site 946483003889 dimerization interface [polypeptide binding]; other site 946483003890 CheB methylesterase; Region: CheB_methylest; pfam01339 946483003891 HEAT repeats; Region: HEAT_2; pfam13646 946483003892 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483003893 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483003894 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483003895 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003897 active site 946483003898 phosphorylation site [posttranslational modification] 946483003899 intermolecular recognition site; other site 946483003900 dimerization interface [polypeptide binding]; other site 946483003901 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 946483003902 putative binding surface; other site 946483003903 active site 946483003904 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 946483003905 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 946483003906 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003907 ATP binding site [chemical binding]; other site 946483003908 Mg2+ binding site [ion binding]; other site 946483003909 G-X-G motif; other site 946483003910 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483003911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003912 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003913 active site 946483003914 phosphorylation site [posttranslational modification] 946483003915 intermolecular recognition site; other site 946483003916 dimerization interface [polypeptide binding]; other site 946483003917 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483003918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483003919 dimer interface [polypeptide binding]; other site 946483003920 putative CheW interface [polypeptide binding]; other site 946483003921 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 946483003922 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 946483003923 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 946483003924 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 946483003925 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 946483003926 ATP binding site [chemical binding]; other site 946483003927 Mg2+ binding site [ion binding]; other site 946483003928 G-X-G motif; other site 946483003929 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 946483003930 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 946483003931 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 946483003932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483003933 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 946483003934 dimer interface [polypeptide binding]; other site 946483003935 phosphorylation site [posttranslational modification] 946483003936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483003937 ATP binding site [chemical binding]; other site 946483003938 Mg2+ binding site [ion binding]; other site 946483003939 G-X-G motif; other site 946483003940 Response regulator receiver domain; Region: Response_reg; pfam00072 946483003941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483003942 active site 946483003943 phosphorylation site [posttranslational modification] 946483003944 intermolecular recognition site; other site 946483003945 dimerization interface [polypeptide binding]; other site 946483003946 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 946483003947 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 946483003948 P-loop; other site 946483003949 Magnesium ion binding site [ion binding]; other site 946483003950 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 946483003951 Magnesium ion binding site [ion binding]; other site 946483003952 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483003953 Methyltransferase domain; Region: Methyltransf_12; pfam08242 946483003954 pantothenate kinase; Reviewed; Region: PRK13329 946483003955 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 946483003956 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 946483003957 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 946483003958 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 946483003959 Walker A/P-loop; other site 946483003960 ATP binding site [chemical binding]; other site 946483003961 Q-loop/lid; other site 946483003962 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 946483003963 ABC transporter signature motif; other site 946483003964 Walker B; other site 946483003965 D-loop; other site 946483003966 H-loop/switch region; other site 946483003967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483003968 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 946483003969 NAD(P) binding site [chemical binding]; other site 946483003970 active site 946483003971 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 946483003972 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 946483003973 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 946483003974 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 946483003975 G1 box; other site 946483003976 GTP/Mg2+ binding site [chemical binding]; other site 946483003977 Switch I region; other site 946483003978 G2 box; other site 946483003979 G3 box; other site 946483003980 Switch II region; other site 946483003981 G4 box; other site 946483003982 G5 box; other site 946483003983 Nucleoside recognition; Region: Gate; pfam07670 946483003984 Nucleoside recognition; Region: Gate; pfam07670 946483003985 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 946483003986 ammonium transporter; Provisional; Region: PRK10666 946483003987 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 946483003988 Nitrogen regulatory protein P-II; Region: P-II; smart00938 946483003989 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 946483003990 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 946483003991 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 946483003992 Walker A motif; other site 946483003993 ATP binding site [chemical binding]; other site 946483003994 Walker B motif; other site 946483003995 arginine finger; other site 946483003996 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 946483003997 primosome assembly protein PriA; Validated; Region: PRK05580 946483003998 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 946483003999 ATP binding site [chemical binding]; other site 946483004000 putative Mg++ binding site [ion binding]; other site 946483004001 helicase superfamily c-terminal domain; Region: HELICc; smart00490 946483004002 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 946483004003 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 946483004004 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483004005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483004006 dimer interface [polypeptide binding]; other site 946483004007 putative CheW interface [polypeptide binding]; other site 946483004008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004010 metal binding site [ion binding]; metal-binding site 946483004011 active site 946483004012 I-site; other site 946483004013 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 946483004014 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 946483004015 Catalytic domain of Protein Kinases; Region: PKc; cd00180 946483004016 active site 946483004017 ATP binding site [chemical binding]; other site 946483004018 substrate binding site [chemical binding]; other site 946483004019 activation loop (A-loop); other site 946483004020 HDOD domain; Region: HDOD; pfam08668 946483004021 osmolarity response regulator; Provisional; Region: ompR; PRK09468 946483004022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004023 active site 946483004024 phosphorylation site [posttranslational modification] 946483004025 intermolecular recognition site; other site 946483004026 dimerization interface [polypeptide binding]; other site 946483004027 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 946483004028 DNA binding site [nucleotide binding] 946483004029 HAMP domain; Region: HAMP; pfam00672 946483004030 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 946483004031 dimer interface [polypeptide binding]; other site 946483004032 phosphorylation site [posttranslational modification] 946483004033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004034 ATP binding site [chemical binding]; other site 946483004035 Mg2+ binding site [ion binding]; other site 946483004036 G-X-G motif; other site 946483004037 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 946483004038 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 946483004039 N-terminal plug; other site 946483004040 ligand-binding site [chemical binding]; other site 946483004041 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 946483004042 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 946483004043 dimerization interface [polypeptide binding]; other site 946483004044 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004046 metal binding site [ion binding]; metal-binding site 946483004047 active site 946483004048 I-site; other site 946483004049 HNH endonuclease; Region: HNH_2; pfam13391 946483004050 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 946483004051 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 946483004052 active site 946483004053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004054 Walker A/P-loop; other site 946483004055 ATP binding site [chemical binding]; other site 946483004056 AAA domain; Region: AAA_21; pfam13304 946483004057 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 946483004058 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 946483004059 active site 946483004060 NTP binding site [chemical binding]; other site 946483004061 metal binding triad [ion binding]; metal-binding site 946483004062 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 946483004063 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 946483004064 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 946483004065 putative acyl-acceptor binding pocket; other site 946483004066 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 946483004067 putative acyl-acceptor binding pocket; other site 946483004068 S-adenosylmethionine synthetase; Validated; Region: PRK05250 946483004069 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 946483004070 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 946483004071 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 946483004072 replicative DNA helicase; Region: DnaB; TIGR00665 946483004073 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 946483004074 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 946483004075 Walker A motif; other site 946483004076 ATP binding site [chemical binding]; other site 946483004077 Walker B motif; other site 946483004078 DNA binding loops [nucleotide binding] 946483004079 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 946483004080 BON domain; Region: BON; pfam04972 946483004081 BON domain; Region: BON; pfam04972 946483004082 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 946483004083 dimer interface [polypeptide binding]; other site 946483004084 active site 946483004085 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 946483004086 dimer interface [polypeptide binding]; other site 946483004087 allosteric magnesium binding site [ion binding]; other site 946483004088 active site 946483004089 aspartate-rich active site metal binding site; other site 946483004090 Schiff base residues; other site 946483004091 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 946483004092 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 946483004093 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 946483004094 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 946483004095 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 946483004096 trimer interface [polypeptide binding]; other site 946483004097 active site 946483004098 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 946483004099 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 946483004100 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 946483004101 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 946483004102 23S rRNA interface [nucleotide binding]; other site 946483004103 L3 interface [polypeptide binding]; other site 946483004104 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 946483004105 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 946483004106 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 946483004107 catalytic motif [active] 946483004108 Zn binding site [ion binding]; other site 946483004109 RibD C-terminal domain; Region: RibD_C; cl17279 946483004110 O-Antigen ligase; Region: Wzy_C; pfam04932 946483004111 TPR repeat; Region: TPR_11; pfam13414 946483004112 CheB methylesterase; Region: CheB_methylest; pfam01339 946483004113 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483004114 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483004115 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483004116 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 946483004117 dimerization interface [polypeptide binding]; other site 946483004118 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483004119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483004120 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 946483004121 dimer interface [polypeptide binding]; other site 946483004122 phosphorylation site [posttranslational modification] 946483004123 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004124 ATP binding site [chemical binding]; other site 946483004125 Mg2+ binding site [ion binding]; other site 946483004126 G-X-G motif; other site 946483004127 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004129 active site 946483004130 phosphorylation site [posttranslational modification] 946483004131 intermolecular recognition site; other site 946483004132 dimerization interface [polypeptide binding]; other site 946483004133 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004135 active site 946483004136 phosphorylation site [posttranslational modification] 946483004137 intermolecular recognition site; other site 946483004138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483004139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004140 active site 946483004141 phosphorylation site [posttranslational modification] 946483004142 intermolecular recognition site; other site 946483004143 dimerization interface [polypeptide binding]; other site 946483004144 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 946483004145 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 946483004146 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004148 active site 946483004149 phosphorylation site [posttranslational modification] 946483004150 intermolecular recognition site; other site 946483004151 dimerization interface [polypeptide binding]; other site 946483004152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004154 metal binding site [ion binding]; metal-binding site 946483004155 active site 946483004156 I-site; other site 946483004157 Homeodomain-like domain; Region: HTH_23; pfam13384 946483004158 Winged helix-turn helix; Region: HTH_29; pfam13551 946483004159 Homeodomain-like domain; Region: HTH_32; pfam13565 946483004160 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 946483004161 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 946483004162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004163 AAA domain; Region: AAA_23; pfam13476 946483004164 AAA domain; Region: AAA_21; pfam13304 946483004165 Walker A/P-loop; other site 946483004166 ATP binding site [chemical binding]; other site 946483004167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004168 Walker B; other site 946483004169 D-loop; other site 946483004170 TIGR02646 family protein; Region: TIGR02646 946483004171 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 946483004172 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483004173 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483004174 Virulence protein [General function prediction only]; Region: COG3943 946483004175 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 946483004176 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 946483004177 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 946483004178 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 946483004179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004180 AAA domain; Region: AAA_21; pfam13304 946483004181 Walker A/P-loop; other site 946483004182 ATP binding site [chemical binding]; other site 946483004183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 946483004184 ABC transporter signature motif; other site 946483004185 Walker B; other site 946483004186 D-loop; other site 946483004187 H-loop/switch region; other site 946483004188 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483004189 Abi-like protein; Region: Abi_2; pfam07751 946483004190 epoxyqueuosine reductase; Region: TIGR00276 946483004191 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 946483004192 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 946483004193 AMIN domain; Region: AMIN; pfam11741 946483004194 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 946483004195 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 946483004196 active site 946483004197 metal binding site [ion binding]; metal-binding site 946483004198 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 946483004199 potassium uptake protein; Region: kup; TIGR00794 946483004200 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483004201 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 946483004202 putative active site [active] 946483004203 heme pocket [chemical binding]; other site 946483004204 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 946483004205 putative active site [active] 946483004206 heme pocket [chemical binding]; other site 946483004207 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 946483004208 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 946483004209 putative active site [active] 946483004210 heme pocket [chemical binding]; other site 946483004211 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 946483004212 dimer interface [polypeptide binding]; other site 946483004213 phosphorylation site [posttranslational modification] 946483004214 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004215 ATP binding site [chemical binding]; other site 946483004216 Mg2+ binding site [ion binding]; other site 946483004217 G-X-G motif; other site 946483004218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004219 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004220 active site 946483004221 phosphorylation site [posttranslational modification] 946483004222 intermolecular recognition site; other site 946483004223 dimerization interface [polypeptide binding]; other site 946483004224 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004226 active site 946483004227 phosphorylation site [posttranslational modification] 946483004228 intermolecular recognition site; other site 946483004229 dimerization interface [polypeptide binding]; other site 946483004230 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 946483004231 putative binding surface; other site 946483004232 active site 946483004233 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483004234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004235 active site 946483004236 phosphorylation site [posttranslational modification] 946483004237 intermolecular recognition site; other site 946483004238 dimerization interface [polypeptide binding]; other site 946483004239 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004240 Zn2+ binding site [ion binding]; other site 946483004241 Mg2+ binding site [ion binding]; other site 946483004242 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 946483004243 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 946483004244 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 946483004245 DsbD alpha interface [polypeptide binding]; other site 946483004246 catalytic residues [active] 946483004247 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 946483004248 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 946483004249 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 946483004250 intersubunit interface [polypeptide binding]; other site 946483004251 active site 946483004252 zinc binding site [ion binding]; other site 946483004253 Na+ binding site [ion binding]; other site 946483004254 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 946483004255 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 946483004256 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483004257 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 946483004258 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 946483004259 Substrate binding site; other site 946483004260 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 946483004261 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 946483004262 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 946483004263 active site 946483004264 Substrate binding site; other site 946483004265 Mg++ binding site; other site 946483004266 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 946483004267 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 946483004268 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 946483004269 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483004270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004271 Zn2+ binding site [ion binding]; other site 946483004272 Mg2+ binding site [ion binding]; other site 946483004273 flagellar motor protein MotA; Validated; Region: PRK09110 946483004274 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 946483004275 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 946483004276 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 946483004277 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 946483004278 ligand binding site [chemical binding]; other site 946483004279 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 946483004280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004281 active site 946483004282 phosphorylation site [posttranslational modification] 946483004283 intermolecular recognition site; other site 946483004284 dimerization interface [polypeptide binding]; other site 946483004285 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 946483004286 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 946483004287 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 946483004288 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 946483004289 FHIPEP family; Region: FHIPEP; pfam00771 946483004290 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 946483004291 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 946483004292 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 946483004293 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 946483004294 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 946483004295 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 946483004296 DNA binding residues [nucleotide binding] 946483004297 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 946483004298 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483004299 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 946483004300 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 946483004301 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 946483004302 sequence-specific DNA binding site [nucleotide binding]; other site 946483004303 salt bridge; other site 946483004304 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 946483004305 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 946483004306 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 946483004307 ATP binding site [chemical binding]; other site 946483004308 putative Mg++ binding site [ion binding]; other site 946483004309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 946483004310 Transposase; Region: DDE_Tnp_ISL3; pfam01610 946483004311 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 946483004312 SAF-like; Region: SAF_2; pfam13144 946483004313 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 946483004314 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 946483004315 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 946483004316 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 946483004317 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 946483004318 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 946483004319 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 946483004320 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 946483004321 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 946483004322 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 946483004323 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 946483004324 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 946483004325 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 946483004326 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 946483004327 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 946483004328 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 946483004329 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 946483004330 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 946483004331 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 946483004332 Flagellar L-ring protein; Region: FlgH; pfam02107 946483004333 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 946483004334 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 946483004335 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 946483004336 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 946483004337 Rod binding protein; Region: Rod-binding; cl01626 946483004338 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 946483004339 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 946483004340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 946483004341 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 946483004342 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 946483004343 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 946483004344 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 946483004345 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 946483004346 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483004347 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483004348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 946483004349 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 946483004350 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 946483004351 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 946483004352 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 946483004353 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 946483004354 putative active site [active] 946483004355 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483004356 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 946483004357 non-specific DNA binding site [nucleotide binding]; other site 946483004358 salt bridge; other site 946483004359 sequence-specific DNA binding site [nucleotide binding]; other site 946483004360 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 946483004361 Predicted ATPase [General function prediction only]; Region: COG4637 946483004362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004363 Walker A/P-loop; other site 946483004364 ATP binding site [chemical binding]; other site 946483004365 DNA methylase; Region: N6_N4_Mtase; cl17433 946483004366 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 946483004367 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483004368 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 946483004369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483004370 AAA domain; Region: AAA_21; pfam13304 946483004371 Walker A/P-loop; other site 946483004372 ATP binding site [chemical binding]; other site 946483004373 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 946483004374 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 946483004375 putative metal binding site [ion binding]; other site 946483004376 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 946483004377 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 946483004378 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 946483004379 PemK-like protein; Region: PemK; cl00995 946483004380 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 946483004381 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 946483004382 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 946483004383 glutamine binding [chemical binding]; other site 946483004384 catalytic triad [active] 946483004385 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 946483004386 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 946483004387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483004388 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 946483004389 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 946483004390 putative CoA binding site [chemical binding]; other site 946483004391 putative trimer interface [polypeptide binding]; other site 946483004392 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 946483004393 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 946483004394 active site 946483004395 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 946483004396 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 946483004397 metal-binding site 946483004398 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 946483004399 PAS fold; Region: PAS_3; pfam08447 946483004400 putative active site [active] 946483004401 heme pocket [chemical binding]; other site 946483004402 PAS fold; Region: PAS_4; pfam08448 946483004403 PAS domain S-box; Region: sensory_box; TIGR00229 946483004404 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 946483004405 putative active site [active] 946483004406 heme pocket [chemical binding]; other site 946483004407 PAS domain S-box; Region: sensory_box; TIGR00229 946483004408 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 946483004409 putative active site [active] 946483004410 heme pocket [chemical binding]; other site 946483004411 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 946483004412 PAS fold; Region: PAS_3; pfam08447 946483004413 putative active site [active] 946483004414 heme pocket [chemical binding]; other site 946483004415 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483004416 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 946483004417 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 946483004418 putative active site [active] 946483004419 heme pocket [chemical binding]; other site 946483004420 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 946483004421 dimer interface [polypeptide binding]; other site 946483004422 phosphorylation site [posttranslational modification] 946483004423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004424 ATP binding site [chemical binding]; other site 946483004425 Mg2+ binding site [ion binding]; other site 946483004426 G-X-G motif; other site 946483004427 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483004428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004429 active site 946483004430 phosphorylation site [posttranslational modification] 946483004431 intermolecular recognition site; other site 946483004432 dimerization interface [polypeptide binding]; other site 946483004433 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004435 active site 946483004436 phosphorylation site [posttranslational modification] 946483004437 intermolecular recognition site; other site 946483004438 dimerization interface [polypeptide binding]; other site 946483004439 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 946483004440 putative binding surface; other site 946483004441 active site 946483004442 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004444 active site 946483004445 phosphorylation site [posttranslational modification] 946483004446 intermolecular recognition site; other site 946483004447 dimerization interface [polypeptide binding]; other site 946483004448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004450 metal binding site [ion binding]; metal-binding site 946483004451 active site 946483004452 I-site; other site 946483004453 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483004454 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483004455 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 946483004456 O-Antigen ligase; Region: Wzy_C; pfam04932 946483004457 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 946483004458 EpsI family protein; Region: EpsI_fam; TIGR02914 946483004459 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 946483004460 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 946483004461 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 946483004462 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 946483004463 chain length determinant protein EpsF; Region: EpsF; TIGR03017 946483004464 Chain length determinant protein; Region: Wzz; cl15801 946483004465 Chain length determinant protein; Region: Wzz; cl15801 946483004466 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 946483004467 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 946483004468 SLBB domain; Region: SLBB; pfam10531 946483004469 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 946483004470 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 946483004471 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 946483004472 transcriptional regulator EpsA; Region: EpsA; TIGR03020 946483004473 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 946483004474 DNA binding residues [nucleotide binding] 946483004475 dimerization interface [polypeptide binding]; other site 946483004476 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 946483004477 putative hydrolase; Provisional; Region: PRK11460 946483004478 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 946483004479 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 946483004480 hypothetical protein; Provisional; Region: PRK01254 946483004481 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 946483004482 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 946483004483 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 946483004484 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 946483004485 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 946483004486 dimerization interface [polypeptide binding]; other site 946483004487 active site 946483004488 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 946483004489 homopentamer interface [polypeptide binding]; other site 946483004490 active site 946483004491 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 946483004492 putative RNA binding site [nucleotide binding]; other site 946483004493 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 946483004494 active site 946483004495 TolQ protein; Region: tolQ; TIGR02796 946483004496 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 946483004497 TolR protein; Region: tolR; TIGR02801 946483004498 TonB C terminal; Region: TonB_2; pfam13103 946483004499 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 946483004500 active site 946483004501 PII uridylyl-transferase; Provisional; Region: PRK03059 946483004502 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 946483004503 metal binding triad; other site 946483004504 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 946483004505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004506 Zn2+ binding site [ion binding]; other site 946483004507 Mg2+ binding site [ion binding]; other site 946483004508 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 946483004509 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 946483004510 Flagellar protein FliS; Region: FliS; cl00654 946483004511 Flagellar protein FliS; Region: FliS; cl00654 946483004512 flagellar capping protein; Reviewed; Region: fliD; PRK08032 946483004513 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 946483004514 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 946483004515 flagellin; Provisional; Region: PRK12806 946483004516 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 946483004517 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 946483004518 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 946483004519 flagellin; Provisional; Region: PRK12806 946483004520 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 946483004521 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 946483004522 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 946483004523 binding surface 946483004524 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483004525 TPR motif; other site 946483004526 TPR repeat; Region: TPR_11; pfam13414 946483004527 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 946483004528 binding surface 946483004529 TPR motif; other site 946483004530 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 946483004531 binding surface 946483004532 TPR motif; other site 946483004533 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 946483004534 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 946483004535 PYR/PP interface [polypeptide binding]; other site 946483004536 dimer interface [polypeptide binding]; other site 946483004537 TPP binding site [chemical binding]; other site 946483004538 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 946483004539 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 946483004540 TPP-binding site [chemical binding]; other site 946483004541 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 946483004542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483004543 NAD(P) binding site [chemical binding]; other site 946483004544 active site 946483004545 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 946483004546 NeuB family; Region: NeuB; pfam03102 946483004547 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 946483004548 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 946483004549 catalytic residues [active] 946483004550 substrate binding pocket [chemical binding]; other site 946483004551 substrate-Mg2+ binding site; other site 946483004552 aspartate-rich region 1; other site 946483004553 aspartate-rich region 2; other site 946483004554 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 946483004555 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 946483004556 Transposase IS200 like; Region: Y1_Tnp; pfam01797 946483004557 Flagellin N-methylase; Region: FliB; pfam03692 946483004558 EcsC protein family; Region: EcsC; pfam12787 946483004559 Predicted transcriptional regulator [Transcription]; Region: COG2378 946483004560 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 946483004561 WYL domain; Region: WYL; pfam13280 946483004562 RelB antitoxin; Region: RelB; cl01171 946483004563 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 946483004564 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 946483004565 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 946483004566 RES domain; Region: RES; cl02411 946483004567 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483004568 HicB family; Region: HicB; pfam05534 946483004569 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 946483004570 non-specific DNA binding site [nucleotide binding]; other site 946483004571 salt bridge; other site 946483004572 sequence-specific DNA binding site [nucleotide binding]; other site 946483004573 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 946483004574 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 946483004575 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 946483004576 non-specific DNA binding site [nucleotide binding]; other site 946483004577 salt bridge; other site 946483004578 sequence-specific DNA binding site [nucleotide binding]; other site 946483004579 BON domain; Region: BON; pfam04972 946483004580 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 946483004581 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 946483004582 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 946483004583 ligand binding site [chemical binding]; other site 946483004584 CsbD-like; Region: CsbD; pfam05532 946483004585 PRC-barrel domain; Region: PRC; pfam05239 946483004586 Putative glucoamylase; Region: Glycoamylase; pfam10091 946483004587 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 946483004588 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 946483004589 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 946483004590 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 946483004591 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 946483004592 ligand binding site [chemical binding]; other site 946483004593 flexible hinge region; other site 946483004594 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 946483004595 non-specific DNA interactions [nucleotide binding]; other site 946483004596 DNA binding site [nucleotide binding] 946483004597 sequence specific DNA binding site [nucleotide binding]; other site 946483004598 putative cAMP binding site [chemical binding]; other site 946483004599 Uncharacterized conserved protein [Function unknown]; Region: COG3287 946483004600 FIST N domain; Region: FIST; pfam08495 946483004601 FIST C domain; Region: FIST_C; pfam10442 946483004602 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483004603 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483004604 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 946483004605 Malic enzyme, N-terminal domain; Region: malic; pfam00390 946483004606 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 946483004607 putative NAD(P) binding site [chemical binding]; other site 946483004608 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 946483004609 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 946483004610 homodimer interface [polypeptide binding]; other site 946483004611 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 946483004612 active site pocket [active] 946483004613 glycogen branching enzyme; Provisional; Region: PRK05402 946483004614 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 946483004615 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 946483004616 active site 946483004617 catalytic site [active] 946483004618 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 946483004619 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 946483004620 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 946483004621 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 946483004622 active site 946483004623 catalytic site [active] 946483004624 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 946483004625 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 946483004626 Uncharacterized conserved protein [Function unknown]; Region: COG5316 946483004627 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 946483004628 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 946483004629 Protein of unknown function (DUF497); Region: DUF497; cl01108 946483004630 4-alpha-glucanotransferase; Provisional; Region: PRK14508 946483004631 glycogen synthase; Provisional; Region: glgA; PRK00654 946483004632 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 946483004633 ADP-binding pocket [chemical binding]; other site 946483004634 homodimer interface [polypeptide binding]; other site 946483004635 phosphoglucomutase; Region: PLN02307 946483004636 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 946483004637 active site 946483004638 substrate binding site [chemical binding]; other site 946483004639 metal binding site [ion binding]; metal-binding site 946483004640 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 946483004641 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 946483004642 G1 box; other site 946483004643 putative GEF interaction site [polypeptide binding]; other site 946483004644 GTP/Mg2+ binding site [chemical binding]; other site 946483004645 Switch I region; other site 946483004646 G2 box; other site 946483004647 G3 box; other site 946483004648 Switch II region; other site 946483004649 G4 box; other site 946483004650 G5 box; other site 946483004651 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 946483004652 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 946483004653 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 946483004654 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 946483004655 ATP-grasp domain; Region: ATP-grasp; pfam02222 946483004656 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 946483004657 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 946483004658 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 946483004659 antiporter inner membrane protein; Provisional; Region: PRK11670 946483004660 Domain of unknown function DUF59; Region: DUF59; pfam01883 946483004661 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 946483004662 Walker A motif; other site 946483004663 AmpG-like permease; Region: 2A0125; TIGR00901 946483004664 D-cysteine desulfhydrase; Validated; Region: PRK03910 946483004665 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 946483004666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483004667 catalytic residue [active] 946483004668 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 946483004669 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 946483004670 Walker A/P-loop; other site 946483004671 ATP binding site [chemical binding]; other site 946483004672 Q-loop/lid; other site 946483004673 ABC transporter signature motif; other site 946483004674 Walker B; other site 946483004675 D-loop; other site 946483004676 H-loop/switch region; other site 946483004677 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 946483004678 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 946483004679 ABC-ATPase subunit interface; other site 946483004680 putative PBP binding loops; other site 946483004681 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 946483004682 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483004683 substrate binding pocket [chemical binding]; other site 946483004684 membrane-bound complex binding site; other site 946483004685 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 946483004686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004687 active site 946483004688 phosphorylation site [posttranslational modification] 946483004689 intermolecular recognition site; other site 946483004690 dimerization interface [polypeptide binding]; other site 946483004691 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 946483004692 DNA binding site [nucleotide binding] 946483004693 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 946483004694 dimerization interface [polypeptide binding]; other site 946483004695 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 946483004696 dimer interface [polypeptide binding]; other site 946483004697 phosphorylation site [posttranslational modification] 946483004698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004699 ATP binding site [chemical binding]; other site 946483004700 G-X-G motif; other site 946483004701 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 946483004702 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 946483004703 putative active site [active] 946483004704 Zinc-finger domain; Region: zf-CHCC; cl01821 946483004705 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483004706 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 946483004707 dimerization interface [polypeptide binding]; other site 946483004708 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 946483004709 dimer interface [polypeptide binding]; other site 946483004710 phosphorylation site [posttranslational modification] 946483004711 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004712 ATP binding site [chemical binding]; other site 946483004713 Mg2+ binding site [ion binding]; other site 946483004714 G-X-G motif; other site 946483004715 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483004716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004717 active site 946483004718 phosphorylation site [posttranslational modification] 946483004719 intermolecular recognition site; other site 946483004720 dimerization interface [polypeptide binding]; other site 946483004721 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 946483004722 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483004723 Tar ligand binding domain homologue; Region: TarH; pfam02203 946483004724 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483004725 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 946483004726 dimerization interface [polypeptide binding]; other site 946483004727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483004728 dimer interface [polypeptide binding]; other site 946483004729 putative CheW interface [polypeptide binding]; other site 946483004730 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 946483004731 TRAM domain; Region: TRAM; pfam01938 946483004732 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 946483004733 S-adenosylmethionine binding site [chemical binding]; other site 946483004734 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 946483004735 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 946483004736 Peptidase family M23; Region: Peptidase_M23; pfam01551 946483004737 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 946483004738 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 946483004739 Transglycosylase; Region: Transgly; pfam00912 946483004740 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 946483004741 Competence protein A; Region: Competence_A; pfam11104 946483004742 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 946483004743 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 946483004744 Pilus assembly protein, PilO; Region: PilO; pfam04350 946483004745 Pilus assembly protein, PilP; Region: PilP; pfam04351 946483004746 AMIN domain; Region: AMIN; pfam11741 946483004747 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 946483004748 Secretin and TonB N terminus short domain; Region: STN; smart00965 946483004749 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 946483004750 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 946483004751 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 946483004752 shikimate kinase; Reviewed; Region: aroK; PRK00131 946483004753 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 946483004754 ADP binding site [chemical binding]; other site 946483004755 magnesium binding site [ion binding]; other site 946483004756 putative shikimate binding site; other site 946483004757 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 946483004758 IHF dimer interface [polypeptide binding]; other site 946483004759 IHF - DNA interface [nucleotide binding]; other site 946483004760 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 946483004761 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 946483004762 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 946483004763 GIY-YIG motif/motif A; other site 946483004764 active site 946483004765 catalytic site [active] 946483004766 putative DNA binding site [nucleotide binding]; other site 946483004767 metal binding site [ion binding]; metal-binding site 946483004768 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 946483004769 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 946483004770 elongation factor P; Validated; Region: PRK00529 946483004771 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 946483004772 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 946483004773 RNA binding site [nucleotide binding]; other site 946483004774 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 946483004775 RNA binding site [nucleotide binding]; other site 946483004776 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 946483004777 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 946483004778 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 946483004779 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 946483004780 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 946483004781 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 946483004782 NADP binding site [chemical binding]; other site 946483004783 active site 946483004784 putative substrate binding site [chemical binding]; other site 946483004785 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 946483004786 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 946483004787 substrate binding site; other site 946483004788 tetramer interface; other site 946483004789 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483004790 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483004791 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483004792 CheD chemotactic sensory transduction; Region: CheD; cl00810 946483004793 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 946483004794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004795 active site 946483004796 phosphorylation site [posttranslational modification] 946483004797 intermolecular recognition site; other site 946483004798 dimerization interface [polypeptide binding]; other site 946483004799 CheB methylesterase; Region: CheB_methylest; pfam01339 946483004800 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 946483004801 cyclase homology domain; Region: CHD; cd07302 946483004802 nucleotidyl binding site; other site 946483004803 metal binding site [ion binding]; metal-binding site 946483004804 dimer interface [polypeptide binding]; other site 946483004805 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 946483004806 generic binding surface II; other site 946483004807 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 946483004808 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 946483004809 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 946483004810 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 946483004811 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 946483004812 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 946483004813 eyelet of channel; other site 946483004814 trimer interface [polypeptide binding]; other site 946483004815 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 946483004816 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 946483004817 homotetramer interface [polypeptide binding]; other site 946483004818 ligand binding site [chemical binding]; other site 946483004819 catalytic site [active] 946483004820 NAD binding site [chemical binding]; other site 946483004821 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 946483004822 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 946483004823 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 946483004824 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 946483004825 FAD binding site [chemical binding]; other site 946483004826 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 946483004827 Divergent AAA domain; Region: AAA_4; pfam04326 946483004828 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 946483004829 Divergent AAA domain; Region: AAA_4; pfam04326 946483004830 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 946483004831 PAS domain S-box; Region: sensory_box; TIGR00229 946483004832 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 946483004833 putative active site [active] 946483004834 heme pocket [chemical binding]; other site 946483004835 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 946483004836 PAS domain; Region: PAS_9; pfam13426 946483004837 putative active site [active] 946483004838 heme pocket [chemical binding]; other site 946483004839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004841 metal binding site [ion binding]; metal-binding site 946483004842 active site 946483004843 I-site; other site 946483004844 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 946483004845 dihydroorotase; Provisional; Region: PRK07627 946483004846 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 946483004847 active site 946483004848 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 946483004849 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 946483004850 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 946483004851 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 946483004852 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483004853 active site 946483004854 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 946483004855 hypothetical protein; Validated; Region: PRK00228 946483004856 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 946483004857 DNA photolyase; Region: DNA_photolyase; pfam00875 946483004858 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483004859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004860 active site 946483004861 phosphorylation site [posttranslational modification] 946483004862 intermolecular recognition site; other site 946483004863 dimerization interface [polypeptide binding]; other site 946483004864 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004865 Zn2+ binding site [ion binding]; other site 946483004866 Mg2+ binding site [ion binding]; other site 946483004867 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 946483004868 catalytic triad [active] 946483004869 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 946483004870 Sensors of blue-light using FAD; Region: BLUF; pfam04940 946483004871 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004873 metal binding site [ion binding]; metal-binding site 946483004874 active site 946483004875 I-site; other site 946483004876 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 946483004877 Chemotaxis phosphatase CheX; Region: CheX; cl15816 946483004878 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483004879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004880 active site 946483004881 phosphorylation site [posttranslational modification] 946483004882 intermolecular recognition site; other site 946483004883 dimerization interface [polypeptide binding]; other site 946483004884 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 946483004885 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 946483004886 Substrate binding site; other site 946483004887 metal-binding site 946483004888 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 946483004889 proline aminopeptidase P II; Provisional; Region: PRK10879 946483004890 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 946483004891 active site 946483004892 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 946483004893 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 946483004894 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 946483004895 active site 946483004896 catalytic residue [active] 946483004897 dimer interface [polypeptide binding]; other site 946483004898 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483004899 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 946483004900 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 946483004901 putative active site [active] 946483004902 heme pocket [chemical binding]; other site 946483004903 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 946483004904 putative active site [active] 946483004905 heme pocket [chemical binding]; other site 946483004906 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 946483004907 dimer interface [polypeptide binding]; other site 946483004908 phosphorylation site [posttranslational modification] 946483004909 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004910 ATP binding site [chemical binding]; other site 946483004911 Mg2+ binding site [ion binding]; other site 946483004912 G-X-G motif; other site 946483004913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004914 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004915 active site 946483004916 phosphorylation site [posttranslational modification] 946483004917 intermolecular recognition site; other site 946483004918 dimerization interface [polypeptide binding]; other site 946483004919 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004921 active site 946483004922 phosphorylation site [posttranslational modification] 946483004923 intermolecular recognition site; other site 946483004924 dimerization interface [polypeptide binding]; other site 946483004925 Hpt domain; Region: Hpt; pfam01627 946483004926 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483004927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004928 active site 946483004929 phosphorylation site [posttranslational modification] 946483004930 intermolecular recognition site; other site 946483004931 dimerization interface [polypeptide binding]; other site 946483004932 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004933 Zn2+ binding site [ion binding]; other site 946483004934 Mg2+ binding site [ion binding]; other site 946483004935 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483004936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004937 active site 946483004938 phosphorylation site [posttranslational modification] 946483004939 intermolecular recognition site; other site 946483004940 dimerization interface [polypeptide binding]; other site 946483004941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483004942 Zn2+ binding site [ion binding]; other site 946483004943 Mg2+ binding site [ion binding]; other site 946483004944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004945 active site 946483004946 phosphorylation site [posttranslational modification] 946483004947 intermolecular recognition site; other site 946483004948 dimerization interface [polypeptide binding]; other site 946483004949 Response regulator receiver domain; Region: Response_reg; pfam00072 946483004950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483004951 active site 946483004952 phosphorylation site [posttranslational modification] 946483004953 intermolecular recognition site; other site 946483004954 dimerization interface [polypeptide binding]; other site 946483004955 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483004956 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 946483004957 putative active site [active] 946483004958 heme pocket [chemical binding]; other site 946483004959 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 946483004960 dimer interface [polypeptide binding]; other site 946483004961 phosphorylation site [posttranslational modification] 946483004962 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483004963 ATP binding site [chemical binding]; other site 946483004964 Mg2+ binding site [ion binding]; other site 946483004965 G-X-G motif; other site 946483004966 PAS domain S-box; Region: sensory_box; TIGR00229 946483004967 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 946483004968 putative active site [active] 946483004969 heme pocket [chemical binding]; other site 946483004970 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 946483004971 PAS fold; Region: PAS_3; pfam08447 946483004972 putative active site [active] 946483004973 heme pocket [chemical binding]; other site 946483004974 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 946483004975 PAS domain; Region: PAS_9; pfam13426 946483004976 putative active site [active] 946483004977 heme pocket [chemical binding]; other site 946483004978 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004980 metal binding site [ion binding]; metal-binding site 946483004981 active site 946483004982 I-site; other site 946483004983 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 946483004984 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 946483004985 nudix motif; other site 946483004986 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 946483004987 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 946483004988 PAS fold; Region: PAS_4; pfam08448 946483004989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483004990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483004991 metal binding site [ion binding]; metal-binding site 946483004992 active site 946483004993 I-site; other site 946483004994 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 946483004995 AAA domain; Region: AAA_14; pfam13173 946483004996 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 946483004997 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 946483004998 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 946483004999 active site residue [active] 946483005000 AAA domain; Region: AAA_17; pfam13207 946483005001 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 946483005002 CPxP motif; other site 946483005003 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 946483005004 Phosphotransferase enzyme family; Region: APH; pfam01636 946483005005 putative active site [active] 946483005006 putative substrate binding site [chemical binding]; other site 946483005007 ATP binding site [chemical binding]; other site 946483005008 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 946483005009 mobile mystery protein B; Region: mob_myst_B; TIGR02613 946483005010 Fic/DOC family; Region: Fic; pfam02661 946483005011 mobile mystery protein A; Region: mob_myst_A; TIGR02612 946483005012 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 946483005013 non-specific DNA binding site [nucleotide binding]; other site 946483005014 salt bridge; other site 946483005015 sequence-specific DNA binding site [nucleotide binding]; other site 946483005016 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 946483005017 putative active site [active] 946483005018 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 946483005019 generic binding surface II; other site 946483005020 ssDNA binding site; other site 946483005021 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483005022 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 946483005023 ATP binding site [chemical binding]; other site 946483005024 putative Mg++ binding site [ion binding]; other site 946483005025 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 946483005026 nucleotide binding region [chemical binding]; other site 946483005027 ATP-binding site [chemical binding]; other site 946483005028 DNA topoisomerase III; Validated; Region: PRK08173 946483005029 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 946483005030 active site 946483005031 putative interdomain interaction site [polypeptide binding]; other site 946483005032 putative metal-binding site [ion binding]; other site 946483005033 putative nucleotide binding site [chemical binding]; other site 946483005034 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; cl11986 946483005035 domain I; other site 946483005036 phosphate binding site [ion binding]; other site 946483005037 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 946483005038 domain II; other site 946483005039 domain III; other site 946483005040 nucleotide binding site [chemical binding]; other site 946483005041 DNA binding groove [nucleotide binding] 946483005042 catalytic site [active] 946483005043 domain IV; other site 946483005044 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 946483005045 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 946483005046 SWI complex, BAF60b domains; Region: SWIB; smart00151 946483005047 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 946483005048 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 946483005049 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 946483005050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 946483005051 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 946483005052 Probable transposase; Region: OrfB_IS605; pfam01385 946483005053 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 946483005054 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 946483005055 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 946483005056 DNA binding residues [nucleotide binding] 946483005057 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 946483005058 catalytic residues [active] 946483005059 catalytic nucleophile [active] 946483005060 crystallin beta/gamma motif-containing protein; Region: PHA00657 946483005061 AntA/AntB antirepressor; Region: AntA; pfam08346 946483005062 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 946483005063 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483005064 YcfA-like protein; Region: YcfA; pfam07927 946483005065 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 946483005066 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 946483005067 RNB domain; Region: RNB; pfam00773 946483005068 TonB C terminal; Region: TonB_2; pfam13103 946483005069 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 946483005070 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 946483005071 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 946483005072 shikimate binding site; other site 946483005073 NAD(P) binding site [chemical binding]; other site 946483005074 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 946483005075 Transglycosylase; Region: Transgly; cl17702 946483005076 PEP-CTERM motif; Region: VPEP; pfam07589 946483005077 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 946483005078 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 946483005079 P-loop; other site 946483005080 Magnesium ion binding site [ion binding]; other site 946483005081 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 946483005082 active site 946483005083 cellulose synthase regulator protein; Provisional; Region: PRK11114 946483005084 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 946483005085 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 946483005086 P-loop; other site 946483005087 Magnesium ion binding site [ion binding]; other site 946483005088 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 946483005089 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 946483005090 active site 946483005091 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 946483005092 O-Antigen ligase; Region: Wzy_C; pfam04932 946483005093 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 946483005094 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 946483005095 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 946483005096 trimer interface [polypeptide binding]; other site 946483005097 eyelet of channel; other site 946483005098 HDOD domain; Region: HDOD; pfam08668 946483005099 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 946483005100 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 946483005101 catalytic residue [active] 946483005102 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 946483005103 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 946483005104 putative active site [active] 946483005105 heme pocket [chemical binding]; other site 946483005106 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 946483005107 dimer interface [polypeptide binding]; other site 946483005108 phosphorylation site [posttranslational modification] 946483005109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005110 ATP binding site [chemical binding]; other site 946483005111 Mg2+ binding site [ion binding]; other site 946483005112 G-X-G motif; other site 946483005113 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483005114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005115 active site 946483005116 phosphorylation site [posttranslational modification] 946483005117 intermolecular recognition site; other site 946483005118 dimerization interface [polypeptide binding]; other site 946483005119 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 946483005120 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 946483005121 dimer interface [polypeptide binding]; other site 946483005122 ssDNA binding site [nucleotide binding]; other site 946483005123 tetramer (dimer of dimers) interface [polypeptide binding]; other site 946483005124 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 946483005125 RNA/DNA hybrid binding site [nucleotide binding]; other site 946483005126 active site 946483005127 Methyltransferase domain; Region: Methyltransf_11; pfam08241 946483005128 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 946483005129 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 946483005130 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 946483005131 N-acetyl-D-glucosamine binding site [chemical binding]; other site 946483005132 catalytic residue [active] 946483005133 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 946483005134 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 946483005135 active site 946483005136 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 946483005137 O-Antigen ligase; Region: Wzy_C; pfam04932 946483005138 hypothetical protein; Provisional; Region: PRK14673 946483005139 aminopeptidase N; Provisional; Region: pepN; PRK14015 946483005140 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 946483005141 Zn binding site [ion binding]; other site 946483005142 peptide chain release factor 2; Validated; Region: prfB; PRK00578 946483005143 This domain is found in peptide chain release factors; Region: PCRF; smart00937 946483005144 RF-1 domain; Region: RF-1; pfam00472 946483005145 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 946483005146 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 946483005147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 946483005148 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 946483005149 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 946483005150 active site 946483005151 dimer interface [polypeptide binding]; other site 946483005152 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 946483005153 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 946483005154 active site 946483005155 FMN binding site [chemical binding]; other site 946483005156 substrate binding site [chemical binding]; other site 946483005157 3Fe-4S cluster binding site [ion binding]; other site 946483005158 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 946483005159 domain interface; other site 946483005160 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 946483005161 Glycosyl hydrolase family 81; Region: Glyco_hydro_81; cl02310 946483005162 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 946483005163 active site 946483005164 catalytic residues [active] 946483005165 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 946483005166 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 946483005167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483005168 Walker A/P-loop; other site 946483005169 ATP binding site [chemical binding]; other site 946483005170 Q-loop/lid; other site 946483005171 ABC transporter signature motif; other site 946483005172 Walker B; other site 946483005173 D-loop; other site 946483005174 H-loop/switch region; other site 946483005175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005176 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005177 active site 946483005178 phosphorylation site [posttranslational modification] 946483005179 intermolecular recognition site; other site 946483005180 dimerization interface [polypeptide binding]; other site 946483005181 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 946483005182 binding surface 946483005183 TPR motif; other site 946483005184 Tetratricopeptide repeat; Region: TPR_12; pfam13424 946483005185 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 946483005186 active site 946483005187 Fe-S cluster binding site [ion binding]; other site 946483005188 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 946483005189 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 946483005190 Coenzyme A binding pocket [chemical binding]; other site 946483005191 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 946483005192 Glycoprotease family; Region: Peptidase_M22; pfam00814 946483005193 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 946483005194 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 946483005195 active site 946483005196 HIGH motif; other site 946483005197 KMSKS motif; other site 946483005198 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 946483005199 anticodon binding site; other site 946483005200 tRNA binding surface [nucleotide binding]; other site 946483005201 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 946483005202 dimer interface [polypeptide binding]; other site 946483005203 putative tRNA-binding site [nucleotide binding]; other site 946483005204 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483005205 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 946483005206 dimerization interface [polypeptide binding]; other site 946483005207 PAS domain S-box; Region: sensory_box; TIGR00229 946483005208 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 946483005209 putative active site [active] 946483005210 heme pocket [chemical binding]; other site 946483005211 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 946483005212 PAS domain; Region: PAS_9; pfam13426 946483005213 putative active site [active] 946483005214 heme pocket [chemical binding]; other site 946483005215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 946483005216 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 946483005217 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 946483005218 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 946483005219 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 946483005220 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 946483005221 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 946483005222 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 946483005223 PemK-like protein; Region: PemK; pfam02452 946483005224 Predicted methyltransferases [General function prediction only]; Region: COG0313 946483005225 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 946483005226 putative SAM binding site [chemical binding]; other site 946483005227 putative homodimer interface [polypeptide binding]; other site 946483005228 heat shock protein HtpX; Provisional; Region: PRK05457 946483005229 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 946483005230 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 946483005231 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 946483005232 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 946483005233 Pilin (bacterial filament); Region: Pilin; pfam00114 946483005234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 946483005235 FliG C-terminal domain; Region: FliG_C; pfam01706 946483005236 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 946483005237 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 946483005238 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 946483005239 active site 946483005240 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 946483005241 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 946483005242 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 946483005243 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 946483005244 Uncharacterized conserved protein [Function unknown]; Region: COG1262 946483005245 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 946483005246 DnaJ domain; Region: DnaJ; pfam00226 946483005247 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 946483005248 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 946483005249 nucleotide binding site [chemical binding]; other site 946483005250 putative NEF/HSP70 interaction site [polypeptide binding]; other site 946483005251 SBD interface [polypeptide binding]; other site 946483005252 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 946483005253 putative transposase OrfB; Reviewed; Region: PHA02517 946483005254 Homeodomain-like domain; Region: HTH_32; pfam13565 946483005255 Integrase core domain; Region: rve; pfam00665 946483005256 Integrase core domain; Region: rve_3; pfam13683 946483005257 Transposase; Region: HTH_Tnp_1; cl17663 946483005258 DNA polymerase I; Region: pola; TIGR00593 946483005259 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 946483005260 active site 946483005261 metal binding site 1 [ion binding]; metal-binding site 946483005262 putative 5' ssDNA interaction site; other site 946483005263 metal binding site 3; metal-binding site 946483005264 metal binding site 2 [ion binding]; metal-binding site 946483005265 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 946483005266 putative DNA binding site [nucleotide binding]; other site 946483005267 putative metal binding site [ion binding]; other site 946483005268 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 946483005269 active site 946483005270 catalytic site [active] 946483005271 substrate binding site [chemical binding]; other site 946483005272 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 946483005273 active site 946483005274 DNA binding site [nucleotide binding] 946483005275 catalytic site [active] 946483005276 aspartate kinase; Provisional; Region: PRK06291 946483005277 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 946483005278 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 946483005279 metal ion-dependent adhesion site (MIDAS); other site 946483005280 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 946483005281 Transposase domain (DUF772); Region: DUF772; pfam05598 946483005282 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483005283 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 946483005284 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 946483005285 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483005286 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483005287 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 946483005288 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 946483005289 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 946483005290 folate binding site [chemical binding]; other site 946483005291 NADP+ binding site [chemical binding]; other site 946483005292 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483005293 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483005294 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483005295 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483005296 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 946483005297 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005299 active site 946483005300 phosphorylation site [posttranslational modification] 946483005301 intermolecular recognition site; other site 946483005302 dimerization interface [polypeptide binding]; other site 946483005303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483005304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483005305 metal binding site [ion binding]; metal-binding site 946483005306 active site 946483005307 I-site; other site 946483005308 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 946483005309 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 946483005310 dimerization interface [polypeptide binding]; other site 946483005311 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 946483005312 dimer interface [polypeptide binding]; other site 946483005313 phosphorylation site [posttranslational modification] 946483005314 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005315 ATP binding site [chemical binding]; other site 946483005316 Mg2+ binding site [ion binding]; other site 946483005317 G-X-G motif; other site 946483005318 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005320 active site 946483005321 phosphorylation site [posttranslational modification] 946483005322 intermolecular recognition site; other site 946483005323 dimerization interface [polypeptide binding]; other site 946483005324 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005326 active site 946483005327 phosphorylation site [posttranslational modification] 946483005328 intermolecular recognition site; other site 946483005329 dimerization interface [polypeptide binding]; other site 946483005330 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 946483005331 putative binding surface; other site 946483005332 active site 946483005333 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 946483005334 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 946483005335 type II secretion system protein E; Region: type_II_gspE; TIGR02533 946483005336 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 946483005337 Walker A motif; other site 946483005338 ATP binding site [chemical binding]; other site 946483005339 Walker B motif; other site 946483005340 type II secretion system protein D; Region: type_II_gspD; TIGR02517 946483005341 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 946483005342 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 946483005343 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 946483005344 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 946483005345 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 946483005346 GspL periplasmic domain; Region: GspL_C; cl14909 946483005347 DNA methylase; Region: N6_N4_Mtase; cl17433 946483005348 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 946483005349 DNA methylase; Region: N6_N4_Mtase; cl17433 946483005350 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 946483005351 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 946483005352 CAP-like domain; other site 946483005353 active site 946483005354 primary dimer interface [polypeptide binding]; other site 946483005355 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 946483005356 dimer interface [polypeptide binding]; other site 946483005357 ADP-ribose binding site [chemical binding]; other site 946483005358 active site 946483005359 nudix motif; other site 946483005360 metal binding site [ion binding]; metal-binding site 946483005361 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 946483005362 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 946483005363 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 946483005364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 946483005365 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 946483005366 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 946483005367 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 946483005368 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 946483005369 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 946483005370 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 946483005371 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 946483005372 4Fe-4S binding domain; Region: Fer4; cl02805 946483005373 4Fe-4S binding domain; Region: Fer4; pfam00037 946483005374 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 946483005375 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 946483005376 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 946483005377 NADH dehydrogenase subunit G; Validated; Region: PRK09129 946483005378 catalytic loop [active] 946483005379 iron binding site [ion binding]; other site 946483005380 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 946483005381 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 946483005382 molybdopterin cofactor binding site; other site 946483005383 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 946483005384 SLBB domain; Region: SLBB; pfam10531 946483005385 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 946483005386 NADH dehydrogenase subunit E; Validated; Region: PRK07539 946483005387 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 946483005388 putative dimer interface [polypeptide binding]; other site 946483005389 [2Fe-2S] cluster binding site [ion binding]; other site 946483005390 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 946483005391 NADH dehydrogenase subunit D; Validated; Region: PRK06075 946483005392 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 946483005393 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 946483005394 NADH dehydrogenase subunit B; Validated; Region: PRK06411 946483005395 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 946483005396 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 946483005397 triosephosphate isomerase; Provisional; Region: PRK14567 946483005398 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 946483005399 substrate binding site [chemical binding]; other site 946483005400 dimer interface [polypeptide binding]; other site 946483005401 catalytic triad [active] 946483005402 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 946483005403 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 946483005404 NAD(P) binding site [chemical binding]; other site 946483005405 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 946483005406 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 946483005407 RNase E interface [polypeptide binding]; other site 946483005408 trimer interface [polypeptide binding]; other site 946483005409 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 946483005410 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 946483005411 RNase E interface [polypeptide binding]; other site 946483005412 trimer interface [polypeptide binding]; other site 946483005413 active site 946483005414 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 946483005415 putative nucleic acid binding region [nucleotide binding]; other site 946483005416 G-X-X-G motif; other site 946483005417 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 946483005418 RNA binding site [nucleotide binding]; other site 946483005419 domain interface; other site 946483005420 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 946483005421 16S/18S rRNA binding site [nucleotide binding]; other site 946483005422 S13e-L30e interaction site [polypeptide binding]; other site 946483005423 25S rRNA binding site [nucleotide binding]; other site 946483005424 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 946483005425 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483005426 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483005427 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 946483005428 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 946483005429 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 946483005430 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483005431 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483005432 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 946483005433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005434 active site 946483005435 phosphorylation site [posttranslational modification] 946483005436 intermolecular recognition site; other site 946483005437 dimerization interface [polypeptide binding]; other site 946483005438 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 946483005439 DNA binding residues [nucleotide binding] 946483005440 dimerization interface [polypeptide binding]; other site 946483005441 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483005442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005443 active site 946483005444 phosphorylation site [posttranslational modification] 946483005445 intermolecular recognition site; other site 946483005446 dimerization interface [polypeptide binding]; other site 946483005447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 946483005448 Histidine kinase; Region: HisKA_3; pfam07730 946483005449 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005450 ATP binding site [chemical binding]; other site 946483005451 Mg2+ binding site [ion binding]; other site 946483005452 G-X-G motif; other site 946483005453 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005455 active site 946483005456 phosphorylation site [posttranslational modification] 946483005457 intermolecular recognition site; other site 946483005458 dimerization interface [polypeptide binding]; other site 946483005459 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 946483005460 putative binding surface; other site 946483005461 active site 946483005462 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 946483005463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005464 ATP binding site [chemical binding]; other site 946483005465 Mg2+ binding site [ion binding]; other site 946483005466 G-X-G motif; other site 946483005467 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 946483005468 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483005469 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 946483005470 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483005471 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 946483005472 S-adenosylmethionine binding site [chemical binding]; other site 946483005473 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 946483005474 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 946483005475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005476 active site 946483005477 phosphorylation site [posttranslational modification] 946483005478 intermolecular recognition site; other site 946483005479 dimerization interface [polypeptide binding]; other site 946483005480 CheB methylesterase; Region: CheB_methylest; pfam01339 946483005481 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 946483005482 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 946483005483 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 946483005484 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 946483005485 threonine dehydratase; Reviewed; Region: PRK09224 946483005486 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 946483005487 tetramer interface [polypeptide binding]; other site 946483005488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483005489 catalytic residue [active] 946483005490 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 946483005491 putative Ile/Val binding site [chemical binding]; other site 946483005492 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 946483005493 putative Ile/Val binding site [chemical binding]; other site 946483005494 AAA domain; Region: AAA_14; pfam13173 946483005495 AAA domain; Region: AAA_22; pfam13401 946483005496 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 946483005497 PAS fold; Region: PAS_2; pfam08446 946483005498 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483005499 Phytochrome region; Region: PHY; pfam00360 946483005500 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 946483005501 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483005502 putative active site [active] 946483005503 heme pocket [chemical binding]; other site 946483005504 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 946483005505 putative active site [active] 946483005506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483005507 heme pocket [chemical binding]; other site 946483005508 Histidine kinase; Region: HisKA_3; pfam07730 946483005509 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005510 ATP binding site [chemical binding]; other site 946483005511 Mg2+ binding site [ion binding]; other site 946483005512 G-X-G motif; other site 946483005513 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 946483005514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005515 active site 946483005516 phosphorylation site [posttranslational modification] 946483005517 intermolecular recognition site; other site 946483005518 dimerization interface [polypeptide binding]; other site 946483005519 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 946483005520 DNA binding residues [nucleotide binding] 946483005521 dimerization interface [polypeptide binding]; other site 946483005522 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483005523 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 946483005524 dimer interface [polypeptide binding]; other site 946483005525 phosphorylation site [posttranslational modification] 946483005526 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005527 ATP binding site [chemical binding]; other site 946483005528 Mg2+ binding site [ion binding]; other site 946483005529 G-X-G motif; other site 946483005530 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005532 active site 946483005533 phosphorylation site [posttranslational modification] 946483005534 intermolecular recognition site; other site 946483005535 dimerization interface [polypeptide binding]; other site 946483005536 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005538 active site 946483005539 phosphorylation site [posttranslational modification] 946483005540 intermolecular recognition site; other site 946483005541 dimerization interface [polypeptide binding]; other site 946483005542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483005543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483005544 metal binding site [ion binding]; metal-binding site 946483005545 active site 946483005546 I-site; other site 946483005547 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 946483005548 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483005549 putative active site [active] 946483005550 heme pocket [chemical binding]; other site 946483005551 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 946483005552 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483005553 putative active site [active] 946483005554 heme pocket [chemical binding]; other site 946483005555 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 946483005556 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483005557 putative active site [active] 946483005558 heme pocket [chemical binding]; other site 946483005559 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 946483005560 putative active site [active] 946483005561 heme pocket [chemical binding]; other site 946483005562 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 946483005563 PAS fold; Region: PAS_3; pfam08447 946483005564 putative active site [active] 946483005565 heme pocket [chemical binding]; other site 946483005566 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 946483005567 putative active site [active] 946483005568 PAS fold; Region: PAS_3; pfam08447 946483005569 heme pocket [chemical binding]; other site 946483005570 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483005571 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483005572 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 946483005573 dimer interface [polypeptide binding]; other site 946483005574 phosphorylation site [posttranslational modification] 946483005575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005576 ATP binding site [chemical binding]; other site 946483005577 Mg2+ binding site [ion binding]; other site 946483005578 G-X-G motif; other site 946483005579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005580 active site 946483005581 phosphorylation site [posttranslational modification] 946483005582 intermolecular recognition site; other site 946483005583 dimerization interface [polypeptide binding]; other site 946483005584 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483005585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005586 active site 946483005587 phosphorylation site [posttranslational modification] 946483005588 intermolecular recognition site; other site 946483005589 dimerization interface [polypeptide binding]; other site 946483005590 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 946483005591 Protein of unknown function, DUF608; Region: DUF608; pfam04685 946483005592 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 946483005593 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 946483005594 domain interfaces; other site 946483005595 active site 946483005596 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 946483005597 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 946483005598 active site 946483005599 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 946483005600 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 946483005601 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483005602 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483005603 metal binding site [ion binding]; metal-binding site 946483005604 active site 946483005605 I-site; other site 946483005606 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 946483005607 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 946483005608 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 946483005609 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 946483005610 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 946483005611 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 946483005612 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 946483005613 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 946483005614 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 946483005615 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 946483005616 beta subunit interaction interface [polypeptide binding]; other site 946483005617 Walker A motif; other site 946483005618 ATP binding site [chemical binding]; other site 946483005619 Walker B motif; other site 946483005620 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 946483005621 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 946483005622 core domain interface [polypeptide binding]; other site 946483005623 delta subunit interface [polypeptide binding]; other site 946483005624 epsilon subunit interface [polypeptide binding]; other site 946483005625 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 946483005626 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 946483005627 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 946483005628 alpha subunit interaction interface [polypeptide binding]; other site 946483005629 Walker A motif; other site 946483005630 ATP binding site [chemical binding]; other site 946483005631 Walker B motif; other site 946483005632 inhibitor binding site; inhibition site 946483005633 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 946483005634 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 946483005635 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 946483005636 gamma subunit interface [polypeptide binding]; other site 946483005637 epsilon subunit interface [polypeptide binding]; other site 946483005638 LBP interface [polypeptide binding]; other site 946483005639 type II secretion system protein F; Region: GspF; TIGR02120 946483005640 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483005641 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 946483005642 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 946483005643 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 946483005644 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 946483005645 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 946483005646 metal-binding site 946483005647 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 946483005648 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 946483005649 active site 946483005650 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 946483005651 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 946483005652 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 946483005653 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483005654 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 946483005655 putative NAD(P) binding site [chemical binding]; other site 946483005656 active site 946483005657 putative substrate binding site [chemical binding]; other site 946483005658 Bacterial sugar transferase; Region: Bac_transf; pfam02397 946483005659 putative major pilin subunit; Provisional; Region: PRK10574 946483005660 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 946483005661 binding surface 946483005662 TPR motif; other site 946483005663 TPR repeat; Region: TPR_11; pfam13414 946483005664 Protein of unknown function (DUF494); Region: DUF494; cl01103 946483005665 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 946483005666 DNA protecting protein DprA; Region: dprA; TIGR00732 946483005667 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 946483005668 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 946483005669 active site 946483005670 catalytic residues [active] 946483005671 metal binding site [ion binding]; metal-binding site 946483005672 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 946483005673 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 946483005674 putative active site [active] 946483005675 substrate binding site [chemical binding]; other site 946483005676 putative cosubstrate binding site; other site 946483005677 catalytic site [active] 946483005678 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 946483005679 substrate binding site [chemical binding]; other site 946483005680 oxidoreductase; Provisional; Region: PRK10015 946483005681 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005683 active site 946483005684 phosphorylation site [posttranslational modification] 946483005685 intermolecular recognition site; other site 946483005686 dimerization interface [polypeptide binding]; other site 946483005687 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483005688 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005689 dimer interface [polypeptide binding]; other site 946483005690 putative CheW interface [polypeptide binding]; other site 946483005691 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 946483005692 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005694 active site 946483005695 phosphorylation site [posttranslational modification] 946483005696 intermolecular recognition site; other site 946483005697 dimerization interface [polypeptide binding]; other site 946483005698 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 946483005699 anti sigma factor interaction site; other site 946483005700 regulatory phosphorylation site [posttranslational modification]; other site 946483005701 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 946483005702 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 946483005703 putative binding surface; other site 946483005704 active site 946483005705 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 946483005706 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005707 ATP binding site [chemical binding]; other site 946483005708 Mg2+ binding site [ion binding]; other site 946483005709 G-X-G motif; other site 946483005710 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483005711 Tar ligand binding domain homologue; Region: TarH; pfam02203 946483005712 PAS domain; Region: PAS_9; pfam13426 946483005713 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 946483005714 putative active site [active] 946483005715 heme pocket [chemical binding]; other site 946483005716 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005717 dimer interface [polypeptide binding]; other site 946483005718 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483005719 putative CheW interface [polypeptide binding]; other site 946483005720 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 946483005721 putative CheA interaction surface; other site 946483005722 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 946483005723 PAS domain; Region: PAS_9; pfam13426 946483005724 putative active site [active] 946483005725 heme pocket [chemical binding]; other site 946483005726 PAS domain; Region: PAS; smart00091 946483005727 PAS domain; Region: PAS_9; pfam13426 946483005728 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483005729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005730 dimer interface [polypeptide binding]; other site 946483005731 putative CheW interface [polypeptide binding]; other site 946483005732 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 946483005733 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483005734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005735 active site 946483005736 phosphorylation site [posttranslational modification] 946483005737 intermolecular recognition site; other site 946483005738 dimerization interface [polypeptide binding]; other site 946483005739 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 946483005740 PAS domain; Region: PAS_9; pfam13426 946483005741 putative active site [active] 946483005742 heme pocket [chemical binding]; other site 946483005743 PAS domain; Region: PAS_9; pfam13426 946483005744 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 946483005745 putative active site [active] 946483005746 heme pocket [chemical binding]; other site 946483005747 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483005748 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005749 dimer interface [polypeptide binding]; other site 946483005750 putative CheW interface [polypeptide binding]; other site 946483005751 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483005752 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 946483005753 dimerization interface [polypeptide binding]; other site 946483005754 PAS domain; Region: PAS_9; pfam13426 946483005755 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005756 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483005757 dimer interface [polypeptide binding]; other site 946483005758 putative CheW interface [polypeptide binding]; other site 946483005759 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483005760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005761 active site 946483005762 phosphorylation site [posttranslational modification] 946483005763 intermolecular recognition site; other site 946483005764 dimerization interface [polypeptide binding]; other site 946483005765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483005766 Zn2+ binding site [ion binding]; other site 946483005767 Mg2+ binding site [ion binding]; other site 946483005768 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 946483005769 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 946483005770 PAS domain; Region: PAS_9; pfam13426 946483005771 putative active site [active] 946483005772 heme pocket [chemical binding]; other site 946483005773 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 946483005774 dimer interface [polypeptide binding]; other site 946483005775 phosphorylation site [posttranslational modification] 946483005776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005777 ATP binding site [chemical binding]; other site 946483005778 Mg2+ binding site [ion binding]; other site 946483005779 G-X-G motif; other site 946483005780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005781 active site 946483005782 phosphorylation site [posttranslational modification] 946483005783 intermolecular recognition site; other site 946483005784 dimerization interface [polypeptide binding]; other site 946483005785 Response regulator receiver domain; Region: Response_reg; pfam00072 946483005786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005787 active site 946483005788 phosphorylation site [posttranslational modification] 946483005789 intermolecular recognition site; other site 946483005790 dimerization interface [polypeptide binding]; other site 946483005791 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 946483005792 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 946483005793 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 946483005794 NAD(P) binding site [chemical binding]; other site 946483005795 homodimer interface [polypeptide binding]; other site 946483005796 substrate binding site [chemical binding]; other site 946483005797 active site 946483005798 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483005799 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483005800 substrate binding pocket [chemical binding]; other site 946483005801 membrane-bound complex binding site; other site 946483005802 hinge residues; other site 946483005803 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483005804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483005805 metal binding site [ion binding]; metal-binding site 946483005806 active site 946483005807 I-site; other site 946483005808 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 946483005809 S-adenosylmethionine binding site [chemical binding]; other site 946483005810 Methyltransferase FkbM domain; Region: Methyltransf_21; pfam05050 946483005811 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 946483005812 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 946483005813 substrate binding site; other site 946483005814 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 946483005815 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 946483005816 NAD binding site [chemical binding]; other site 946483005817 homotetramer interface [polypeptide binding]; other site 946483005818 homodimer interface [polypeptide binding]; other site 946483005819 substrate binding site [chemical binding]; other site 946483005820 active site 946483005821 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 946483005822 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 946483005823 inhibitor-cofactor binding pocket; inhibition site 946483005824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483005825 catalytic residue [active] 946483005826 PAS fold; Region: PAS_7; pfam12860 946483005827 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 946483005828 PAS fold; Region: PAS_3; pfam08447 946483005829 putative active site [active] 946483005830 heme pocket [chemical binding]; other site 946483005831 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483005832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483005833 metal binding site [ion binding]; metal-binding site 946483005834 active site 946483005835 I-site; other site 946483005836 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 946483005837 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 946483005838 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 946483005839 Ligand binding site; other site 946483005840 Putative Catalytic site; other site 946483005841 DXD motif; other site 946483005842 psiF repeat; Region: PsiF_repeat; pfam07769 946483005843 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 946483005844 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 946483005845 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 946483005846 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 946483005847 tandem repeat interface [polypeptide binding]; other site 946483005848 oligomer interface [polypeptide binding]; other site 946483005849 active site residues [active] 946483005850 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 946483005851 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 946483005852 RNA binding surface [nucleotide binding]; other site 946483005853 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 946483005854 active site 946483005855 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 946483005856 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 946483005857 homodimer interface [polypeptide binding]; other site 946483005858 oligonucleotide binding site [chemical binding]; other site 946483005859 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 946483005860 HSP70 interaction site [polypeptide binding]; other site 946483005861 Cache domain; Region: Cache_1; pfam02743 946483005862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483005863 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 946483005864 dimerization interface [polypeptide binding]; other site 946483005865 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 946483005866 dimer interface [polypeptide binding]; other site 946483005867 phosphorylation site [posttranslational modification] 946483005868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005869 ATP binding site [chemical binding]; other site 946483005870 Mg2+ binding site [ion binding]; other site 946483005871 G-X-G motif; other site 946483005872 Cache domain; Region: Cache_1; pfam02743 946483005873 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 946483005874 dimerization interface [polypeptide binding]; other site 946483005875 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 946483005876 Cache domain; Region: Cache_1; pfam02743 946483005877 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 946483005878 dimerization interface [polypeptide binding]; other site 946483005879 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 946483005880 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 946483005881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483005882 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 946483005883 dimer interface [polypeptide binding]; other site 946483005884 phosphorylation site [posttranslational modification] 946483005885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483005886 ATP binding site [chemical binding]; other site 946483005887 Mg2+ binding site [ion binding]; other site 946483005888 G-X-G motif; other site 946483005889 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 946483005890 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 946483005891 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 946483005892 RimM N-terminal domain; Region: RimM; pfam01782 946483005893 PRC-barrel domain; Region: PRC; pfam05239 946483005894 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 946483005895 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 946483005896 CobD/Cbib protein; Region: CobD_Cbib; cl00561 946483005897 GTPase RsgA; Reviewed; Region: PRK00098 946483005898 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 946483005899 RNA binding site [nucleotide binding]; other site 946483005900 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 946483005901 GTPase/Zn-binding domain interface [polypeptide binding]; other site 946483005902 GTP/Mg2+ binding site [chemical binding]; other site 946483005903 G4 box; other site 946483005904 G5 box; other site 946483005905 G1 box; other site 946483005906 Switch I region; other site 946483005907 G2 box; other site 946483005908 G3 box; other site 946483005909 Switch II region; other site 946483005910 Peptidase family M48; Region: Peptidase_M48; cl12018 946483005911 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 946483005912 catalytic site [active] 946483005913 putative active site [active] 946483005914 putative substrate binding site [chemical binding]; other site 946483005915 dimer interface [polypeptide binding]; other site 946483005916 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 946483005917 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483005918 ATP binding site [chemical binding]; other site 946483005919 Mg++ binding site [ion binding]; other site 946483005920 motif III; other site 946483005921 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 946483005922 nucleotide binding region [chemical binding]; other site 946483005923 ATP-binding site [chemical binding]; other site 946483005924 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 946483005925 PAS domain; Region: PAS_9; pfam13426 946483005926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483005927 dimer interface [polypeptide binding]; other site 946483005928 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 946483005929 putative CheW interface [polypeptide binding]; other site 946483005930 GTP-binding protein Der; Reviewed; Region: PRK00093 946483005931 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 946483005932 G1 box; other site 946483005933 GTP/Mg2+ binding site [chemical binding]; other site 946483005934 Switch I region; other site 946483005935 G2 box; other site 946483005936 Switch II region; other site 946483005937 G3 box; other site 946483005938 G4 box; other site 946483005939 G5 box; other site 946483005940 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 946483005941 G1 box; other site 946483005942 GTP/Mg2+ binding site [chemical binding]; other site 946483005943 Switch I region; other site 946483005944 G2 box; other site 946483005945 G3 box; other site 946483005946 Switch II region; other site 946483005947 G4 box; other site 946483005948 G5 box; other site 946483005949 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 946483005950 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 946483005951 Trp docking motif [polypeptide binding]; other site 946483005952 active site 946483005953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 946483005954 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 946483005955 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 946483005956 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 946483005957 dimer interface [polypeptide binding]; other site 946483005958 motif 1; other site 946483005959 active site 946483005960 motif 2; other site 946483005961 motif 3; other site 946483005962 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 946483005963 anticodon binding site; other site 946483005964 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 946483005965 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 946483005966 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 946483005967 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 946483005968 non-specific DNA binding site [nucleotide binding]; other site 946483005969 salt bridge; other site 946483005970 sequence-specific DNA binding site [nucleotide binding]; other site 946483005971 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 946483005972 TPR repeat; Region: TPR_11; pfam13414 946483005973 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 946483005974 binding surface 946483005975 TPR motif; other site 946483005976 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 946483005977 binding surface 946483005978 TPR motif; other site 946483005979 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 946483005980 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 946483005981 FeS/SAM binding site; other site 946483005982 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 946483005983 active site 946483005984 multimer interface [polypeptide binding]; other site 946483005985 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 946483005986 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 946483005987 Protein export membrane protein; Region: SecD_SecF; pfam02355 946483005988 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 946483005989 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 946483005990 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 946483005991 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 946483005992 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 946483005993 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 946483005994 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483005995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483005996 active site 946483005997 phosphorylation site [posttranslational modification] 946483005998 intermolecular recognition site; other site 946483005999 dimerization interface [polypeptide binding]; other site 946483006000 MltA specific insert domain; Region: MltA; smart00925 946483006001 3D domain; Region: 3D; pfam06725 946483006002 TIGR02099 family protein; Region: TIGR02099 946483006003 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 946483006004 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 946483006005 metal binding triad; other site 946483006006 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 946483006007 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 946483006008 metal binding triad; other site 946483006009 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006010 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006011 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 946483006012 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 946483006013 ligand binding site [chemical binding]; other site 946483006014 FecR protein; Region: FecR; pfam04773 946483006015 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 946483006016 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 946483006017 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 946483006018 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 946483006019 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 946483006020 dimerization domain swap beta strand [polypeptide binding]; other site 946483006021 regulatory protein interface [polypeptide binding]; other site 946483006022 active site 946483006023 regulatory phosphorylation site [posttranslational modification]; other site 946483006024 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 946483006025 active pocket/dimerization site; other site 946483006026 active site 946483006027 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 946483006028 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 946483006029 tetramer interfaces [polypeptide binding]; other site 946483006030 binuclear metal-binding site [ion binding]; other site 946483006031 Competence-damaged protein; Region: CinA; pfam02464 946483006032 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 946483006033 G1 box; other site 946483006034 GTP/Mg2+ binding site [chemical binding]; other site 946483006035 Switch I region; other site 946483006036 G2 box; other site 946483006037 G3 box; other site 946483006038 Switch II region; other site 946483006039 G4 box; other site 946483006040 G5 box; other site 946483006041 lysophospholipid transporter LplT; Provisional; Region: PRK11195 946483006042 alanine racemase; Reviewed; Region: dadX; PRK03646 946483006043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 946483006044 active site 946483006045 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 946483006046 substrate binding site [chemical binding]; other site 946483006047 catalytic residues [active] 946483006048 dimer interface [polypeptide binding]; other site 946483006049 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483006050 recombinase A; Provisional; Region: recA; PRK09354 946483006051 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 946483006052 hexamer interface [polypeptide binding]; other site 946483006053 Walker A motif; other site 946483006054 ATP binding site [chemical binding]; other site 946483006055 Walker B motif; other site 946483006056 recombination regulator RecX; Reviewed; Region: recX; PRK00117 946483006057 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 946483006058 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 946483006059 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483006060 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483006061 HAMP domain; Region: HAMP; pfam00672 946483006062 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483006063 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483006064 dimer interface [polypeptide binding]; other site 946483006065 putative CheW interface [polypeptide binding]; other site 946483006066 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 946483006067 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 946483006068 ligand binding site; other site 946483006069 oligomer interface; other site 946483006070 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 946483006071 dimer interface [polypeptide binding]; other site 946483006072 N-terminal domain interface [polypeptide binding]; other site 946483006073 sulfate 1 binding site; other site 946483006074 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 946483006075 CheB methylesterase; Region: CheB_methylest; pfam01339 946483006076 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 946483006077 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483006078 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483006079 PAS domain; Region: PAS_10; pfam13596 946483006080 PAS fold; Region: PAS_4; pfam08448 946483006081 PAS fold; Region: PAS_4; pfam08448 946483006082 PAS fold; Region: PAS_4; pfam08448 946483006083 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 946483006084 putative active site [active] 946483006085 heme pocket [chemical binding]; other site 946483006086 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 946483006087 PAS domain; Region: PAS_9; pfam13426 946483006088 putative active site [active] 946483006089 heme pocket [chemical binding]; other site 946483006090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006092 metal binding site [ion binding]; metal-binding site 946483006093 active site 946483006094 I-site; other site 946483006095 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 946483006096 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 946483006097 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 946483006098 putative substrate translocation pore; other site 946483006099 Major Facilitator Superfamily; Region: MFS_1; pfam07690 946483006100 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 946483006101 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 946483006102 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483006103 putative active site [active] 946483006104 heme pocket [chemical binding]; other site 946483006105 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 946483006106 putative active site [active] 946483006107 heme pocket [chemical binding]; other site 946483006108 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483006109 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 946483006110 putative active site [active] 946483006111 heme pocket [chemical binding]; other site 946483006112 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 946483006113 dimer interface [polypeptide binding]; other site 946483006114 phosphorylation site [posttranslational modification] 946483006115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006116 ATP binding site [chemical binding]; other site 946483006117 Mg2+ binding site [ion binding]; other site 946483006118 G-X-G motif; other site 946483006119 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006121 active site 946483006122 phosphorylation site [posttranslational modification] 946483006123 intermolecular recognition site; other site 946483006124 dimerization interface [polypeptide binding]; other site 946483006125 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006127 active site 946483006128 phosphorylation site [posttranslational modification] 946483006129 intermolecular recognition site; other site 946483006130 dimerization interface [polypeptide binding]; other site 946483006131 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483006132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006133 active site 946483006134 phosphorylation site [posttranslational modification] 946483006135 intermolecular recognition site; other site 946483006136 dimerization interface [polypeptide binding]; other site 946483006137 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483006138 Zn2+ binding site [ion binding]; other site 946483006139 Mg2+ binding site [ion binding]; other site 946483006140 Uncharacterized conserved protein [Function unknown]; Region: COG2014 946483006141 Domain of unknown function (DUF364); Region: DUF364; pfam04016 946483006142 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 946483006143 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 946483006144 Walker A/P-loop; other site 946483006145 ATP binding site [chemical binding]; other site 946483006146 Q-loop/lid; other site 946483006147 ABC transporter signature motif; other site 946483006148 Walker B; other site 946483006149 D-loop; other site 946483006150 H-loop/switch region; other site 946483006151 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 946483006152 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 946483006153 ABC-ATPase subunit interface; other site 946483006154 dimer interface [polypeptide binding]; other site 946483006155 putative PBP binding regions; other site 946483006156 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 946483006157 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 946483006158 putative metal binding site [ion binding]; other site 946483006159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006160 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006161 active site 946483006162 phosphorylation site [posttranslational modification] 946483006163 intermolecular recognition site; other site 946483006164 dimerization interface [polypeptide binding]; other site 946483006165 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 946483006166 PAS fold; Region: PAS_3; pfam08447 946483006167 putative active site [active] 946483006168 heme pocket [chemical binding]; other site 946483006169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483006170 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 946483006171 dimer interface [polypeptide binding]; other site 946483006172 phosphorylation site [posttranslational modification] 946483006173 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006174 ATP binding site [chemical binding]; other site 946483006175 Mg2+ binding site [ion binding]; other site 946483006176 G-X-G motif; other site 946483006177 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006179 active site 946483006180 phosphorylation site [posttranslational modification] 946483006181 intermolecular recognition site; other site 946483006182 dimerization interface [polypeptide binding]; other site 946483006183 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483006184 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483006185 substrate binding pocket [chemical binding]; other site 946483006186 membrane-bound complex binding site; other site 946483006187 hinge residues; other site 946483006188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483006189 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 946483006190 dimer interface [polypeptide binding]; other site 946483006191 phosphorylation site [posttranslational modification] 946483006192 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006193 ATP binding site [chemical binding]; other site 946483006194 Mg2+ binding site [ion binding]; other site 946483006195 G-X-G motif; other site 946483006196 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006198 active site 946483006199 phosphorylation site [posttranslational modification] 946483006200 intermolecular recognition site; other site 946483006201 dimerization interface [polypeptide binding]; other site 946483006202 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006204 active site 946483006205 phosphorylation site [posttranslational modification] 946483006206 intermolecular recognition site; other site 946483006207 dimerization interface [polypeptide binding]; other site 946483006208 Hpt domain; Region: Hpt; pfam01627 946483006209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006211 active site 946483006212 phosphorylation site [posttranslational modification] 946483006213 intermolecular recognition site; other site 946483006214 dimerization interface [polypeptide binding]; other site 946483006215 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 946483006216 PAS domain; Region: PAS_9; pfam13426 946483006217 putative active site [active] 946483006218 heme pocket [chemical binding]; other site 946483006219 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006220 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006221 metal binding site [ion binding]; metal-binding site 946483006222 active site 946483006223 I-site; other site 946483006224 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 946483006225 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 946483006226 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 946483006227 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 946483006228 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 946483006229 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 946483006230 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 946483006231 hydrogenase 4 subunit F; Validated; Region: PRK06458 946483006232 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 946483006233 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 946483006234 NADH dehydrogenase; Region: NADHdh; cl00469 946483006235 hydrogenase 4 subunit B; Validated; Region: PRK06521 946483006236 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 946483006237 pantoate--beta-alanine ligase; Region: panC; TIGR00018 946483006238 Pantoate-beta-alanine ligase; Region: PanC; cd00560 946483006239 active site 946483006240 ATP-binding site [chemical binding]; other site 946483006241 pantoate-binding site; other site 946483006242 HXXH motif; other site 946483006243 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 946483006244 oligomerization interface [polypeptide binding]; other site 946483006245 active site 946483006246 metal binding site [ion binding]; metal-binding site 946483006247 L-aspartate oxidase; Provisional; Region: PRK09077 946483006248 L-aspartate oxidase; Provisional; Region: PRK06175 946483006249 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 946483006250 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 946483006251 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 946483006252 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 946483006253 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 946483006254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 946483006255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 946483006256 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 946483006257 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 946483006258 active site residue [active] 946483006259 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 946483006260 CPxP motif; other site 946483006261 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 946483006262 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 946483006263 Beta-lactamase; Region: Beta-lactamase; pfam00144 946483006264 HAMP domain; Region: HAMP; pfam00672 946483006265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006267 metal binding site [ion binding]; metal-binding site 946483006268 active site 946483006269 I-site; other site 946483006270 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 946483006271 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 946483006272 active site 946483006273 Zn binding site [ion binding]; other site 946483006274 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 946483006275 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 946483006276 catalytic residues [active] 946483006277 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 946483006278 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 946483006279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483006280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483006281 dimer interface [polypeptide binding]; other site 946483006282 putative CheW interface [polypeptide binding]; other site 946483006283 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 946483006284 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 946483006285 N-acetyl-D-glucosamine binding site [chemical binding]; other site 946483006286 catalytic residue [active] 946483006287 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 946483006288 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 946483006289 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 946483006290 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 946483006291 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 946483006292 Mechanosensitive ion channel; Region: MS_channel; pfam00924 946483006293 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483006294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006295 active site 946483006296 phosphorylation site [posttranslational modification] 946483006297 intermolecular recognition site; other site 946483006298 dimerization interface [polypeptide binding]; other site 946483006299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483006300 Zn2+ binding site [ion binding]; other site 946483006301 Mg2+ binding site [ion binding]; other site 946483006302 CHASE3 domain; Region: CHASE3; pfam05227 946483006303 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 946483006304 PAS domain; Region: PAS_9; pfam13426 946483006305 putative active site [active] 946483006306 heme pocket [chemical binding]; other site 946483006307 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 946483006308 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483006309 putative active site [active] 946483006310 heme pocket [chemical binding]; other site 946483006311 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483006312 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 946483006313 putative active site [active] 946483006314 heme pocket [chemical binding]; other site 946483006315 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483006316 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 946483006317 putative active site [active] 946483006318 heme pocket [chemical binding]; other site 946483006319 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 946483006320 putative active site [active] 946483006321 heme pocket [chemical binding]; other site 946483006322 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 946483006323 dimer interface [polypeptide binding]; other site 946483006324 phosphorylation site [posttranslational modification] 946483006325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006326 ATP binding site [chemical binding]; other site 946483006327 Mg2+ binding site [ion binding]; other site 946483006328 G-X-G motif; other site 946483006329 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006331 active site 946483006332 phosphorylation site [posttranslational modification] 946483006333 intermolecular recognition site; other site 946483006334 dimerization interface [polypeptide binding]; other site 946483006335 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 946483006336 EDD domain protein, DegV family; Region: DegV; TIGR00762 946483006337 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 946483006338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483006339 Walker A/P-loop; other site 946483006340 ATP binding site [chemical binding]; other site 946483006341 Q-loop/lid; other site 946483006342 ABC transporter signature motif; other site 946483006343 Walker B; other site 946483006344 D-loop; other site 946483006345 H-loop/switch region; other site 946483006346 CcmB protein; Region: CcmB; pfam03379 946483006347 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 946483006348 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 946483006349 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 946483006350 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 946483006351 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 946483006352 homodimer interface [polypeptide binding]; other site 946483006353 NADP binding site [chemical binding]; other site 946483006354 substrate binding site [chemical binding]; other site 946483006355 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 946483006356 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 946483006357 putative ligand binding site [chemical binding]; other site 946483006358 PAS domain S-box; Region: sensory_box; TIGR00229 946483006359 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 946483006360 putative active site [active] 946483006361 heme pocket [chemical binding]; other site 946483006362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006364 metal binding site [ion binding]; metal-binding site 946483006365 active site 946483006366 I-site; other site 946483006367 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 946483006368 Sensors of blue-light using FAD; Region: BLUF; pfam04940 946483006369 Uncharacterized conserved protein [Function unknown]; Region: COG2308 946483006370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 946483006371 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 946483006372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 946483006373 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 946483006374 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 946483006375 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 946483006376 active site 946483006377 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 946483006378 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 946483006379 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 946483006380 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 946483006381 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 946483006382 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 946483006383 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483006384 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 946483006385 putative addiction module component, TIGR02574 family; Region: stabl_TIGR02574 946483006386 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 946483006387 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 946483006388 putative active site [active] 946483006389 putative NTP binding site [chemical binding]; other site 946483006390 putative nucleic acid binding site [nucleotide binding]; other site 946483006391 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483006392 TIGR04255 family protein; Region: sporadTIGR04255 946483006393 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 946483006394 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 946483006395 putative active site [active] 946483006396 putative NTP binding site [chemical binding]; other site 946483006397 putative nucleic acid binding site [nucleotide binding]; other site 946483006398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483006399 Integrase core domain; Region: rve; pfam00665 946483006400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483006401 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 946483006402 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 946483006403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 946483006404 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 946483006405 active site 946483006406 metal binding site [ion binding]; metal-binding site 946483006407 interdomain interaction site; other site 946483006408 integrase; Provisional; Region: PRK09692 946483006409 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 946483006410 active site 946483006411 Int/Topo IB signature motif; other site 946483006412 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483006413 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 946483006414 Mrr N-terminal domain; Region: Mrr_N; pfam14338 946483006415 Restriction endonuclease; Region: Mrr_cat; pfam04471 946483006416 Peptidase family M48; Region: Peptidase_M48; pfam01435 946483006417 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483006418 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483006419 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 946483006420 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 946483006421 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 946483006422 Walker A motif; other site 946483006423 ATP binding site [chemical binding]; other site 946483006424 Walker B motif; other site 946483006425 CHASE2 domain; Region: CHASE2; pfam05226 946483006426 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 946483006427 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 946483006428 cyclase homology domain; Region: CHD; cd07302 946483006429 nucleotidyl binding site; other site 946483006430 metal binding site [ion binding]; metal-binding site 946483006431 dimer interface [polypeptide binding]; other site 946483006432 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 946483006433 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 946483006434 phosphopeptide binding site; other site 946483006435 Protein phosphatase 2C; Region: PP2C; pfam00481 946483006436 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 946483006437 active site 946483006438 CHASE2 domain; Region: CHASE2; pfam05226 946483006439 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 946483006440 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 946483006441 active site 946483006442 ATP binding site [chemical binding]; other site 946483006443 substrate binding site [chemical binding]; other site 946483006444 activation loop (A-loop); other site 946483006445 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 946483006446 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 946483006447 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 946483006448 Walker A motif; other site 946483006449 ATP binding site [chemical binding]; other site 946483006450 Walker B motif; other site 946483006451 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 946483006452 cystathionine beta-lyase; Provisional; Region: PRK07050 946483006453 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 946483006454 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483006455 catalytic residue [active] 946483006456 Cache domain; Region: Cache_1; pfam02743 946483006457 PAS domain; Region: PAS_9; pfam13426 946483006458 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 946483006459 putative active site [active] 946483006460 heme pocket [chemical binding]; other site 946483006461 PAS domain S-box; Region: sensory_box; TIGR00229 946483006462 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 946483006463 putative active site [active] 946483006464 heme pocket [chemical binding]; other site 946483006465 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 946483006466 PAS fold; Region: PAS_3; pfam08447 946483006467 putative active site [active] 946483006468 heme pocket [chemical binding]; other site 946483006469 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483006470 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 946483006471 putative active site [active] 946483006472 heme pocket [chemical binding]; other site 946483006473 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 946483006474 dimer interface [polypeptide binding]; other site 946483006475 phosphorylation site [posttranslational modification] 946483006476 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006477 ATP binding site [chemical binding]; other site 946483006478 Mg2+ binding site [ion binding]; other site 946483006479 G-X-G motif; other site 946483006480 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006482 active site 946483006483 phosphorylation site [posttranslational modification] 946483006484 intermolecular recognition site; other site 946483006485 dimerization interface [polypeptide binding]; other site 946483006486 SnoaL-like domain; Region: SnoaL_3; pfam13474 946483006487 PAS domain S-box; Region: sensory_box; TIGR00229 946483006488 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 946483006489 putative active site [active] 946483006490 heme pocket [chemical binding]; other site 946483006491 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006493 metal binding site [ion binding]; metal-binding site 946483006494 active site 946483006495 I-site; other site 946483006496 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 946483006497 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 946483006498 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 946483006499 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 946483006500 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 946483006501 dimer interface [polypeptide binding]; other site 946483006502 motif 1; other site 946483006503 active site 946483006504 motif 2; other site 946483006505 motif 3; other site 946483006506 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 946483006507 HflC protein; Region: hflC; TIGR01932 946483006508 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 946483006509 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 946483006510 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 946483006511 HflK protein; Region: hflK; TIGR01933 946483006512 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 946483006513 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 946483006514 HflX GTPase family; Region: HflX; cd01878 946483006515 G1 box; other site 946483006516 GTP/Mg2+ binding site [chemical binding]; other site 946483006517 Switch I region; other site 946483006518 G2 box; other site 946483006519 G3 box; other site 946483006520 Switch II region; other site 946483006521 G4 box; other site 946483006522 G5 box; other site 946483006523 bacterial Hfq-like; Region: Hfq; cd01716 946483006524 hexamer interface [polypeptide binding]; other site 946483006525 Sm1 motif; other site 946483006526 RNA binding site [nucleotide binding]; other site 946483006527 Sm2 motif; other site 946483006528 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 946483006529 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 946483006530 RNA binding surface [nucleotide binding]; other site 946483006531 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 946483006532 probable active site [active] 946483006533 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 946483006534 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 946483006535 RNA binding surface [nucleotide binding]; other site 946483006536 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 946483006537 active site 946483006538 Outer membrane lipoprotein; Region: YfiO; pfam13525 946483006539 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 946483006540 active site 946483006541 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 946483006542 Ligand binding site [chemical binding]; other site 946483006543 Electron transfer flavoprotein domain; Region: ETF; pfam01012 946483006544 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 946483006545 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 946483006546 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 946483006547 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 946483006548 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 946483006549 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 946483006550 ATP binding site [chemical binding]; other site 946483006551 putative Mg++ binding site [ion binding]; other site 946483006552 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 946483006553 nucleotide binding region [chemical binding]; other site 946483006554 ATP-binding site [chemical binding]; other site 946483006555 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 946483006556 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483006557 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 946483006558 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483006559 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 946483006560 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 946483006561 Predicted permeases [General function prediction only]; Region: COG0795 946483006562 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 946483006563 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 946483006564 multifunctional aminopeptidase A; Provisional; Region: PRK00913 946483006565 interface (dimer of trimers) [polypeptide binding]; other site 946483006566 Substrate-binding/catalytic site; other site 946483006567 Zn-binding sites [ion binding]; other site 946483006568 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 946483006569 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 946483006570 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 946483006571 dimerization interface [polypeptide binding]; other site 946483006572 ligand binding site [chemical binding]; other site 946483006573 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 946483006574 FMN binding site [chemical binding]; other site 946483006575 substrate binding site [chemical binding]; other site 946483006576 putative catalytic residue [active] 946483006577 PilZ domain; Region: PilZ; pfam07238 946483006578 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 946483006579 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 946483006580 Cache domain; Region: Cache_2; cl07034 946483006581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483006582 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 946483006583 dimerization interface [polypeptide binding]; other site 946483006584 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 946483006585 dimer interface [polypeptide binding]; other site 946483006586 phosphorylation site [posttranslational modification] 946483006587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006588 ATP binding site [chemical binding]; other site 946483006589 Mg2+ binding site [ion binding]; other site 946483006590 G-X-G motif; other site 946483006591 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483006592 GAF domain; Region: GAF_3; pfam13492 946483006593 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483006594 Zn2+ binding site [ion binding]; other site 946483006595 Mg2+ binding site [ion binding]; other site 946483006596 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483006597 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006599 active site 946483006600 phosphorylation site [posttranslational modification] 946483006601 intermolecular recognition site; other site 946483006602 dimerization interface [polypeptide binding]; other site 946483006603 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483006604 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 946483006605 dimerization interface [polypeptide binding]; other site 946483006606 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 946483006607 dimer interface [polypeptide binding]; other site 946483006608 phosphorylation site [posttranslational modification] 946483006609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006610 ATP binding site [chemical binding]; other site 946483006611 G-X-G motif; other site 946483006612 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006614 active site 946483006615 phosphorylation site [posttranslational modification] 946483006616 intermolecular recognition site; other site 946483006617 dimerization interface [polypeptide binding]; other site 946483006618 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 946483006619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483006620 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483006621 substrate binding pocket [chemical binding]; other site 946483006622 membrane-bound complex binding site; other site 946483006623 hinge residues; other site 946483006624 HAMP domain; Region: HAMP; pfam00672 946483006625 PAS domain; Region: PAS_9; pfam13426 946483006626 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483006627 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483006628 metal binding site [ion binding]; metal-binding site 946483006629 active site 946483006630 I-site; other site 946483006631 excinuclease ABC subunit B; Provisional; Region: PRK05298 946483006632 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 946483006633 ATP binding site [chemical binding]; other site 946483006634 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 946483006635 nucleotide binding region [chemical binding]; other site 946483006636 ATP-binding site [chemical binding]; other site 946483006637 Ultra-violet resistance protein B; Region: UvrB; pfam12344 946483006638 UvrB/uvrC motif; Region: UVR; pfam02151 946483006639 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 946483006640 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 946483006641 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 946483006642 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 946483006643 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 946483006644 TPR motif; other site 946483006645 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 946483006646 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 946483006647 putative ligand binding site [chemical binding]; other site 946483006648 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 946483006649 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 946483006650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483006651 homodimer interface [polypeptide binding]; other site 946483006652 catalytic residue [active] 946483006653 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 946483006654 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 946483006655 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 946483006656 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 946483006657 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 946483006658 Sensors of blue-light using FAD; Region: BLUF; pfam04940 946483006659 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 946483006660 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 946483006661 nucleotide binding site [chemical binding]; other site 946483006662 thioredoxin 2; Provisional; Region: PRK10996 946483006663 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 946483006664 catalytic residues [active] 946483006665 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 946483006666 heterotetramer interface [polypeptide binding]; other site 946483006667 active site pocket [active] 946483006668 cleavage site 946483006669 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 946483006670 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 946483006671 SEC-C motif; Region: SEC-C; pfam02810 946483006672 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 946483006673 Peptidase family M23; Region: Peptidase_M23; pfam01551 946483006674 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 946483006675 oligomeric interface; other site 946483006676 putative active site [active] 946483006677 homodimer interface [polypeptide binding]; other site 946483006678 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 946483006679 chaperone protein DnaJ; Provisional; Region: PRK10767 946483006680 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 946483006681 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 946483006682 substrate binding site [polypeptide binding]; other site 946483006683 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 946483006684 Zn binding sites [ion binding]; other site 946483006685 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 946483006686 dimer interface [polypeptide binding]; other site 946483006687 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 946483006688 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 946483006689 nucleotide binding site [chemical binding]; other site 946483006690 GrpE; Region: GrpE; pfam01025 946483006691 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 946483006692 dimer interface [polypeptide binding]; other site 946483006693 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 946483006694 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006695 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006696 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 946483006697 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 946483006698 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 946483006699 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006700 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006701 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 946483006702 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 946483006703 S-adenosylmethionine binding site [chemical binding]; other site 946483006704 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 946483006705 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 946483006706 inhibitor-cofactor binding pocket; inhibition site 946483006707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483006708 catalytic residue [active] 946483006709 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483006710 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483006711 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 946483006712 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 946483006713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483006714 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 946483006715 TPR motif; other site 946483006716 TPR repeat; Region: TPR_11; pfam13414 946483006717 binding surface 946483006718 Methyltransferase domain; Region: Methyltransf_24; pfam13578 946483006719 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 946483006720 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483006721 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483006722 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 946483006723 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483006724 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 946483006725 binding surface 946483006726 TPR repeat; Region: TPR_11; pfam13414 946483006727 TPR motif; other site 946483006728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483006729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483006730 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 946483006731 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 946483006732 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 946483006733 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483006734 Methyltransferase domain; Region: Methyltransf_12; pfam08242 946483006735 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 946483006736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 946483006737 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 946483006738 NAD(P) binding site [chemical binding]; other site 946483006739 active site 946483006740 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 946483006741 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 946483006742 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006743 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006744 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006745 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006746 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 946483006747 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 946483006748 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 946483006749 Predicted integral membrane protein [Function unknown]; Region: COG5617 946483006750 PAS domain S-box; Region: sensory_box; TIGR00229 946483006751 PAS domain S-box; Region: sensory_box; TIGR00229 946483006752 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 946483006753 putative active site [active] 946483006754 heme pocket [chemical binding]; other site 946483006755 GAF domain; Region: GAF; pfam01590 946483006756 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 946483006757 PAS fold; Region: PAS_3; pfam08447 946483006758 putative active site [active] 946483006759 heme pocket [chemical binding]; other site 946483006760 PAS domain S-box; Region: sensory_box; TIGR00229 946483006761 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 946483006762 putative active site [active] 946483006763 heme pocket [chemical binding]; other site 946483006764 PAS domain S-box; Region: sensory_box; TIGR00229 946483006765 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 946483006766 putative active site [active] 946483006767 heme pocket [chemical binding]; other site 946483006768 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 946483006769 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483006770 putative active site [active] 946483006771 heme pocket [chemical binding]; other site 946483006772 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 946483006773 putative active site [active] 946483006774 heme pocket [chemical binding]; other site 946483006775 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483006776 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483006777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483006778 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 946483006779 dimer interface [polypeptide binding]; other site 946483006780 phosphorylation site [posttranslational modification] 946483006781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006782 ATP binding site [chemical binding]; other site 946483006783 Mg2+ binding site [ion binding]; other site 946483006784 G-X-G motif; other site 946483006785 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006787 active site 946483006788 phosphorylation site [posttranslational modification] 946483006789 intermolecular recognition site; other site 946483006790 dimerization interface [polypeptide binding]; other site 946483006791 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 946483006792 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 946483006793 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 946483006794 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 946483006795 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 946483006796 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 946483006797 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 946483006798 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 946483006799 active site 946483006800 dimer interface [polypeptide binding]; other site 946483006801 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 946483006802 protease TldD; Provisional; Region: tldD; PRK10735 946483006803 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 946483006804 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 946483006805 dimer interface [polypeptide binding]; other site 946483006806 substrate binding site [chemical binding]; other site 946483006807 ATP binding site [chemical binding]; other site 946483006808 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483006809 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 946483006810 S-adenosylmethionine binding site [chemical binding]; other site 946483006811 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 946483006812 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 946483006813 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 946483006814 substrate binding site; other site 946483006815 dimer interface; other site 946483006816 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 946483006817 homotrimer interaction site [polypeptide binding]; other site 946483006818 zinc binding site [ion binding]; other site 946483006819 CDP-binding sites; other site 946483006820 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 946483006821 active site 946483006822 substrate binding pocket [chemical binding]; other site 946483006823 dimer interface [polypeptide binding]; other site 946483006824 Bacterial Ig-like domain; Region: Big_5; pfam13205 946483006825 hypothetical protein; Reviewed; Region: PRK00024 946483006826 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 946483006827 MPN+ (JAMM) motif; other site 946483006828 Zinc-binding site [ion binding]; other site 946483006829 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 946483006830 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 946483006831 putative catalytic cysteine [active] 946483006832 PAS fold; Region: PAS_2; pfam08446 946483006833 GAF domain; Region: GAF; pfam01590 946483006834 Phytochrome region; Region: PHY; pfam00360 946483006835 PAS domain; Region: PAS_9; pfam13426 946483006836 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 946483006837 putative active site [active] 946483006838 heme pocket [chemical binding]; other site 946483006839 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 946483006840 dimer interface [polypeptide binding]; other site 946483006841 phosphorylation site [posttranslational modification] 946483006842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006843 ATP binding site [chemical binding]; other site 946483006844 Mg2+ binding site [ion binding]; other site 946483006845 G-X-G motif; other site 946483006846 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006848 active site 946483006849 phosphorylation site [posttranslational modification] 946483006850 intermolecular recognition site; other site 946483006851 dimerization interface [polypeptide binding]; other site 946483006852 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 946483006853 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 946483006854 S-adenosylmethionine binding site [chemical binding]; other site 946483006855 peptide chain release factor 1; Validated; Region: prfA; PRK00591 946483006856 This domain is found in peptide chain release factors; Region: PCRF; smart00937 946483006857 RF-1 domain; Region: RF-1; pfam00472 946483006858 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 946483006859 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 946483006860 tRNA; other site 946483006861 putative tRNA binding site [nucleotide binding]; other site 946483006862 putative NADP binding site [chemical binding]; other site 946483006863 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 946483006864 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 946483006865 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 946483006866 substrate binding site [chemical binding]; other site 946483006867 ATP binding site [chemical binding]; other site 946483006868 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 946483006869 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 946483006870 FAD binding pocket [chemical binding]; other site 946483006871 FAD binding motif [chemical binding]; other site 946483006872 phosphate binding motif [ion binding]; other site 946483006873 beta-alpha-beta structure motif; other site 946483006874 NAD binding pocket [chemical binding]; other site 946483006875 Flagellar protein FliS; Region: FliS; cl00654 946483006876 Flagellar protein FliT; Region: FliT; pfam05400 946483006877 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 946483006878 oligomerisation interface [polypeptide binding]; other site 946483006879 mobile loop; other site 946483006880 roof hairpin; other site 946483006881 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 946483006882 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 946483006883 ring oligomerisation interface [polypeptide binding]; other site 946483006884 ATP/Mg binding site [chemical binding]; other site 946483006885 stacking interactions; other site 946483006886 hinge regions; other site 946483006887 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483006888 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483006889 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483006890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483006891 Zn2+ binding site [ion binding]; other site 946483006892 Mg2+ binding site [ion binding]; other site 946483006893 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006895 active site 946483006896 phosphorylation site [posttranslational modification] 946483006897 intermolecular recognition site; other site 946483006898 dimerization interface [polypeptide binding]; other site 946483006899 Response regulator receiver domain; Region: Response_reg; pfam00072 946483006900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006901 active site 946483006902 phosphorylation site [posttranslational modification] 946483006903 intermolecular recognition site; other site 946483006904 dimerization interface [polypeptide binding]; other site 946483006905 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483006906 PAS domain; Region: PAS; smart00091 946483006907 putative active site [active] 946483006908 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 946483006909 dimer interface [polypeptide binding]; other site 946483006910 phosphorylation site [posttranslational modification] 946483006911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006912 ATP binding site [chemical binding]; other site 946483006913 Mg2+ binding site [ion binding]; other site 946483006914 G-X-G motif; other site 946483006915 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483006916 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 946483006917 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483006918 dimer interface [polypeptide binding]; other site 946483006919 putative CheW interface [polypeptide binding]; other site 946483006920 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 946483006921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006922 active site 946483006923 phosphorylation site [posttranslational modification] 946483006924 intermolecular recognition site; other site 946483006925 dimerization interface [polypeptide binding]; other site 946483006926 CheB methylesterase; Region: CheB_methylest; pfam01339 946483006927 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483006928 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483006929 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 946483006930 S-adenosylmethionine binding site [chemical binding]; other site 946483006931 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 946483006932 binding surface 946483006933 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483006934 TPR motif; other site 946483006935 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 946483006936 putative binding surface; other site 946483006937 active site 946483006938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483006939 ATP binding site [chemical binding]; other site 946483006940 Mg2+ binding site [ion binding]; other site 946483006941 G-X-G motif; other site 946483006942 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 946483006943 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006945 active site 946483006946 phosphorylation site [posttranslational modification] 946483006947 intermolecular recognition site; other site 946483006948 dimerization interface [polypeptide binding]; other site 946483006949 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006950 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006951 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483006952 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483006953 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483006954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483006955 active site 946483006956 phosphorylation site [posttranslational modification] 946483006957 intermolecular recognition site; other site 946483006958 dimerization interface [polypeptide binding]; other site 946483006959 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 946483006960 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 946483006961 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 946483006962 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 946483006963 nickel binding site [ion binding]; other site 946483006964 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 946483006965 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 946483006966 4Fe-4S binding domain; Region: Fer4; pfam00037 946483006967 4Fe-4S binding domain; Region: Fer4_6; pfam12837 946483006968 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 946483006969 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 946483006970 CPxP motif; other site 946483006971 phosphoglycolate phosphatase; Provisional; Region: PRK13222 946483006972 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 946483006973 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 946483006974 motif II; other site 946483006975 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 946483006976 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 946483006977 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 946483006978 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 946483006979 Phosphoglycerate kinase; Region: PGK; pfam00162 946483006980 substrate binding site [chemical binding]; other site 946483006981 hinge regions; other site 946483006982 ADP binding site [chemical binding]; other site 946483006983 catalytic site [active] 946483006984 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483006985 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483006986 substrate binding pocket [chemical binding]; other site 946483006987 membrane-bound complex binding site; other site 946483006988 hinge residues; other site 946483006989 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483006990 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483006991 substrate binding pocket [chemical binding]; other site 946483006992 membrane-bound complex binding site; other site 946483006993 hinge residues; other site 946483006994 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483006995 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483006996 substrate binding pocket [chemical binding]; other site 946483006997 membrane-bound complex binding site; other site 946483006998 hinge residues; other site 946483006999 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483007000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483007001 metal binding site [ion binding]; metal-binding site 946483007002 active site 946483007003 I-site; other site 946483007004 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 946483007005 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 946483007006 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 946483007007 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 946483007008 E3 interaction surface; other site 946483007009 lipoyl attachment site [posttranslational modification]; other site 946483007010 e3 binding domain; Region: E3_binding; pfam02817 946483007011 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 946483007012 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 946483007013 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 946483007014 dimer interface [polypeptide binding]; other site 946483007015 TPP-binding site [chemical binding]; other site 946483007016 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 946483007017 Type II restriction enzyme SfiI; Region: RestrictionSfiI; pfam11487 946483007018 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 946483007019 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483007020 RES domain; Region: RES; pfam08808 946483007021 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483007022 Putative addiction module component; Region: Unstab_antitox; pfam09720 946483007023 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 946483007024 putative active site [active] 946483007025 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 946483007026 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 946483007027 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007028 active site 946483007029 phosphorylation site [posttranslational modification] 946483007030 intermolecular recognition site; other site 946483007031 dimerization interface [polypeptide binding]; other site 946483007032 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 946483007033 DNA binding residues [nucleotide binding] 946483007034 dimerization interface [polypeptide binding]; other site 946483007035 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 946483007036 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 946483007037 motif 1; other site 946483007038 active site 946483007039 motif 2; other site 946483007040 motif 3; other site 946483007041 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 946483007042 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_1; cd02199 946483007043 homotrimer interaction site [polypeptide binding]; other site 946483007044 putative active site [active] 946483007045 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 946483007046 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 946483007047 TPP-binding site [chemical binding]; other site 946483007048 dimer interface [polypeptide binding]; other site 946483007049 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 946483007050 PYR/PP interface [polypeptide binding]; other site 946483007051 dimer interface [polypeptide binding]; other site 946483007052 TPP binding site [chemical binding]; other site 946483007053 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 946483007054 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 946483007055 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 946483007056 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 946483007057 ParB-like nuclease domain; Region: ParB; smart00470 946483007058 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 946483007059 S-adenosylmethionine binding site [chemical binding]; other site 946483007060 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 946483007061 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 946483007062 Competence protein; Region: Competence; pfam03772 946483007063 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 946483007064 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 946483007065 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 946483007066 Walker A/P-loop; other site 946483007067 ATP binding site [chemical binding]; other site 946483007068 Q-loop/lid; other site 946483007069 ABC transporter signature motif; other site 946483007070 Walker B; other site 946483007071 D-loop; other site 946483007072 H-loop/switch region; other site 946483007073 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 946483007074 N-acetyl-D-glucosamine binding site [chemical binding]; other site 946483007075 catalytic residue [active] 946483007076 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 946483007077 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 946483007078 dimer interface [polypeptide binding]; other site 946483007079 active site 946483007080 glycine-pyridoxal phosphate binding site [chemical binding]; other site 946483007081 folate binding site [chemical binding]; other site 946483007082 ATP cone domain; Region: ATP-cone; pfam03477 946483007083 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483007084 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483007085 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 946483007086 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 946483007087 catalytic triad [active] 946483007088 tyrosine kinase; Provisional; Region: PRK11519 946483007089 Chain length determinant protein; Region: Wzz; pfam02706 946483007090 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 946483007091 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 946483007092 Low molecular weight phosphatase family; Region: LMWPc; cd00115 946483007093 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 946483007094 active site 946483007095 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 946483007096 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 946483007097 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 946483007098 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 946483007099 dimer interface [polypeptide binding]; other site 946483007100 conserved gate region; other site 946483007101 putative PBP binding loops; other site 946483007102 ABC-ATPase subunit interface; other site 946483007103 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 946483007104 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 946483007105 dimer interface [polypeptide binding]; other site 946483007106 conserved gate region; other site 946483007107 putative PBP binding loops; other site 946483007108 ABC-ATPase subunit interface; other site 946483007109 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 946483007110 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 946483007111 Walker A/P-loop; other site 946483007112 ATP binding site [chemical binding]; other site 946483007113 Q-loop/lid; other site 946483007114 ABC transporter signature motif; other site 946483007115 Walker B; other site 946483007116 D-loop; other site 946483007117 H-loop/switch region; other site 946483007118 TOBE domain; Region: TOBE_2; pfam08402 946483007119 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 946483007120 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 946483007121 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 946483007122 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 946483007123 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 946483007124 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 946483007125 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 946483007126 DEAD_2; Region: DEAD_2; pfam06733 946483007127 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 946483007128 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 946483007129 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 946483007130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483007131 Zn2+ binding site [ion binding]; other site 946483007132 Mg2+ binding site [ion binding]; other site 946483007133 LexA repressor; Validated; Region: PRK00215 946483007134 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 946483007135 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 946483007136 Catalytic site [active] 946483007137 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 946483007138 active site 946483007139 homotetramer interface [polypeptide binding]; other site 946483007140 homodimer interface [polypeptide binding]; other site 946483007141 adenylate kinase; Reviewed; Region: adk; PRK00279 946483007142 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 946483007143 AMP-binding site [chemical binding]; other site 946483007144 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 946483007145 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 946483007146 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 946483007147 PIN domain; Region: PIN_3; pfam13470 946483007148 DNA binding domain, excisionase family; Region: excise; TIGR01764 946483007149 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 946483007150 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 946483007151 DNA binding residues [nucleotide binding] 946483007152 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483007153 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 946483007154 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 946483007155 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 946483007156 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 946483007157 hypothetical protein; Provisional; Region: PRK02268 946483007158 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 946483007159 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483007160 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 946483007161 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 946483007162 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 946483007163 putative active site [active] 946483007164 probable DNA repair protein; Region: TIGR03623 946483007165 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 946483007166 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 946483007167 putative active site [active] 946483007168 catalytic site [active] 946483007169 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483007170 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 946483007171 ATP binding site [chemical binding]; other site 946483007172 putative Mg++ binding site [ion binding]; other site 946483007173 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 946483007174 nucleotide binding region [chemical binding]; other site 946483007175 ATP-binding site [chemical binding]; other site 946483007176 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 946483007177 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 946483007178 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483007179 DNA methylase; Region: N6_N4_Mtase; cl17433 946483007180 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 946483007181 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 946483007182 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 946483007183 ADP-ribose binding site [chemical binding]; other site 946483007184 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 946483007185 Restriction endonuclease [Defense mechanisms]; Region: COG3587 946483007186 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 946483007187 ATP binding site [chemical binding]; other site 946483007188 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 946483007189 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 946483007190 PAS domain; Region: PAS_9; pfam13426 946483007191 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483007192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483007193 dimer interface [polypeptide binding]; other site 946483007194 putative CheW interface [polypeptide binding]; other site 946483007195 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 946483007196 Part of AAA domain; Region: AAA_19; pfam13245 946483007197 Family description; Region: UvrD_C_2; pfam13538 946483007198 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 946483007199 chaperone protein DnaJ; Provisional; Region: PRK14288 946483007200 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 946483007201 Methyltransferase domain; Region: Methyltransf_23; pfam13489 946483007202 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 946483007203 S-adenosylmethionine binding site [chemical binding]; other site 946483007204 WYL domain; Region: WYL; pfam13280 946483007205 Fic family protein [Function unknown]; Region: COG3177 946483007206 Fic/DOC family; Region: Fic; pfam02661 946483007207 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 946483007208 TM-ABC transporter signature motif; other site 946483007209 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 946483007210 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 946483007211 TM-ABC transporter signature motif; other site 946483007212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483007213 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 946483007214 Walker A/P-loop; other site 946483007215 ATP binding site [chemical binding]; other site 946483007216 Q-loop/lid; other site 946483007217 ABC transporter signature motif; other site 946483007218 Walker B; other site 946483007219 D-loop; other site 946483007220 H-loop/switch region; other site 946483007221 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 946483007222 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 946483007223 Walker A motif; other site 946483007224 ATP binding site [chemical binding]; other site 946483007225 Walker B motif; other site 946483007226 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 946483007227 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 946483007228 Walker A motif; other site 946483007229 ATP binding site [chemical binding]; other site 946483007230 Walker B motif; other site 946483007231 Uncharacterized conserved protein [Function unknown]; Region: COG2835 946483007232 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 946483007233 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 946483007234 Ligand binding site; other site 946483007235 oligomer interface; other site 946483007236 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 946483007237 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 946483007238 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 946483007239 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 946483007240 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 946483007241 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 946483007242 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 946483007243 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 946483007244 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 946483007245 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 946483007246 Probable Catalytic site; other site 946483007247 metal-binding site 946483007248 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007249 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 946483007250 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 946483007251 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 946483007252 S-adenosylmethionine binding site [chemical binding]; other site 946483007253 Uncharacterized conserved protein [Function unknown]; Region: COG3287 946483007254 FIST N domain; Region: FIST; pfam08495 946483007255 FIST C domain; Region: FIST_C; pfam10442 946483007256 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007257 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_4; cd03795 946483007258 putative ADP-binding pocket [chemical binding]; other site 946483007259 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 946483007260 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 946483007261 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 946483007262 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 946483007263 Walker A/P-loop; other site 946483007264 ATP binding site [chemical binding]; other site 946483007265 Q-loop/lid; other site 946483007266 ABC transporter signature motif; other site 946483007267 Walker B; other site 946483007268 D-loop; other site 946483007269 H-loop/switch region; other site 946483007270 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 946483007271 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007272 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 946483007273 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 946483007274 Family description; Region: VCBS; pfam13517 946483007275 Family description; Region: VCBS; pfam13517 946483007276 Family description; Region: VCBS; pfam13517 946483007277 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 946483007278 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 946483007279 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 946483007280 Walker A/P-loop; other site 946483007281 ATP binding site [chemical binding]; other site 946483007282 Q-loop/lid; other site 946483007283 ABC transporter signature motif; other site 946483007284 Walker B; other site 946483007285 D-loop; other site 946483007286 H-loop/switch region; other site 946483007287 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 946483007288 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483007289 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483007290 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 946483007291 selenophosphate synthetase; Provisional; Region: PRK00943 946483007292 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 946483007293 dimerization interface [polypeptide binding]; other site 946483007294 putative ATP binding site [chemical binding]; other site 946483007295 HDOD domain; Region: HDOD; pfam08668 946483007296 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 946483007297 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 946483007298 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 946483007299 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 946483007300 flagellar motor switch protein; Validated; Region: fliN; PRK05698 946483007301 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 946483007302 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 946483007303 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 946483007304 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 946483007305 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 946483007306 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 946483007307 Flagellar FliJ protein; Region: FliJ; pfam02050 946483007308 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 946483007309 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 946483007310 Walker A motif/ATP binding site; other site 946483007311 Walker B motif; other site 946483007312 Flagellar assembly protein FliH; Region: FliH; pfam02108 946483007313 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 946483007314 FliG C-terminal domain; Region: FliG_C; pfam01706 946483007315 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 946483007316 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 946483007317 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 946483007318 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 946483007319 PAS fold; Region: PAS; pfam00989 946483007320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483007321 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 946483007322 dimer interface [polypeptide binding]; other site 946483007323 phosphorylation site [posttranslational modification] 946483007324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007325 ATP binding site [chemical binding]; other site 946483007326 Mg2+ binding site [ion binding]; other site 946483007327 G-X-G motif; other site 946483007328 signal recognition particle protein; Provisional; Region: PRK10867 946483007329 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 946483007330 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 946483007331 P loop; other site 946483007332 GTP binding site [chemical binding]; other site 946483007333 Signal peptide binding domain; Region: SRP_SPB; pfam02978 946483007334 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483007335 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 946483007336 TPR motif; other site 946483007337 binding surface 946483007338 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 946483007339 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 946483007340 binding surface 946483007341 TPR motif; other site 946483007342 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 946483007343 binding surface 946483007344 TPR motif; other site 946483007345 TPR repeat; Region: TPR_11; pfam13414 946483007346 Low molecular weight phosphatase family; Region: LMWPc; cd00115 946483007347 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 946483007348 active site 946483007349 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 946483007350 Sodium Bile acid symporter family; Region: SBF; cl17470 946483007351 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 946483007352 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 946483007353 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 946483007354 putative active site [active] 946483007355 putative substrate binding site [chemical binding]; other site 946483007356 putative cosubstrate binding site; other site 946483007357 catalytic site [active] 946483007358 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 946483007359 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 946483007360 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 946483007361 dimerization interface [polypeptide binding]; other site 946483007362 ATP binding site [chemical binding]; other site 946483007363 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 946483007364 dimerization interface [polypeptide binding]; other site 946483007365 ATP binding site [chemical binding]; other site 946483007366 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 946483007367 putative active site [active] 946483007368 catalytic triad [active] 946483007369 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 946483007370 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 946483007371 RNB domain; Region: RNB; pfam00773 946483007372 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 946483007373 RNA binding site [nucleotide binding]; other site 946483007374 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 946483007375 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 946483007376 active site 946483007377 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 946483007378 Part of AAA domain; Region: AAA_19; pfam13245 946483007379 Family description; Region: UvrD_C_2; pfam13538 946483007380 Cache domain; Region: Cache_1; pfam02743 946483007381 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007382 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007383 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 946483007384 putative active site [active] 946483007385 heme pocket [chemical binding]; other site 946483007386 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 946483007387 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007388 putative active site [active] 946483007389 heme pocket [chemical binding]; other site 946483007390 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483007391 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 946483007392 putative active site [active] 946483007393 heme pocket [chemical binding]; other site 946483007394 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 946483007395 dimer interface [polypeptide binding]; other site 946483007396 phosphorylation site [posttranslational modification] 946483007397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007398 ATP binding site [chemical binding]; other site 946483007399 Mg2+ binding site [ion binding]; other site 946483007400 G-X-G motif; other site 946483007401 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483007402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007403 active site 946483007404 phosphorylation site [posttranslational modification] 946483007405 intermolecular recognition site; other site 946483007406 dimerization interface [polypeptide binding]; other site 946483007407 PAS domain; Region: PAS; smart00091 946483007408 PAS fold; Region: PAS_4; pfam08448 946483007409 PAS domain; Region: PAS; smart00091 946483007410 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007411 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 946483007412 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007413 putative active site [active] 946483007414 heme pocket [chemical binding]; other site 946483007415 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 946483007416 putative active site [active] 946483007417 heme pocket [chemical binding]; other site 946483007418 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 946483007419 dimer interface [polypeptide binding]; other site 946483007420 phosphorylation site [posttranslational modification] 946483007421 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007422 ATP binding site [chemical binding]; other site 946483007423 Mg2+ binding site [ion binding]; other site 946483007424 G-X-G motif; other site 946483007425 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483007426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007427 active site 946483007428 phosphorylation site [posttranslational modification] 946483007429 intermolecular recognition site; other site 946483007430 dimerization interface [polypeptide binding]; other site 946483007431 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 946483007432 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 946483007433 FeS/SAM binding site; other site 946483007434 HemN C-terminal domain; Region: HemN_C; pfam06969 946483007435 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 946483007436 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 946483007437 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 946483007438 sequence-specific DNA binding site [nucleotide binding]; other site 946483007439 salt bridge; other site 946483007440 HipA N-terminal domain; Region: Couple_hipA; cl11853 946483007441 HipA-like N-terminal domain; Region: HipA_N; pfam07805 946483007442 HipA-like C-terminal domain; Region: HipA_C; pfam07804 946483007443 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 946483007444 lipoyl attachment site [posttranslational modification]; other site 946483007445 glycine dehydrogenase; Provisional; Region: PRK05367 946483007446 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 946483007447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483007448 catalytic residue [active] 946483007449 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 946483007450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483007451 tetramer interface [polypeptide binding]; other site 946483007452 catalytic residue [active] 946483007453 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 946483007454 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 946483007455 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 946483007456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483007457 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 946483007458 dimer interface [polypeptide binding]; other site 946483007459 phosphorylation site [posttranslational modification] 946483007460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007461 ATP binding site [chemical binding]; other site 946483007462 Mg2+ binding site [ion binding]; other site 946483007463 G-X-G motif; other site 946483007464 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007466 active site 946483007467 phosphorylation site [posttranslational modification] 946483007468 intermolecular recognition site; other site 946483007469 dimerization interface [polypeptide binding]; other site 946483007470 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 946483007471 putative binding surface; other site 946483007472 active site 946483007473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007474 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007475 active site 946483007476 phosphorylation site [posttranslational modification] 946483007477 intermolecular recognition site; other site 946483007478 dimerization interface [polypeptide binding]; other site 946483007479 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 946483007480 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007482 active site 946483007483 phosphorylation site [posttranslational modification] 946483007484 intermolecular recognition site; other site 946483007485 dimerization interface [polypeptide binding]; other site 946483007486 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 946483007487 PAS domain; Region: PAS_9; pfam13426 946483007488 putative active site [active] 946483007489 heme pocket [chemical binding]; other site 946483007490 GAF domain; Region: GAF; cl17456 946483007491 GAF domain; Region: GAF_2; pfam13185 946483007492 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 946483007493 dimer interface [polypeptide binding]; other site 946483007494 phosphorylation site [posttranslational modification] 946483007495 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007497 active site 946483007498 phosphorylation site [posttranslational modification] 946483007499 intermolecular recognition site; other site 946483007500 dimerization interface [polypeptide binding]; other site 946483007501 Transposase domain (DUF772); Region: DUF772; pfam05598 946483007502 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483007503 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 946483007504 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 946483007505 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 946483007506 putative active site [active] 946483007507 homotetrameric interface [polypeptide binding]; other site 946483007508 metal binding site [ion binding]; metal-binding site 946483007509 Transposase; Region: HTH_Tnp_1; cl17663 946483007510 putative transposase OrfB; Reviewed; Region: PHA02517 946483007511 Homeodomain-like domain; Region: HTH_32; pfam13565 946483007512 Integrase core domain; Region: rve; pfam00665 946483007513 Integrase core domain; Region: rve_3; pfam13683 946483007514 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 946483007515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 946483007516 Transposase; Region: DEDD_Tnp_IS110; pfam01548 946483007517 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 946483007518 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 946483007519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 946483007520 Transposase; Region: DEDD_Tnp_IS110; pfam01548 946483007521 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 946483007522 HicB family; Region: HicB; pfam05534 946483007523 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 946483007524 Catalytic site; other site 946483007525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 946483007526 Transposase IS200 like; Region: Y1_Tnp; pfam01797 946483007527 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 946483007528 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 946483007529 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 946483007530 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 946483007531 substrate binding pocket [chemical binding]; other site 946483007532 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 946483007533 B12 binding site [chemical binding]; other site 946483007534 cobalt ligand [ion binding]; other site 946483007535 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 946483007536 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 946483007537 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 946483007538 metal-binding site [ion binding] 946483007539 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 946483007540 Soluble P-type ATPase [General function prediction only]; Region: COG4087 946483007541 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 946483007542 Short C-terminal domain; Region: SHOCT; pfam09851 946483007543 DNA primase, catalytic core; Region: dnaG; TIGR01391 946483007544 CHC2 zinc finger; Region: zf-CHC2; pfam01807 946483007545 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 946483007546 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 946483007547 active site 946483007548 metal binding site [ion binding]; metal-binding site 946483007549 interdomain interaction site; other site 946483007550 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 946483007551 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 946483007552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007553 active site 946483007554 phosphorylation site [posttranslational modification] 946483007555 intermolecular recognition site; other site 946483007556 dimerization interface [polypeptide binding]; other site 946483007557 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007559 active site 946483007560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483007561 phosphorylation site [posttranslational modification] 946483007562 intermolecular recognition site; other site 946483007563 dimerization interface [polypeptide binding]; other site 946483007564 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007565 ATP binding site [chemical binding]; other site 946483007566 Mg2+ binding site [ion binding]; other site 946483007567 G-X-G motif; other site 946483007568 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 946483007569 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 946483007570 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 946483007571 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 946483007572 Walker A motif; other site 946483007573 ATP binding site [chemical binding]; other site 946483007574 Walker B motif; other site 946483007575 arginine finger; other site 946483007576 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 946483007577 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 946483007578 ATP binding site [chemical binding]; other site 946483007579 active site 946483007580 substrate binding site [chemical binding]; other site 946483007581 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 946483007582 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 946483007583 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 946483007584 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 946483007585 ATP binding site [chemical binding]; other site 946483007586 putative Mg++ binding site [ion binding]; other site 946483007587 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 946483007588 nucleotide binding region [chemical binding]; other site 946483007589 ATP-binding site [chemical binding]; other site 946483007590 lipoyl synthase; Provisional; Region: PRK05481 946483007591 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 946483007592 FeS/SAM binding site; other site 946483007593 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 946483007594 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 946483007595 dimerization interface [polypeptide binding]; other site 946483007596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007597 ATP binding site [chemical binding]; other site 946483007598 Mg2+ binding site [ion binding]; other site 946483007599 G-X-G motif; other site 946483007600 osmolarity response regulator; Provisional; Region: ompR; PRK09468 946483007601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007602 active site 946483007603 phosphorylation site [posttranslational modification] 946483007604 intermolecular recognition site; other site 946483007605 dimerization interface [polypeptide binding]; other site 946483007606 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 946483007607 DNA binding site [nucleotide binding] 946483007608 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 946483007609 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 946483007610 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 946483007611 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 946483007612 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 946483007613 HAMP domain; Region: HAMP; pfam00672 946483007614 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 946483007615 dimer interface [polypeptide binding]; other site 946483007616 putative CheW interface [polypeptide binding]; other site 946483007617 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 946483007618 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 946483007619 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 946483007620 Tetratricopeptide repeat; Region: TPR_16; pfam13432 946483007621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007622 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 946483007623 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 946483007624 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007625 putative homodimer interface [polypeptide binding]; other site 946483007626 Tetratricopeptide repeat; Region: TPR_6; pfam13174 946483007627 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 946483007628 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 946483007629 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 946483007630 S-adenosylmethionine binding site [chemical binding]; other site 946483007631 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 946483007632 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483007633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483007634 Zn2+ binding site [ion binding]; other site 946483007635 Mg2+ binding site [ion binding]; other site 946483007636 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483007637 CHASE2 domain; Region: CHASE2; pfam05226 946483007638 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 946483007639 dimer interface [polypeptide binding]; other site 946483007640 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 946483007641 cyclase homology domain; Region: CHD; cd07302 946483007642 nucleotidyl binding site; other site 946483007643 metal binding site [ion binding]; metal-binding site 946483007644 dimer interface [polypeptide binding]; other site 946483007645 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 946483007646 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 946483007647 active site 946483007648 HIGH motif; other site 946483007649 dimer interface [polypeptide binding]; other site 946483007650 KMSKS motif; other site 946483007651 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 946483007652 Peptidase family M50; Region: Peptidase_M50; pfam02163 946483007653 active site 946483007654 putative substrate binding region [chemical binding]; other site 946483007655 Hemerythrin; Region: Hemerythrin; cd12107 946483007656 Fe binding site [ion binding]; other site 946483007657 PAS domain S-box; Region: sensory_box; TIGR00229 946483007658 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 946483007659 putative active site [active] 946483007660 heme pocket [chemical binding]; other site 946483007661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483007662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483007663 metal binding site [ion binding]; metal-binding site 946483007664 active site 946483007665 I-site; other site 946483007666 PAS domain S-box; Region: sensory_box; TIGR00229 946483007667 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 946483007668 putative active site [active] 946483007669 heme pocket [chemical binding]; other site 946483007670 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 946483007671 PAS domain; Region: PAS_9; pfam13426 946483007672 putative active site [active] 946483007673 heme pocket [chemical binding]; other site 946483007674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483007675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483007676 metal binding site [ion binding]; metal-binding site 946483007677 active site 946483007678 I-site; other site 946483007679 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 946483007680 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 946483007681 FAD binding domain; Region: FAD_binding_4; pfam01565 946483007682 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 946483007683 Fic family protein [Function unknown]; Region: COG3177 946483007684 Fic/DOC family; Region: Fic; pfam02661 946483007685 thymidylate synthase; Reviewed; Region: thyA; PRK01827 946483007686 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 946483007687 dimerization interface [polypeptide binding]; other site 946483007688 active site 946483007689 HD domain; Region: HD_4; pfam13328 946483007690 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 946483007691 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 946483007692 synthetase active site [active] 946483007693 NTP binding site [chemical binding]; other site 946483007694 metal binding site [ion binding]; metal-binding site 946483007695 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 946483007696 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 946483007697 exonuclease I; Provisional; Region: sbcB; PRK11779 946483007698 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 946483007699 active site 946483007700 catalytic site [active] 946483007701 substrate binding site [chemical binding]; other site 946483007702 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 946483007703 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 946483007704 iron donor protein CyaY; Region: FeS_CyaY; TIGR03421 946483007705 putative iron binding site [ion binding]; other site 946483007706 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 946483007707 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 946483007708 P-loop; other site 946483007709 Magnesium ion binding site [ion binding]; other site 946483007710 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 946483007711 Magnesium ion binding site [ion binding]; other site 946483007712 Predicted transcriptional regulators [Transcription]; Region: COG1733 946483007713 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 946483007714 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 946483007715 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 946483007716 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 946483007717 GTPase CgtA; Reviewed; Region: obgE; PRK12299 946483007718 GTP1/OBG; Region: GTP1_OBG; pfam01018 946483007719 Obg GTPase; Region: Obg; cd01898 946483007720 G1 box; other site 946483007721 GTP/Mg2+ binding site [chemical binding]; other site 946483007722 Switch I region; other site 946483007723 G2 box; other site 946483007724 G3 box; other site 946483007725 Switch II region; other site 946483007726 G4 box; other site 946483007727 G5 box; other site 946483007728 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 946483007729 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 946483007730 putative active site [active] 946483007731 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 946483007732 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 946483007733 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 946483007734 NTP binding site [chemical binding]; other site 946483007735 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 946483007736 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 946483007737 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 946483007738 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 946483007739 Walker A motif; other site 946483007740 ATP binding site [chemical binding]; other site 946483007741 Walker B motif; other site 946483007742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483007743 Integrase core domain; Region: rve; pfam00665 946483007744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483007745 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 946483007746 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 946483007747 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 946483007748 ATP binding site [chemical binding]; other site 946483007749 putative Mg++ binding site [ion binding]; other site 946483007750 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 946483007751 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 946483007752 Fic/DOC family; Region: Fic; cl00960 946483007753 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 946483007754 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 946483007755 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 946483007756 ORF6N domain; Region: ORF6N; pfam10543 946483007757 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 946483007758 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 946483007759 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 946483007760 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483007761 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483007762 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 946483007763 putative active site [active] 946483007764 heme pocket [chemical binding]; other site 946483007765 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 946483007766 putative active site [active] 946483007767 heme pocket [chemical binding]; other site 946483007768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483007769 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 946483007770 dimer interface [polypeptide binding]; other site 946483007771 phosphorylation site [posttranslational modification] 946483007772 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007773 ATP binding site [chemical binding]; other site 946483007774 Mg2+ binding site [ion binding]; other site 946483007775 G-X-G motif; other site 946483007776 Response regulator receiver domain; Region: Response_reg; pfam00072 946483007777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007778 active site 946483007779 phosphorylation site [posttranslational modification] 946483007780 intermolecular recognition site; other site 946483007781 dimerization interface [polypeptide binding]; other site 946483007782 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 946483007783 putative binding surface; other site 946483007784 active site 946483007785 Transposase IS200 like; Region: Y1_Tnp; pfam01797 946483007786 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483007787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007788 active site 946483007789 phosphorylation site [posttranslational modification] 946483007790 intermolecular recognition site; other site 946483007791 dimerization interface [polypeptide binding]; other site 946483007792 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 946483007793 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 946483007794 TPR repeat; Region: TPR_11; pfam13414 946483007795 binding surface 946483007796 TPR motif; other site 946483007797 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 946483007798 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 946483007799 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483007800 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483007801 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 946483007802 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 946483007803 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 946483007804 Walker A/P-loop; other site 946483007805 ATP binding site [chemical binding]; other site 946483007806 Q-loop/lid; other site 946483007807 ABC transporter signature motif; other site 946483007808 Walker B; other site 946483007809 D-loop; other site 946483007810 H-loop/switch region; other site 946483007811 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 946483007812 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 946483007813 ATP binding site [chemical binding]; other site 946483007814 putative Mg++ binding site [ion binding]; other site 946483007815 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 946483007816 nucleotide binding region [chemical binding]; other site 946483007817 ATP-binding site [chemical binding]; other site 946483007818 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 946483007819 HRDC domain; Region: HRDC; pfam00570 946483007820 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 946483007821 UGMP family protein; Validated; Region: PRK09604 946483007822 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 946483007823 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 946483007824 PAS domain; Region: PAS_9; pfam13426 946483007825 putative active site [active] 946483007826 heme pocket [chemical binding]; other site 946483007827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483007828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483007829 metal binding site [ion binding]; metal-binding site 946483007830 active site 946483007831 I-site; other site 946483007832 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 946483007833 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 946483007834 substrate binding pocket [chemical binding]; other site 946483007835 membrane-bound complex binding site; other site 946483007836 hinge residues; other site 946483007837 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 946483007838 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 946483007839 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 946483007840 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 946483007841 substrate binding site [chemical binding]; other site 946483007842 active site 946483007843 catalytic residues [active] 946483007844 heterodimer interface [polypeptide binding]; other site 946483007845 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 946483007846 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 946483007847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 946483007848 catalytic residue [active] 946483007849 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 946483007850 active site 946483007851 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 946483007852 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 946483007853 dimerization interface 3.5A [polypeptide binding]; other site 946483007854 active site 946483007855 FimV N-terminal domain; Region: FimV_core; TIGR03505 946483007856 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 946483007857 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 946483007858 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 946483007859 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 946483007860 tartrate dehydrogenase; Region: TTC; TIGR02089 946483007861 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 946483007862 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 946483007863 substrate binding site [chemical binding]; other site 946483007864 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 946483007865 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 946483007866 substrate binding site [chemical binding]; other site 946483007867 ligand binding site [chemical binding]; other site 946483007868 Escherichia coli (Ec) citrate synthase (CS) GltA_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). The overall CS...; Region: EcCS_like; cd06114 946483007869 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 946483007870 dimer interface [polypeptide binding]; other site 946483007871 active site 946483007872 citrylCoA binding site [chemical binding]; other site 946483007873 NADH binding [chemical binding]; other site 946483007874 cationic pore residues; other site 946483007875 oxalacetate/citrate binding site [chemical binding]; other site 946483007876 coenzyme A binding site [chemical binding]; other site 946483007877 catalytic triad [active] 946483007878 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 946483007879 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 946483007880 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 946483007881 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 946483007882 L-aspartate oxidase; Provisional; Region: PRK06175 946483007883 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 946483007884 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 946483007885 SdhC subunit interface [polypeptide binding]; other site 946483007886 proximal heme binding site [chemical binding]; other site 946483007887 cardiolipin binding site; other site 946483007888 Iron-sulfur protein interface; other site 946483007889 proximal quinone binding site [chemical binding]; other site 946483007890 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 946483007891 Iron-sulfur protein interface; other site 946483007892 proximal quinone binding site [chemical binding]; other site 946483007893 SdhD (CybS) interface [polypeptide binding]; other site 946483007894 proximal heme binding site [chemical binding]; other site 946483007895 malate dehydrogenase; Provisional; Region: PRK05442 946483007896 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 946483007897 NAD(P) binding site [chemical binding]; other site 946483007898 dimer interface [polypeptide binding]; other site 946483007899 malate binding site [chemical binding]; other site 946483007900 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 946483007901 dimerization interface [polypeptide binding]; other site 946483007902 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 946483007903 dimer interface [polypeptide binding]; other site 946483007904 phosphorylation site [posttranslational modification] 946483007905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007906 ATP binding site [chemical binding]; other site 946483007907 Mg2+ binding site [ion binding]; other site 946483007908 G-X-G motif; other site 946483007909 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483007910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483007911 active site 946483007912 phosphorylation site [posttranslational modification] 946483007913 intermolecular recognition site; other site 946483007914 dimerization interface [polypeptide binding]; other site 946483007915 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 946483007916 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 946483007917 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 946483007918 DNA methylase; Region: N6_N4_Mtase; pfam01555 946483007919 Transposase IS200 like; Region: Y1_Tnp; pfam01797 946483007920 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 946483007921 Protein of unknown function DUF58; Region: DUF58; pfam01882 946483007922 MoxR-like ATPases [General function prediction only]; Region: COG0714 946483007923 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 946483007924 Walker A motif; other site 946483007925 ATP binding site [chemical binding]; other site 946483007926 Walker B motif; other site 946483007927 arginine finger; other site 946483007928 Uncharacterized conserved protein [Function unknown]; Region: COG4095 946483007929 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 946483007930 beta-hexosaminidase; Provisional; Region: PRK05337 946483007931 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 946483007932 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 946483007933 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 946483007934 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 946483007935 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007936 ATP binding site [chemical binding]; other site 946483007937 Mg2+ binding site [ion binding]; other site 946483007938 G-X-G motif; other site 946483007939 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 946483007940 anchoring element; other site 946483007941 dimer interface [polypeptide binding]; other site 946483007942 ATP binding site [chemical binding]; other site 946483007943 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 946483007944 active site 946483007945 metal binding site [ion binding]; metal-binding site 946483007946 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 946483007947 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483007948 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483007949 DEAD-like helicases superfamily; Region: DEXDc; smart00487 946483007950 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 946483007951 DNA methylase; Region: N6_N4_Mtase; cl17433 946483007952 DNA methylase; Region: N6_N4_Mtase; cl17433 946483007953 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 946483007954 HD domain; Region: HD_4; pfam13328 946483007955 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 946483007956 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 946483007957 FtsX-like permease family; Region: FtsX; pfam02687 946483007958 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 946483007959 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 946483007960 Walker A/P-loop; other site 946483007961 ATP binding site [chemical binding]; other site 946483007962 Q-loop/lid; other site 946483007963 ABC transporter signature motif; other site 946483007964 Walker B; other site 946483007965 D-loop; other site 946483007966 H-loop/switch region; other site 946483007967 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 946483007968 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 946483007969 HlyD family secretion protein; Region: HlyD_3; pfam13437 946483007970 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 946483007971 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 946483007972 feedback inhibition sensing region; other site 946483007973 homohexameric interface [polypeptide binding]; other site 946483007974 nucleotide binding site [chemical binding]; other site 946483007975 N-acetyl-L-glutamate binding site [chemical binding]; other site 946483007976 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 946483007977 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 946483007978 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 946483007979 dihydrodipicolinate reductase; Provisional; Region: PRK00048 946483007980 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 946483007981 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 946483007982 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 946483007983 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 946483007984 CHASE domain; Region: CHASE; pfam03924 946483007985 PAS fold; Region: PAS_3; pfam08447 946483007986 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 946483007987 heme pocket [chemical binding]; other site 946483007988 putative active site [active] 946483007989 PAS domain S-box; Region: sensory_box; TIGR00229 946483007990 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 946483007991 putative active site [active] 946483007992 heme pocket [chemical binding]; other site 946483007993 PAS domain; Region: PAS; smart00091 946483007994 PAS fold; Region: PAS_7; pfam12860 946483007995 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 946483007996 dimer interface [polypeptide binding]; other site 946483007997 phosphorylation site [posttranslational modification] 946483007998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483007999 ATP binding site [chemical binding]; other site 946483008000 Mg2+ binding site [ion binding]; other site 946483008001 G-X-G motif; other site 946483008002 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008004 active site 946483008005 phosphorylation site [posttranslational modification] 946483008006 intermolecular recognition site; other site 946483008007 dimerization interface [polypeptide binding]; other site 946483008008 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 946483008009 putative binding surface; other site 946483008010 active site 946483008011 Type II/IV secretion system protein; Region: T2SE; pfam00437 946483008012 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 946483008013 Walker A motif; other site 946483008014 ATP binding site [chemical binding]; other site 946483008015 Walker B motif; other site 946483008016 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 946483008017 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 946483008018 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 946483008019 PDGLE domain; Region: PDGLE; pfam13190 946483008020 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 946483008021 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 946483008022 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 946483008023 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 946483008024 putative active site [active] 946483008025 putative PHP Thumb interface [polypeptide binding]; other site 946483008026 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 946483008027 generic binding surface I; other site 946483008028 generic binding surface II; other site 946483008029 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 946483008030 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 946483008031 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 946483008032 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 946483008033 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 946483008034 putative active site [active] 946483008035 Ap4A binding site [chemical binding]; other site 946483008036 nudix motif; other site 946483008037 putative metal binding site [ion binding]; other site 946483008038 prolyl-tRNA synthetase; Provisional; Region: PRK09194 946483008039 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 946483008040 dimer interface [polypeptide binding]; other site 946483008041 motif 1; other site 946483008042 active site 946483008043 motif 2; other site 946483008044 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 946483008045 putative deacylase active site [active] 946483008046 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 946483008047 active site 946483008048 motif 3; other site 946483008049 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 946483008050 anticodon binding site; other site 946483008051 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 946483008052 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 946483008053 N-acetyl-D-glucosamine binding site [chemical binding]; other site 946483008054 catalytic residue [active] 946483008055 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 946483008056 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 946483008057 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 946483008058 active site 946483008059 hydrophilic channel; other site 946483008060 dimerization interface [polypeptide binding]; other site 946483008061 catalytic residues [active] 946483008062 active site lid [active] 946483008063 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 946483008064 Recombination protein O N terminal; Region: RecO_N; pfam11967 946483008065 Recombination protein O C terminal; Region: RecO_C; pfam02565 946483008066 GTPase Era; Reviewed; Region: era; PRK00089 946483008067 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 946483008068 G1 box; other site 946483008069 GTP/Mg2+ binding site [chemical binding]; other site 946483008070 Switch I region; other site 946483008071 G2 box; other site 946483008072 Switch II region; other site 946483008073 G3 box; other site 946483008074 G4 box; other site 946483008075 G5 box; other site 946483008076 KH domain; Region: KH_2; pfam07650 946483008077 ribonuclease III; Reviewed; Region: rnc; PRK00102 946483008078 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 946483008079 dimerization interface [polypeptide binding]; other site 946483008080 active site 946483008081 metal binding site [ion binding]; metal-binding site 946483008082 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 946483008083 dsRNA binding site [nucleotide binding]; other site 946483008084 signal peptidase I; Provisional; Region: PRK10861 946483008085 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 946483008086 Catalytic site [active] 946483008087 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 946483008088 GTP-binding protein LepA; Provisional; Region: PRK05433 946483008089 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 946483008090 G1 box; other site 946483008091 putative GEF interaction site [polypeptide binding]; other site 946483008092 GTP/Mg2+ binding site [chemical binding]; other site 946483008093 Switch I region; other site 946483008094 G2 box; other site 946483008095 G3 box; other site 946483008096 Switch II region; other site 946483008097 G4 box; other site 946483008098 G5 box; other site 946483008099 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 946483008100 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 946483008101 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 946483008102 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 946483008103 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 946483008104 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 946483008105 protein binding site [polypeptide binding]; other site 946483008106 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 946483008107 protein binding site [polypeptide binding]; other site 946483008108 gamma-glutamyl kinase; Provisional; Region: PRK05429 946483008109 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 946483008110 nucleotide binding site [chemical binding]; other site 946483008111 homotetrameric interface [polypeptide binding]; other site 946483008112 putative phosphate binding site [ion binding]; other site 946483008113 putative allosteric binding site; other site 946483008114 PUA domain; Region: PUA; pfam01472 946483008115 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 946483008116 CoA binding domain; Region: CoA_binding; smart00881 946483008117 CoA-ligase; Region: Ligase_CoA; pfam00549 946483008118 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 946483008119 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 946483008120 CoA-ligase; Region: Ligase_CoA; pfam00549 946483008121 Protein of unknown function (DUF433); Region: DUF433; pfam04255 946483008122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 946483008123 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 946483008124 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 946483008125 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 946483008126 protein-splicing catalytic site; other site 946483008127 thioester formation/cholesterol transfer; other site 946483008128 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 946483008129 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 946483008130 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 946483008131 putative active site [active] 946483008132 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 946483008133 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 946483008134 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 946483008135 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483008136 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 946483008137 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483008138 putative transposase OrfB; Reviewed; Region: PHA02517 946483008139 HTH-like domain; Region: HTH_21; pfam13276 946483008140 Integrase core domain; Region: rve; pfam00665 946483008141 Integrase core domain; Region: rve_3; pfam13683 946483008142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 946483008143 AAA domain; Region: AAA_21; pfam13304 946483008144 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 946483008145 active site 946483008146 NTP binding site [chemical binding]; other site 946483008147 metal binding triad [ion binding]; metal-binding site 946483008148 antibiotic binding site [chemical binding]; other site 946483008149 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 946483008150 DHHA1 domain; Region: DHHA1; pfam02272 946483008151 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 946483008152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 946483008153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 946483008154 Sporulation related domain; Region: SPOR; pfam05036 946483008155 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 946483008156 Colicin V production protein; Region: Colicin_V; pfam02674 946483008157 amidophosphoribosyltransferase; Provisional; Region: PRK09246 946483008158 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 946483008159 active site 946483008160 tetramer interface [polypeptide binding]; other site 946483008161 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 946483008162 active site 946483008163 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 946483008164 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 946483008165 active site 946483008166 HIGH motif; other site 946483008167 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 946483008168 active site 946483008169 KMSKS motif; other site 946483008170 CheW-like domain; Region: CheW; pfam01584 946483008171 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 946483008172 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 946483008173 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 946483008174 ATP binding site [chemical binding]; other site 946483008175 putative Mg++ binding site [ion binding]; other site 946483008176 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 946483008177 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 946483008178 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 946483008179 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 946483008180 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 946483008181 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483008182 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483008183 hydroxyglutarate oxidase; Provisional; Region: PRK11728 946483008184 Predicted dehydrogenase [General function prediction only]; Region: COG0579 946483008185 B12 binding domain; Region: B12-binding_2; pfam02607 946483008186 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; cd02065 946483008187 B12 binding site [chemical binding]; other site 946483008188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008189 ATP binding site [chemical binding]; other site 946483008190 Mg2+ binding site [ion binding]; other site 946483008191 G-X-G motif; other site 946483008192 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 946483008193 active site 946483008194 zinc binding site [ion binding]; other site 946483008195 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 946483008196 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 946483008197 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 946483008198 Protein of unknown function, DUF484; Region: DUF484; cl17449 946483008199 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 946483008200 SmpB-tmRNA interface; other site 946483008201 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 946483008202 putative coenzyme Q binding site [chemical binding]; other site 946483008203 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 946483008204 Superinfection exclusion protein B; Region: SieB; pfam14163 946483008205 CHASE domain; Region: CHASE; pfam03924 946483008206 GAF domain; Region: GAF_2; pfam13185 946483008207 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 946483008208 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 946483008209 PAS domain; Region: PAS_9; pfam13426 946483008210 putative active site [active] 946483008211 heme pocket [chemical binding]; other site 946483008212 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 946483008213 PAS fold; Region: PAS_3; pfam08447 946483008214 putative active site [active] 946483008215 heme pocket [chemical binding]; other site 946483008216 PAS domain; Region: PAS_8; pfam13188 946483008217 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483008218 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483008219 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 946483008220 putative active site [active] 946483008221 heme pocket [chemical binding]; other site 946483008222 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 946483008223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 946483008224 putative active site [active] 946483008225 heme pocket [chemical binding]; other site 946483008226 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 946483008227 dimer interface [polypeptide binding]; other site 946483008228 phosphorylation site [posttranslational modification] 946483008229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008230 ATP binding site [chemical binding]; other site 946483008231 Mg2+ binding site [ion binding]; other site 946483008232 G-X-G motif; other site 946483008233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008234 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008235 active site 946483008236 phosphorylation site [posttranslational modification] 946483008237 intermolecular recognition site; other site 946483008238 dimerization interface [polypeptide binding]; other site 946483008239 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008241 active site 946483008242 phosphorylation site [posttranslational modification] 946483008243 intermolecular recognition site; other site 946483008244 dimerization interface [polypeptide binding]; other site 946483008245 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 946483008246 putative binding surface; other site 946483008247 active site 946483008248 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 946483008249 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 946483008250 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 946483008251 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 946483008252 active site 946483008253 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 946483008254 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 946483008255 non-specific DNA binding site [nucleotide binding]; other site 946483008256 salt bridge; other site 946483008257 sequence-specific DNA binding site [nucleotide binding]; other site 946483008258 GMP synthase; Reviewed; Region: guaA; PRK00074 946483008259 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 946483008260 AMP/PPi binding site [chemical binding]; other site 946483008261 candidate oxyanion hole; other site 946483008262 catalytic triad [active] 946483008263 potential glutamine specificity residues [chemical binding]; other site 946483008264 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 946483008265 ATP Binding subdomain [chemical binding]; other site 946483008266 Ligand Binding sites [chemical binding]; other site 946483008267 Dimerization subdomain; other site 946483008268 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 946483008269 dimer interface [polypeptide binding]; other site 946483008270 phosphorylation site [posttranslational modification] 946483008271 Transposase IS200 like; Region: Y1_Tnp; pfam01797 946483008272 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008273 ATP binding site [chemical binding]; other site 946483008274 Mg2+ binding site [ion binding]; other site 946483008275 G-X-G motif; other site 946483008276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008277 active site 946483008278 phosphorylation site [posttranslational modification] 946483008279 intermolecular recognition site; other site 946483008280 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483008281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008282 active site 946483008283 phosphorylation site [posttranslational modification] 946483008284 intermolecular recognition site; other site 946483008285 dimerization interface [polypeptide binding]; other site 946483008286 Hpt domain; Region: Hpt; pfam01627 946483008287 putative binding surface; other site 946483008288 active site 946483008289 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 946483008290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008291 active site 946483008292 phosphorylation site [posttranslational modification] 946483008293 intermolecular recognition site; other site 946483008294 dimerization interface [polypeptide binding]; other site 946483008295 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 946483008296 Zn2+ binding site [ion binding]; other site 946483008297 Mg2+ binding site [ion binding]; other site 946483008298 PBP superfamily domain; Region: PBP_like_2; cl17296 946483008299 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 946483008300 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 946483008301 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 946483008302 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 946483008303 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 946483008304 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 946483008305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483008306 AAA domain; Region: AAA_23; pfam13476 946483008307 Walker A/P-loop; other site 946483008308 ATP binding site [chemical binding]; other site 946483008309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483008310 Q-loop/lid; other site 946483008311 ABC transporter signature motif; other site 946483008312 Walker B; other site 946483008313 D-loop; other site 946483008314 H-loop/switch region; other site 946483008315 TIGR02646 family protein; Region: TIGR02646 946483008316 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 946483008317 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 946483008318 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 946483008319 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 946483008320 non-specific DNA binding site [nucleotide binding]; other site 946483008321 salt bridge; other site 946483008322 sequence-specific DNA binding site [nucleotide binding]; other site 946483008323 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 946483008324 active site 946483008325 dimer interface [polypeptide binding]; other site 946483008326 metal binding site [ion binding]; metal-binding site 946483008327 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 946483008328 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 946483008329 NADP-binding site; other site 946483008330 homotetramer interface [polypeptide binding]; other site 946483008331 substrate binding site [chemical binding]; other site 946483008332 homodimer interface [polypeptide binding]; other site 946483008333 active site 946483008334 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 946483008335 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 946483008336 NADP binding site [chemical binding]; other site 946483008337 active site 946483008338 putative substrate binding site [chemical binding]; other site 946483008339 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 946483008340 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 946483008341 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 946483008342 S-adenosylmethionine binding site [chemical binding]; other site 946483008343 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 946483008344 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 946483008345 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 946483008346 substrate binding pocket [chemical binding]; other site 946483008347 chain length determination region; other site 946483008348 substrate-Mg2+ binding site; other site 946483008349 catalytic residues [active] 946483008350 aspartate-rich region 1; other site 946483008351 active site lid residues [active] 946483008352 aspartate-rich region 2; other site 946483008353 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 946483008354 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 946483008355 TPP-binding site; other site 946483008356 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 946483008357 PYR/PP interface [polypeptide binding]; other site 946483008358 dimer interface [polypeptide binding]; other site 946483008359 TPP binding site [chemical binding]; other site 946483008360 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 946483008361 Hemerythrin-like domain; Region: Hr-like; cd12108 946483008362 polyphosphate kinase; Provisional; Region: PRK05443 946483008363 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 946483008364 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 946483008365 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 946483008366 putative domain interface [polypeptide binding]; other site 946483008367 putative active site [active] 946483008368 catalytic site [active] 946483008369 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 946483008370 putative domain interface [polypeptide binding]; other site 946483008371 putative active site [active] 946483008372 catalytic site [active] 946483008373 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 946483008374 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 946483008375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 946483008376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 946483008377 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 946483008378 dimerization interface [polypeptide binding]; other site 946483008379 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 946483008380 PAS domain; Region: PAS_9; pfam13426 946483008381 putative active site [active] 946483008382 heme pocket [chemical binding]; other site 946483008383 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 946483008384 PAS domain; Region: PAS_9; pfam13426 946483008385 putative active site [active] 946483008386 heme pocket [chemical binding]; other site 946483008387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483008388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483008389 metal binding site [ion binding]; metal-binding site 946483008390 active site 946483008391 I-site; other site 946483008392 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 946483008393 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 946483008394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483008395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483008396 metal binding site [ion binding]; metal-binding site 946483008397 active site 946483008398 I-site; other site 946483008399 LTXXQ motif family protein; Region: LTXXQ; pfam07813 946483008400 recombination associated protein; Reviewed; Region: rdgC; PRK00321 946483008401 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 946483008402 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 946483008403 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 946483008404 chromosome condensation membrane protein; Provisional; Region: PRK14196 946483008405 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 946483008406 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 946483008407 catalytic residue [active] 946483008408 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 946483008409 PAS domain; Region: PAS_9; pfam13426 946483008410 putative active site [active] 946483008411 heme pocket [chemical binding]; other site 946483008412 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 946483008413 PAS fold; Region: PAS_3; pfam08447 946483008414 putative active site [active] 946483008415 heme pocket [chemical binding]; other site 946483008416 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 946483008417 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 946483008418 DNA binding residues [nucleotide binding] 946483008419 dimerization interface [polypeptide binding]; other site 946483008420 PAS domain S-box; Region: sensory_box; TIGR00229 946483008421 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 946483008422 putative active site [active] 946483008423 heme pocket [chemical binding]; other site 946483008424 PAS domain S-box; Region: sensory_box; TIGR00229 946483008425 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 946483008426 putative active site [active] 946483008427 heme pocket [chemical binding]; other site 946483008428 hypothetical protein; Provisional; Region: PRK13560 946483008429 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 946483008430 putative active site [active] 946483008431 heme pocket [chemical binding]; other site 946483008432 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 946483008433 putative active site [active] 946483008434 heme pocket [chemical binding]; other site 946483008435 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 946483008436 putative active site [active] 946483008437 heme pocket [chemical binding]; other site 946483008438 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 946483008439 putative active site [active] 946483008440 heme pocket [chemical binding]; other site 946483008441 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 946483008442 dimer interface [polypeptide binding]; other site 946483008443 phosphorylation site [posttranslational modification] 946483008444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008445 ATP binding site [chemical binding]; other site 946483008446 Mg2+ binding site [ion binding]; other site 946483008447 G-X-G motif; other site 946483008448 MASE1; Region: MASE1; cl17823 946483008449 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008450 ATP binding site [chemical binding]; other site 946483008451 Mg2+ binding site [ion binding]; other site 946483008452 G-X-G motif; other site 946483008453 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008455 active site 946483008456 phosphorylation site [posttranslational modification] 946483008457 intermolecular recognition site; other site 946483008458 dimerization interface [polypeptide binding]; other site 946483008459 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008461 active site 946483008462 phosphorylation site [posttranslational modification] 946483008463 intermolecular recognition site; other site 946483008464 dimerization interface [polypeptide binding]; other site 946483008465 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 946483008466 PAS domain; Region: PAS_9; pfam13426 946483008467 putative active site [active] 946483008468 heme pocket [chemical binding]; other site 946483008469 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483008470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483008471 metal binding site [ion binding]; metal-binding site 946483008472 active site 946483008473 I-site; other site 946483008474 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 946483008475 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 946483008476 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008478 active site 946483008479 phosphorylation site [posttranslational modification] 946483008480 intermolecular recognition site; other site 946483008481 dimerization interface [polypeptide binding]; other site 946483008482 CHASE domain; Region: CHASE; pfam03924 946483008483 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 946483008484 dimer interface [polypeptide binding]; other site 946483008485 phosphorylation site [posttranslational modification] 946483008486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008487 ATP binding site [chemical binding]; other site 946483008488 Mg2+ binding site [ion binding]; other site 946483008489 G-X-G motif; other site 946483008490 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483008491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008492 active site 946483008493 phosphorylation site [posttranslational modification] 946483008494 intermolecular recognition site; other site 946483008495 dimerization interface [polypeptide binding]; other site 946483008496 PAS domain; Region: PAS_9; pfam13426 946483008497 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 946483008498 putative active site [active] 946483008499 heme pocket [chemical binding]; other site 946483008500 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483008501 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 946483008502 dimer interface [polypeptide binding]; other site 946483008503 phosphorylation site [posttranslational modification] 946483008504 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008505 ATP binding site [chemical binding]; other site 946483008506 Mg2+ binding site [ion binding]; other site 946483008507 G-X-G motif; other site 946483008508 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 946483008509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008510 active site 946483008511 phosphorylation site [posttranslational modification] 946483008512 intermolecular recognition site; other site 946483008513 dimerization interface [polypeptide binding]; other site 946483008514 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 946483008515 CheB methylesterase; Region: CheB_methylest; pfam01339 946483008516 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 946483008517 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 946483008518 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 946483008519 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 946483008520 PAS domain; Region: PAS; smart00091 946483008521 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 946483008522 PAS domain; Region: PAS_9; pfam13426 946483008523 putative active site [active] 946483008524 heme pocket [chemical binding]; other site 946483008525 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483008526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483008527 metal binding site [ion binding]; metal-binding site 946483008528 active site 946483008529 I-site; other site 946483008530 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 946483008531 PAS fold; Region: PAS_2; pfam08446 946483008532 GAF domain; Region: GAF; pfam01590 946483008533 Phytochrome region; Region: PHY; pfam00360 946483008534 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 946483008535 heme binding pocket [chemical binding]; other site 946483008536 heme ligand [chemical binding]; other site 946483008537 Protein of unknown function (DUF342); Region: DUF342; pfam03961 946483008538 heat shock protein 90; Provisional; Region: PRK05218 946483008539 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008540 ATP binding site [chemical binding]; other site 946483008541 Mg2+ binding site [ion binding]; other site 946483008542 G-X-G motif; other site 946483008543 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 946483008544 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 946483008545 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 946483008546 putative active site [active] 946483008547 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 946483008548 dimer interface [polypeptide binding]; other site 946483008549 phosphorylation site [posttranslational modification] 946483008550 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 946483008551 ATP binding site [chemical binding]; other site 946483008552 Mg2+ binding site [ion binding]; other site 946483008553 G-X-G motif; other site 946483008554 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008556 active site 946483008557 phosphorylation site [posttranslational modification] 946483008558 intermolecular recognition site; other site 946483008559 dimerization interface [polypeptide binding]; other site 946483008560 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008562 active site 946483008563 phosphorylation site [posttranslational modification] 946483008564 intermolecular recognition site; other site 946483008565 dimerization interface [polypeptide binding]; other site 946483008566 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 946483008567 putative binding surface; other site 946483008568 active site 946483008569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 946483008570 Response regulator receiver domain; Region: Response_reg; pfam00072 946483008571 active site 946483008572 phosphorylation site [posttranslational modification] 946483008573 intermolecular recognition site; other site 946483008574 dimerization interface [polypeptide binding]; other site 946483008575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 946483008576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 946483008577 metal binding site [ion binding]; metal-binding site 946483008578 active site 946483008579 I-site; other site 946483008580 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 946483008581 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 946483008582 FeS/SAM binding site; other site 946483008583 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 946483008584 putative ligand binding pocket/active site [active] 946483008585 putative metal binding site [ion binding]; other site 946483008586 AMMECR1; Region: AMMECR1; pfam01871 946483008587 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 946483008588 seryl-tRNA synthetase; Provisional; Region: PRK05431 946483008589 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 946483008590 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 946483008591 dimer interface [polypeptide binding]; other site 946483008592 active site 946483008593 motif 1; other site 946483008594 motif 2; other site 946483008595 motif 3; other site 946483008596 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 946483008597 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 946483008598 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 946483008599 hypothetical protein; Reviewed; Region: PRK00024 946483008600 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 946483008601 MPN+ (JAMM) motif; other site 946483008602 Zinc-binding site [ion binding]; other site 946483008603 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 946483008604 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 946483008605 active site 946483008606 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 946483008607 active site 946483008608 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 946483008609 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 946483008610 substrate binding site [chemical binding]; other site 946483008611 hexamer interface [polypeptide binding]; other site 946483008612 metal binding site [ion binding]; metal-binding site 946483008613 Fic/DOC family; Region: Fic; cl00960 946483008614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483008615 Integrase core domain; Region: rve; pfam00665 946483008616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 946483008617 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 946483008618 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 946483008619 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 946483008620 Walker A motif; other site 946483008621 ATP binding site [chemical binding]; other site 946483008622 Walker B motif; other site 946483008623 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 946483008624 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 946483008625 ATP binding site [chemical binding]; other site 946483008626 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 946483008627 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 946483008628 Walker A motif; other site 946483008629 ATP binding site [chemical binding]; other site 946483008630 Walker B motif; other site 946483008631 arginine finger; other site 946483008632 putative transposase OrfB; Reviewed; Region: PHA02517 946483008633 Homeodomain-like domain; Region: HTH_32; pfam13565 946483008634 Integrase core domain; Region: rve; pfam00665 946483008635 Integrase core domain; Region: rve_3; pfam13683 946483008636 Transposase; Region: HTH_Tnp_1; cl17663 946483008637 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483008638 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 946483008639 structural tetrad; other site 946483008640 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 946483008641 structural tetrad; other site 946483008642 FOG: WD40 repeat [General function prediction only]; Region: COG2319 946483008643 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 946483008644 structural tetrad; other site 946483008645 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 946483008646 AAA domain; Region: AAA_22; pfam13401 946483008647 Walker A motif; other site 946483008648 ATP binding site [chemical binding]; other site 946483008649 Walker B motif; other site 946483008650 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 946483008651 nudix motif; other site 946483008652 RNA polymerase Rpb2, domain 3; Region: RNA_pol_Rpb2_3; pfam04565 946483008653 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 946483008654 RPB1 interaction site [polypeptide binding]; other site 946483008655 RPB10 interaction site [polypeptide binding]; other site 946483008656 RPB11 interaction site [polypeptide binding]; other site 946483008657 RPB3 interaction site [polypeptide binding]; other site 946483008658 RPB12 interaction site [polypeptide binding]; other site 946483008659 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 946483008660 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 946483008661 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 946483008662 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 946483008663 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 946483008664 Walker A motif; other site 946483008665 ATP binding site [chemical binding]; other site 946483008666 Walker B motif; other site 946483008667 arginine finger; other site 946483008668 Phosphotransferase enzyme family; Region: APH; pfam01636 946483008669 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 946483008670 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 946483008671 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 946483008672 putative catalytic site [active] 946483008673 putative metal binding site [ion binding]; other site 946483008674 putative phosphate binding site [ion binding]; other site 946483008675 putative metal binding site [ion binding]; other site 946483008676 Fic/DOC family; Region: Fic; pfam02661 946483008677 RES domain; Region: RES; smart00953 946483008678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 946483008679 Transposase; Region: HTH_Tnp_1; cl17663 946483008680 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 946483008681 HsdM N-terminal domain; Region: HsdM_N; pfam12161 946483008682 Methyltransferase domain; Region: Methyltransf_26; pfam13659 946483008683 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 946483008684 Predicted ATPase [General function prediction only]; Region: COG4637 946483008685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 946483008686 Walker A/P-loop; other site 946483008687 ATP binding site [chemical binding]; other site 946483008688 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 946483008689 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 946483008690 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 946483008691 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 946483008692 ATP binding site [chemical binding]; other site 946483008693 putative Mg++ binding site [ion binding]; other site 946483008694 Divergent AAA domain; Region: AAA_4; pfam04326 946483008695 phosphoglycolate phosphatase; Provisional; Region: PRK13222 946483008696 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 946483008697 motif II; other site 946483008698 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 946483008699 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 946483008700 S-adenosylmethionine binding site [chemical binding]; other site 946483008701 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 946483008702 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 946483008703 substrate binding site [chemical binding]; other site 946483008704 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 946483008705 substrate binding site [chemical binding]; other site 946483008706 ligand binding site [chemical binding]; other site 946483008707 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 946483008708 Yqey-like protein; Region: YqeY; pfam09424 946483008709 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 946483008710 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 946483008711 trmE is a tRNA modification GTPase; Region: trmE; cd04164 946483008712 G1 box; other site 946483008713 GTP/Mg2+ binding site [chemical binding]; other site 946483008714 Switch I region; other site 946483008715 G2 box; other site 946483008716 Switch II region; other site 946483008717 G3 box; other site 946483008718 G4 box; other site 946483008719 G5 box; other site 946483008720 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 946483008721 membrane protein insertase; Provisional; Region: PRK01318 946483008722 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 946483008723 Haemolytic domain; Region: Haemolytic; pfam01809 946483008724 Ribonuclease P; Region: Ribonuclease_P; pfam00825 946483008725 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399