-- dump date 20140619_064828 -- class Genbank::misc_feature -- table misc_feature_note -- id note 882000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 882000002 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 882000003 Walker A motif; other site 882000004 ATP binding site [chemical binding]; other site 882000005 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 882000006 DnaA box-binding interface [nucleotide binding]; other site 882000007 DNA polymerase III subunit beta; Provisional; Region: PRK14947 882000008 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 882000009 putative DNA binding surface [nucleotide binding]; other site 882000010 dimer interface [polypeptide binding]; other site 882000011 beta-clamp/clamp loader binding surface; other site 882000012 beta-clamp/translesion DNA polymerase binding surface; other site 882000013 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 882000014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000015 ATP binding site [chemical binding]; other site 882000016 Mg2+ binding site [ion binding]; other site 882000017 G-X-G motif; other site 882000018 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 882000019 anchoring element; other site 882000020 dimer interface [polypeptide binding]; other site 882000021 ATP binding site [chemical binding]; other site 882000022 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 882000023 active site 882000024 putative metal-binding site [ion binding]; other site 882000025 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 882000026 DNA gyrase subunit A; Validated; Region: PRK05560 882000027 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 882000028 CAP-like domain; other site 882000029 active site 882000030 primary dimer interface [polypeptide binding]; other site 882000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882000037 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 882000038 Ligand Binding Site [chemical binding]; other site 882000039 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 882000040 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 882000041 putative dimer interface [polypeptide binding]; other site 882000042 putative anticodon binding site; other site 882000043 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 882000044 homodimer interface [polypeptide binding]; other site 882000045 motif 1; other site 882000046 motif 2; other site 882000047 active site 882000048 motif 3; other site 882000049 DctM-like transporters; Region: DctM; pfam06808 882000050 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 882000051 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 882000052 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 882000053 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882000054 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 882000055 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 882000056 dimerization interface [polypeptide binding]; other site 882000057 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 882000058 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000059 putative active site [active] 882000060 heme pocket [chemical binding]; other site 882000061 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 882000062 dimer interface [polypeptide binding]; other site 882000063 phosphorylation site [posttranslational modification] 882000064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000065 ATP binding site [chemical binding]; other site 882000066 Mg2+ binding site [ion binding]; other site 882000067 G-X-G motif; other site 882000068 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 882000069 rRNA binding site [nucleotide binding]; other site 882000070 predicted 30S ribosome binding site; other site 882000071 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 882000072 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 882000073 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 882000074 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 882000075 dimerization interface [polypeptide binding]; other site 882000076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882000077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882000078 dimer interface [polypeptide binding]; other site 882000079 putative CheW interface [polypeptide binding]; other site 882000080 Rubrerythrin [Energy production and conversion]; Region: COG1592 882000081 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 882000082 binuclear metal center [ion binding]; other site 882000083 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 882000084 iron binding site [ion binding]; other site 882000085 Methyltransferase domain; Region: Methyltransf_24; pfam13578 882000086 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 882000087 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882000088 metal binding site [ion binding]; metal-binding site 882000089 active site 882000090 I-site; other site 882000091 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 882000092 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 882000093 PAS domain S-box; Region: sensory_box; TIGR00229 882000094 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000095 putative active site [active] 882000096 heme pocket [chemical binding]; other site 882000097 PAS fold; Region: PAS_3; pfam08447 882000098 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 882000099 PAS domain; Region: PAS; smart00091 882000100 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882000101 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 882000102 dimer interface [polypeptide binding]; other site 882000103 phosphorylation site [posttranslational modification] 882000104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000105 ATP binding site [chemical binding]; other site 882000106 Mg2+ binding site [ion binding]; other site 882000107 G-X-G motif; other site 882000108 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 882000109 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882000110 transmembrane helices; other site 882000111 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 882000112 dimer interface [polypeptide binding]; other site 882000113 putative tRNA-binding site [nucleotide binding]; other site 882000114 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 882000115 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 882000116 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 882000117 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 882000118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882000119 DNA-binding site [nucleotide binding]; DNA binding site 882000120 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 882000121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882000122 homodimer interface [polypeptide binding]; other site 882000123 catalytic residue [active] 882000124 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 882000125 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 882000126 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 882000127 catalytic triad [active] 882000128 conserved cis-peptide bond; other site 882000129 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 882000130 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882000131 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 882000132 Protein of unknown function (DUF523); Region: DUF523; pfam04463 882000133 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 882000134 putative acyl-acceptor binding pocket; other site 882000135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 882000136 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 882000137 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 882000138 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 882000139 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882000140 catalytic residue [active] 882000141 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882000142 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 882000143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882000144 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 882000145 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 882000146 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 882000147 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 882000148 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 882000149 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 882000150 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 882000151 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 882000152 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882000153 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 882000154 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 882000155 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 882000156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882000157 ligand binding site [chemical binding]; other site 882000158 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 882000159 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882000160 ligand binding site [chemical binding]; other site 882000161 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 882000162 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 882000163 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882000164 catalytic residue [active] 882000165 GTPase Era; Reviewed; Region: era; PRK00089 882000166 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 882000167 G1 box; other site 882000168 GTP/Mg2+ binding site [chemical binding]; other site 882000169 Switch I region; other site 882000170 G2 box; other site 882000171 Switch II region; other site 882000172 G3 box; other site 882000173 G4 box; other site 882000174 G5 box; other site 882000175 KH domain; Region: KH_2; pfam07650 882000176 G-X-X-G motif; other site 882000177 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 882000178 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 882000179 Sulfate transporter family; Region: Sulfate_transp; pfam00916 882000180 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 882000181 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 882000182 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 882000183 FMN binding site [chemical binding]; other site 882000184 active site 882000185 catalytic residues [active] 882000186 substrate binding site [chemical binding]; other site 882000187 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 882000188 Fe-S cluster binding site [ion binding]; other site 882000189 substrate binding site [chemical binding]; other site 882000190 catalytic site [active] 882000191 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 882000192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000193 active site 882000194 phosphorylation site [posttranslational modification] 882000195 intermolecular recognition site; other site 882000196 dimerization interface [polypeptide binding]; other site 882000197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882000198 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882000199 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 882000200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 882000201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 882000202 HlyD family secretion protein; Region: HlyD_3; pfam13437 882000203 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 882000204 MMPL family; Region: MMPL; cl14618 882000205 MMPL family; Region: MMPL; cl14618 882000206 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 882000207 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882000208 Protein of unknown function (DUF615); Region: DUF615; cl01147 882000209 HlyD family secretion protein; Region: HlyD_3; pfam13437 882000210 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 882000211 MMPL family; Region: MMPL; cl14618 882000212 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 882000213 Outer membrane efflux protein; Region: OEP; pfam02321 882000214 Outer membrane efflux protein; Region: OEP; pfam02321 882000215 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882000216 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882000217 putative DNA binding site [nucleotide binding]; other site 882000218 putative Zn2+ binding site [ion binding]; other site 882000219 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 882000220 nucleoside/Zn binding site; other site 882000221 dimer interface [polypeptide binding]; other site 882000222 catalytic motif [active] 882000223 Predicted GTPase [General function prediction only]; Region: COG2403 882000224 AAA domain; Region: AAA_23; pfam13476 882000225 AAA domain; Region: AAA_27; pfam13514 882000226 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 882000227 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 882000228 active site 882000229 metal binding site [ion binding]; metal-binding site 882000230 DNA binding site [nucleotide binding] 882000231 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 882000232 active site 882000233 DNA polymerase IV; Validated; Region: PRK02406 882000234 DNA binding site [nucleotide binding] 882000235 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 882000236 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 882000237 substrate binding site; other site 882000238 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 882000239 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 882000240 NAD binding site [chemical binding]; other site 882000241 homotetramer interface [polypeptide binding]; other site 882000242 homodimer interface [polypeptide binding]; other site 882000243 substrate binding site [chemical binding]; other site 882000244 active site 882000245 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 882000246 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 882000247 inhibitor-cofactor binding pocket; inhibition site 882000248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882000249 catalytic residue [active] 882000250 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882000251 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 882000252 active site 882000253 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 882000254 Uncharacterized conserved protein [Function unknown]; Region: COG4095 882000255 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 882000256 fumarate hydratase; Reviewed; Region: fumC; PRK00485 882000257 Class II fumarases; Region: Fumarase_classII; cd01362 882000258 active site 882000259 tetramer interface [polypeptide binding]; other site 882000260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000261 active site 882000262 phosphorylation site [posttranslational modification] 882000263 intermolecular recognition site; other site 882000264 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882000265 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000266 putative active site [active] 882000267 heme pocket [chemical binding]; other site 882000268 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 882000269 dimer interface [polypeptide binding]; other site 882000270 phosphorylation site [posttranslational modification] 882000271 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000272 ATP binding site [chemical binding]; other site 882000273 Mg2+ binding site [ion binding]; other site 882000274 G-X-G motif; other site 882000275 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 882000276 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 882000277 putative NAD(P) binding site [chemical binding]; other site 882000278 putative active site [active] 882000279 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 882000280 Domain of unknown function (DUF309); Region: DUF309; pfam03745 882000281 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 882000282 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 882000283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882000284 catalytic residue [active] 882000285 Protein of unknown function (DUF997); Region: DUF997; pfam06196 882000286 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 882000287 Na binding site [ion binding]; other site 882000288 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882000289 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 882000290 substrate binding pocket [chemical binding]; other site 882000291 membrane-bound complex binding site; other site 882000292 hinge residues; other site 882000293 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 882000294 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 882000295 NADP binding site [chemical binding]; other site 882000296 active site 882000297 putative substrate binding site [chemical binding]; other site 882000298 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 882000299 putative metal binding site [ion binding]; other site 882000300 Uncharacterized conserved protein [Function unknown]; Region: COG1432 882000301 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 882000302 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882000303 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000304 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882000305 putative active site [active] 882000306 heme pocket [chemical binding]; other site 882000307 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000308 putative active site [active] 882000309 heme pocket [chemical binding]; other site 882000310 PAS fold; Region: PAS_3; pfam08447 882000311 PAS domain; Region: PAS; smart00091 882000312 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882000313 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 882000314 dimer interface [polypeptide binding]; other site 882000315 phosphorylation site [posttranslational modification] 882000316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000317 ATP binding site [chemical binding]; other site 882000318 Mg2+ binding site [ion binding]; other site 882000319 G-X-G motif; other site 882000320 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 882000321 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase; Region: PLN02871 882000322 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 882000323 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 882000324 HAMP domain; Region: HAMP; pfam00672 882000325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882000326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882000327 dimer interface [polypeptide binding]; other site 882000328 putative CheW interface [polypeptide binding]; other site 882000329 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 882000330 spermidine/putrescine ABC transporter membrane protein; Reviewed; Region: potC; PRK09500 882000331 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 882000332 dimer interface [polypeptide binding]; other site 882000333 conserved gate region; other site 882000334 putative PBP binding loops; other site 882000335 ABC-ATPase subunit interface; other site 882000336 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 882000337 dimer interface [polypeptide binding]; other site 882000338 conserved gate region; other site 882000339 putative PBP binding loops; other site 882000340 ABC-ATPase subunit interface; other site 882000341 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 882000342 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 882000343 Walker A/P-loop; other site 882000344 ATP binding site [chemical binding]; other site 882000345 Q-loop/lid; other site 882000346 ABC transporter signature motif; other site 882000347 Walker B; other site 882000348 D-loop; other site 882000349 H-loop/switch region; other site 882000350 TOBE domain; Region: TOBE_2; pfam08402 882000351 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 882000352 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 882000353 Merozoite surface antigen 2c; Region: MSA-2c; pfam12238 882000354 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 882000355 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 882000356 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 882000357 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 882000358 S-adenosylmethionine binding site [chemical binding]; other site 882000359 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 882000360 S-adenosylmethionine binding site [chemical binding]; other site 882000361 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 882000362 intersubunit interface [polypeptide binding]; other site 882000363 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882000364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882000365 Walker A/P-loop; other site 882000366 ATP binding site [chemical binding]; other site 882000367 Q-loop/lid; other site 882000368 ABC transporter signature motif; other site 882000369 Walker B; other site 882000370 D-loop; other site 882000371 H-loop/switch region; other site 882000372 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 882000373 ABC-ATPase subunit interface; other site 882000374 dimer interface [polypeptide binding]; other site 882000375 putative PBP binding regions; other site 882000376 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882000377 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882000378 Walker A/P-loop; other site 882000379 ATP binding site [chemical binding]; other site 882000380 Q-loop/lid; other site 882000381 ABC transporter signature motif; other site 882000382 Walker B; other site 882000383 D-loop; other site 882000384 H-loop/switch region; other site 882000385 glutamine ABC transporter permease protein; Reviewed; Region: glnP; PRK09494 882000386 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 882000387 dimer interface [polypeptide binding]; other site 882000388 conserved gate region; other site 882000389 putative PBP binding loops; other site 882000390 ABC-ATPase subunit interface; other site 882000391 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 882000392 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 882000393 substrate binding pocket [chemical binding]; other site 882000394 membrane-bound complex binding site; other site 882000395 hinge residues; other site 882000396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882000397 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 882000398 dimer interface [polypeptide binding]; other site 882000399 phosphorylation site [posttranslational modification] 882000400 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000401 ATP binding site [chemical binding]; other site 882000402 Mg2+ binding site [ion binding]; other site 882000403 G-X-G motif; other site 882000404 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882000405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000406 active site 882000407 phosphorylation site [posttranslational modification] 882000408 intermolecular recognition site; other site 882000409 dimerization interface [polypeptide binding]; other site 882000410 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 882000411 Walker A motif; other site 882000412 ATP binding site [chemical binding]; other site 882000413 Walker B motif; other site 882000414 arginine finger; other site 882000415 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882000416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000417 active site 882000418 phosphorylation site [posttranslational modification] 882000419 intermolecular recognition site; other site 882000420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000421 active site 882000422 phosphorylation site [posttranslational modification] 882000423 intermolecular recognition site; other site 882000424 dimerization interface [polypeptide binding]; other site 882000425 photolyase PhrII; Region: phr2; TIGR00591 882000426 DNA photolyase; Region: DNA_photolyase; pfam00875 882000427 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 882000428 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 882000429 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 882000430 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 882000431 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 882000432 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 882000433 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 882000434 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 882000435 shikimate binding site; other site 882000436 NAD(P) binding site [chemical binding]; other site 882000437 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 882000438 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 882000439 NodB motif; other site 882000440 putative active site [active] 882000441 putative catalytic site [active] 882000442 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882000443 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 882000444 active site 882000445 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882000446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000447 active site 882000448 phosphorylation site [posttranslational modification] 882000449 intermolecular recognition site; other site 882000450 dimerization interface [polypeptide binding]; other site 882000451 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 882000452 Walker A motif; other site 882000453 ATP binding site [chemical binding]; other site 882000454 Walker B motif; other site 882000455 arginine finger; other site 882000456 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882000457 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 882000458 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 882000459 dimerization interface [polypeptide binding]; other site 882000460 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 882000461 dimer interface [polypeptide binding]; other site 882000462 phosphorylation site [posttranslational modification] 882000463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000464 ATP binding site [chemical binding]; other site 882000465 Mg2+ binding site [ion binding]; other site 882000466 G-X-G motif; other site 882000467 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 882000468 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 882000469 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 882000470 Ligand Binding Site [chemical binding]; other site 882000471 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 882000472 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 882000473 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 882000474 lipoyl-biotinyl attachment site [posttranslational modification]; other site 882000475 HlyD family secretion protein; Region: HlyD_3; pfam13437 882000476 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882000477 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882000478 Walker A/P-loop; other site 882000479 ATP binding site [chemical binding]; other site 882000480 Q-loop/lid; other site 882000481 ABC transporter signature motif; other site 882000482 Walker B; other site 882000483 D-loop; other site 882000484 H-loop/switch region; other site 882000485 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 882000486 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882000487 Walker A/P-loop; other site 882000488 ATP binding site [chemical binding]; other site 882000489 Q-loop/lid; other site 882000490 ABC transporter signature motif; other site 882000491 Walker B; other site 882000492 D-loop; other site 882000493 H-loop/switch region; other site 882000494 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882000495 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 882000496 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 882000497 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882000498 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 882000499 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882000500 PAS fold; Region: PAS; pfam00989 882000501 PAS domain; Region: PAS_8; pfam13188 882000502 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000503 PAS domain; Region: PAS_9; pfam13426 882000504 putative active site [active] 882000505 heme pocket [chemical binding]; other site 882000506 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 882000507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882000508 Zn2+ binding site [ion binding]; other site 882000509 Mg2+ binding site [ion binding]; other site 882000510 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 882000511 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 882000512 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 882000513 motif II; other site 882000514 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882000515 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882000516 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 882000517 active site 882000518 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 882000519 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 882000520 Ligand Binding Site [chemical binding]; other site 882000521 TIGR00269 family protein; Region: TIGR00269 882000522 Ubiquitin-like proteins; Region: UBQ; cl00155 882000523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000524 active site 882000525 phosphorylation site [posttranslational modification] 882000526 intermolecular recognition site; other site 882000527 dimerization interface [polypeptide binding]; other site 882000528 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 882000529 dimer interface [polypeptide binding]; other site 882000530 phosphorylation site [posttranslational modification] 882000531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000532 ATP binding site [chemical binding]; other site 882000533 Mg2+ binding site [ion binding]; other site 882000534 G-X-G motif; other site 882000535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000536 active site 882000537 phosphorylation site [posttranslational modification] 882000538 intermolecular recognition site; other site 882000539 dimerization interface [polypeptide binding]; other site 882000540 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 882000541 Peptidase family M50; Region: Peptidase_M50; pfam02163 882000542 active site 882000543 putative substrate binding region [chemical binding]; other site 882000544 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 882000545 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 882000546 active site 882000547 HIGH motif; other site 882000548 dimer interface [polypeptide binding]; other site 882000549 KMSKS motif; other site 882000550 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 882000551 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 882000552 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882000553 active site 882000554 nucleotide binding site [chemical binding]; other site 882000555 HIGH motif; other site 882000556 KMSKS motif; other site 882000557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000558 active site 882000559 phosphorylation site [posttranslational modification] 882000560 intermolecular recognition site; other site 882000561 dimerization interface [polypeptide binding]; other site 882000562 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882000563 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882000564 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 882000565 Walker A motif; other site 882000566 ATP binding site [chemical binding]; other site 882000567 Walker B motif; other site 882000568 arginine finger; other site 882000569 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882000570 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882000571 Uncharacterized conserved protein [Function unknown]; Region: COG3379 882000572 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 882000573 Part of AAA domain; Region: AAA_19; pfam13245 882000574 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 882000575 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 882000576 thiamine monophosphate kinase; Provisional; Region: PRK05731 882000577 ATP binding site [chemical binding]; other site 882000578 dimerization interface [polypeptide binding]; other site 882000579 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 882000580 homodimer interaction site [polypeptide binding]; other site 882000581 cofactor binding site; other site 882000582 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 882000583 intersubunit interface [polypeptide binding]; other site 882000584 active site 882000585 Zn2+ binding site [ion binding]; other site 882000586 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 882000587 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 882000588 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 882000589 putative active site [active] 882000590 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 882000591 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 882000592 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 882000593 active site 882000594 tetramer interface [polypeptide binding]; other site 882000595 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882000596 active site 882000597 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 882000598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882000599 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882000600 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 882000601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882000602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882000603 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 882000604 IMP binding site; other site 882000605 dimer interface [polypeptide binding]; other site 882000606 interdomain contacts; other site 882000607 partial ornithine binding site; other site 882000608 Dihaem cytochrome c; Region: DHC; pfam09626 882000609 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882000610 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 882000611 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882000612 Walker A/P-loop; other site 882000613 ATP binding site [chemical binding]; other site 882000614 Q-loop/lid; other site 882000615 ABC transporter signature motif; other site 882000616 Walker B; other site 882000617 D-loop; other site 882000618 H-loop/switch region; other site 882000619 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882000620 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 882000621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882000622 Walker A/P-loop; other site 882000623 ATP binding site [chemical binding]; other site 882000624 Q-loop/lid; other site 882000625 ABC transporter signature motif; other site 882000626 Walker B; other site 882000627 D-loop; other site 882000628 H-loop/switch region; other site 882000629 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882000630 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 882000631 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882000632 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 882000633 dimer interface [polypeptide binding]; other site 882000634 conserved gate region; other site 882000635 putative PBP binding loops; other site 882000636 ABC-ATPase subunit interface; other site 882000637 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882000638 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 882000639 dimer interface [polypeptide binding]; other site 882000640 conserved gate region; other site 882000641 putative PBP binding loops; other site 882000642 ABC-ATPase subunit interface; other site 882000643 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 882000644 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_2; cd08498 882000645 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882000646 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882000647 dimer interface [polypeptide binding]; other site 882000648 putative CheW interface [polypeptide binding]; other site 882000649 Hemerythrin; Region: Hemerythrin; cd12107 882000650 Fe binding site [ion binding]; other site 882000651 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 882000652 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 882000653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882000654 homodimer interface [polypeptide binding]; other site 882000655 catalytic residue [active] 882000656 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 882000657 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882000658 thiosulfate reductase PhsA; Provisional; Region: PRK15488 882000659 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 882000660 putative [Fe4-S4] binding site [ion binding]; other site 882000661 putative molybdopterin cofactor binding site [chemical binding]; other site 882000662 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 882000663 putative molybdopterin cofactor binding site; other site 882000664 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 882000665 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 882000666 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 882000667 putative MPT binding site; other site 882000668 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 882000669 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 882000670 active site 882000671 catalytic site [active] 882000672 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 882000673 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 882000674 active site 882000675 Int/Topo IB signature motif; other site 882000676 catalytic residues [active] 882000677 DNA binding site [nucleotide binding] 882000678 TOBE domain; Region: TOBE; cl01440 882000679 TOBE domain; Region: TOBE; cl01440 882000680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882000681 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 882000682 Walker A/P-loop; other site 882000683 ATP binding site [chemical binding]; other site 882000684 Q-loop/lid; other site 882000685 ABC transporter signature motif; other site 882000686 Walker B; other site 882000687 D-loop; other site 882000688 H-loop/switch region; other site 882000689 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 882000690 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 882000691 dimer interface [polypeptide binding]; other site 882000692 conserved gate region; other site 882000693 putative PBP binding loops; other site 882000694 ABC-ATPase subunit interface; other site 882000695 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 882000696 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 882000697 FeS/SAM binding site; other site 882000698 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 882000699 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 882000700 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 882000701 dimerization interface [polypeptide binding]; other site 882000702 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882000703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882000704 dimer interface [polypeptide binding]; other site 882000705 putative CheW interface [polypeptide binding]; other site 882000706 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 882000707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882000708 metal binding site [ion binding]; metal-binding site 882000709 active site 882000710 I-site; other site 882000711 lysogenic bacteriophage with hits to lambdoid phages. insertion into tRNA-Lys-3. attL/R=GCCTTTTAAGCAGAGAGTCGCAGGTTCGAATCCTGCACGACCCACCA; PHAGE08 882000712 hypothetical protein; Provisional; Region: PRK14709 882000713 D5 N terminal like; Region: D5_N; pfam08706 882000714 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 882000715 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 882000716 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 882000717 ParB-like nuclease domain; Region: ParB; smart00470 882000718 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 882000719 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 882000720 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 882000721 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 882000722 Helix-turn-helix domain; Region: HTH_17; pfam12728 882000723 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 882000724 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 882000725 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 882000726 tandem repeat interface [polypeptide binding]; other site 882000727 oligomer interface [polypeptide binding]; other site 882000728 active site residues [active] 882000729 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 882000730 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 882000731 Holin family; Region: Phage_holin_4; pfam05105 882000732 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 882000733 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 882000734 aminoacyl-tRNA ligase; Region: PLN02959 882000735 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 882000736 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 882000737 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 882000738 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 882000739 Phage tail tube protein; Region: Tail_tube; pfam10618 882000740 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 882000741 Mu-like prophage protein [General function prediction only]; Region: COG3941 882000742 DNA circularisation protein N-terminus; Region: DNA_circ_N; cl19561 882000743 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 882000744 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 882000745 Phage protein GP46; Region: GP46; pfam07409 882000746 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 882000747 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 882000748 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 882000749 YcfA-like protein; Region: YcfA; cl00752 882000750 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 882000751 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 882000752 hypothetical protein; Validated; Region: PRK05445 882000753 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 882000754 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 882000755 active site 882000756 catalytic residues [active] 882000757 DNA binding site [nucleotide binding] 882000758 Int/Topo IB signature motif; other site 882000759 seryl-tRNA synthetase; Provisional; Region: PRK05431 882000760 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 882000761 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 882000762 dimer interface [polypeptide binding]; other site 882000763 active site 882000764 motif 1; other site 882000765 motif 2; other site 882000766 motif 3; other site 882000767 PilZ domain; Region: PilZ; pfam07238 882000768 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 882000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 882000770 SEC-C motif; Region: SEC-C; cl19389 882000771 SEC-C motif; Region: SEC-C; cl19389 882000772 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 882000773 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 882000774 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cl00053 882000775 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 882000776 active site 882000777 catalytic residues [active] 882000778 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882000779 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; cl17700 882000780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000781 active site 882000782 phosphorylation site [posttranslational modification] 882000783 intermolecular recognition site; other site 882000784 dimerization interface [polypeptide binding]; other site 882000785 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 882000786 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 882000787 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882000788 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 882000789 FAD binding domain; Region: FAD_binding_4; pfam01565 882000790 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 882000791 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882000792 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882000793 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 882000794 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 882000795 ATP binding site [chemical binding]; other site 882000796 putative Mg++ binding site [ion binding]; other site 882000797 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 882000798 nucleotide binding region [chemical binding]; other site 882000799 ATP-binding site [chemical binding]; other site 882000800 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 882000801 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 882000802 active site 882000803 substrate binding site [chemical binding]; other site 882000804 catalytic site [active] 882000805 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 882000806 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882000807 Coenzyme A binding pocket [chemical binding]; other site 882000808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882000809 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 882000810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000811 active site 882000812 phosphorylation site [posttranslational modification] 882000813 intermolecular recognition site; other site 882000814 dimerization interface [polypeptide binding]; other site 882000815 PAS domain; Region: PAS_9; pfam13426 882000816 PAS domain; Region: PAS_8; pfam13188 882000817 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882000818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000819 ATP binding site [chemical binding]; other site 882000820 Mg2+ binding site [ion binding]; other site 882000821 G-X-G motif; other site 882000822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000823 active site 882000824 phosphorylation site [posttranslational modification] 882000825 intermolecular recognition site; other site 882000826 dimerization interface [polypeptide binding]; other site 882000827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882000828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000829 active site 882000830 phosphorylation site [posttranslational modification] 882000831 intermolecular recognition site; other site 882000832 dimerization interface [polypeptide binding]; other site 882000833 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 882000834 Ligand Binding Site [chemical binding]; other site 882000835 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 882000836 Ligand Binding Site [chemical binding]; other site 882000837 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882000838 heme-binding residues [chemical binding]; other site 882000839 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882000840 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882000841 Cysteine-rich domain; Region: CCG; pfam02754 882000842 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 882000843 Rrf2 family protein; Region: rrf2_super; TIGR00738 882000844 Predicted transcriptional regulator [Transcription]; Region: COG1959 882000845 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 882000846 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 882000847 dimerization interface [polypeptide binding]; other site 882000848 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 882000849 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882000850 putative active site [active] 882000851 heme pocket [chemical binding]; other site 882000852 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 882000853 dimer interface [polypeptide binding]; other site 882000854 phosphorylation site [posttranslational modification] 882000855 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000856 ATP binding site [chemical binding]; other site 882000857 Mg2+ binding site [ion binding]; other site 882000858 G-X-G motif; other site 882000859 Ycf27; Reviewed; Region: orf27; CHL00148 882000860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882000861 active site 882000862 phosphorylation site [posttranslational modification] 882000863 intermolecular recognition site; other site 882000864 dimerization interface [polypeptide binding]; other site 882000865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000866 Mg2+ binding site [ion binding]; other site 882000867 G-X-G motif; other site 882000868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882000869 ATP binding site [chemical binding]; other site 882000870 G-X-G motif; other site 882000871 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 882000872 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 882000873 NodB motif; other site 882000874 active site 882000875 catalytic site [active] 882000876 metal binding site [ion binding]; metal-binding site 882000877 Domain of unknown function DUF302; Region: DUF302; pfam03625 882000878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882000879 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882000880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882000881 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 882000882 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_10; cd07251 882000883 putative transporter; Provisional; Region: PRK11660 882000884 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 882000885 Sulfate transporter family; Region: Sulfate_transp; pfam00916 882000886 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 882000887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882000888 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 882000889 putative ADP-binding pocket [chemical binding]; other site 882000890 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 882000891 CoA binding domain; Region: CoA_binding; cl17356 882000892 Bacterial sugar transferase; Region: Bac_transf; pfam02397 882000893 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 882000894 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882000895 minor groove reading motif; other site 882000896 helix-hairpin-helix signature motif; other site 882000897 substrate binding pocket [chemical binding]; other site 882000898 active site 882000899 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 882000900 active site 882000901 8-oxo-dGMP binding site [chemical binding]; other site 882000902 nudix motif; other site 882000903 metal binding site [ion binding]; metal-binding site 882000904 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882000905 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 882000906 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 882000907 catalytic residues [active] 882000908 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 882000909 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882000910 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882000911 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 882000912 substrate binding site [chemical binding]; other site 882000913 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 882000914 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 882000915 putative active site [active] 882000916 oxyanion strand; other site 882000917 catalytic triad [active] 882000918 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 882000919 substrate binding site [chemical binding]; other site 882000920 glutamase interaction surface [polypeptide binding]; other site 882000921 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 882000922 S-adenosylmethionine binding site [chemical binding]; other site 882000923 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 882000924 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 882000925 trimer interface [polypeptide binding]; other site 882000926 dimer interface [polypeptide binding]; other site 882000927 putative active site [active] 882000928 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 882000929 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 882000930 Walker A/P-loop; other site 882000931 ATP binding site [chemical binding]; other site 882000932 Q-loop/lid; other site 882000933 ABC transporter signature motif; other site 882000934 Walker B; other site 882000935 D-loop; other site 882000936 H-loop/switch region; other site 882000937 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 882000938 Phosphotransferase enzyme family; Region: APH; pfam01636 882000939 active site 882000940 substrate binding site [chemical binding]; other site 882000941 ATP binding site [chemical binding]; other site 882000942 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 882000943 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 882000944 active site 882000945 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 882000946 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882000947 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 882000948 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 882000949 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 882000950 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 882000951 active site 882000952 HEAT-like repeat; Region: HEAT_EZ; pfam13513 882000953 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 882000954 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 882000955 ATP cone domain; Region: ATP-cone; pfam03477 882000956 Class III ribonucleotide reductase; Region: RNR_III; cd01675 882000957 effector binding site; other site 882000958 active site 882000959 Zn binding site [ion binding]; other site 882000960 glycine loop; other site 882000961 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 882000962 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 882000963 FeS/SAM binding site; other site 882000964 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 882000965 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 882000966 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882000967 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 882000968 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 882000969 Ferredoxin [Energy production and conversion]; Region: COG1146 882000970 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 882000971 binding surface 882000972 TPR motif; other site 882000973 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 882000974 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882000975 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882000976 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 882000977 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 882000978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882000979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882000980 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 882000981 dimerization interface [polypeptide binding]; other site 882000982 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 882000983 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 882000984 Walker A motif/ATP binding site; other site 882000985 Walker B motif; other site 882000986 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 882000987 Flagellar assembly protein FliH; Region: FliH; cl19405 882000988 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 882000989 FliG N-terminal domain; Region: FliG_N; pfam14842 882000990 FliG middle domain; Region: FliG_M; pfam14841 882000991 FliG C-terminal domain; Region: FliG_C; pfam01706 882000992 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 882000993 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 882000994 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 882000995 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 882000996 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 882000997 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882000998 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882000999 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 882001000 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 882001001 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 882001002 binding surface 882001003 TPR motif; other site 882001004 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 882001005 binding surface 882001006 TPR motif; other site 882001007 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 882001008 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 882001009 NAD binding site [chemical binding]; other site 882001010 substrate binding site [chemical binding]; other site 882001011 homodimer interface [polypeptide binding]; other site 882001012 active site 882001013 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882001014 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882001015 nucleotide binding site [chemical binding]; other site 882001016 enolase; Provisional; Region: eno; PRK00077 882001017 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 882001018 dimer interface [polypeptide binding]; other site 882001019 metal binding site [ion binding]; metal-binding site 882001020 substrate binding pocket [chemical binding]; other site 882001021 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 882001022 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 882001023 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 882001024 homodimer interface [polypeptide binding]; other site 882001025 NADP binding site [chemical binding]; other site 882001026 substrate binding site [chemical binding]; other site 882001027 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 882001028 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 882001029 dimerization interface [polypeptide binding]; other site 882001030 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 882001031 ATP binding site [chemical binding]; other site 882001032 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 882001033 Bacterial sugar transferase; Region: Bac_transf; pfam02397 882001034 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882001035 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 882001036 putative ADP-binding pocket [chemical binding]; other site 882001037 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882001038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001039 active site 882001040 phosphorylation site [posttranslational modification] 882001041 intermolecular recognition site; other site 882001042 dimerization interface [polypeptide binding]; other site 882001043 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 882001044 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882001045 Zn2+ binding site [ion binding]; other site 882001046 Mg2+ binding site [ion binding]; other site 882001047 PAS domain S-box; Region: sensory_box; TIGR00229 882001048 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001049 putative active site [active] 882001050 heme pocket [chemical binding]; other site 882001051 GAF domain; Region: GAF; pfam01590 882001052 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882001053 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001054 putative active site [active] 882001055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882001056 heme pocket [chemical binding]; other site 882001057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001058 ATP binding site [chemical binding]; other site 882001059 Mg2+ binding site [ion binding]; other site 882001060 G-X-G motif; other site 882001061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 882001062 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 882001063 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 882001064 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882001065 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 882001066 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 882001067 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 882001068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882001069 catalytic residue [active] 882001070 surface carbohydrate biosynthesis protein, LIC13510 family; Region: O_ant_LIC13510; TIGR04326 882001071 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 882001072 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 882001073 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 882001074 motif II; other site 882001075 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 882001076 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 882001077 putative ligand binding site [chemical binding]; other site 882001078 putative NAD binding site [chemical binding]; other site 882001079 catalytic site [active] 882001080 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882001081 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 882001082 trimer interface [polypeptide binding]; other site 882001083 active site 882001084 substrate binding site [chemical binding]; other site 882001085 CoA binding site [chemical binding]; other site 882001086 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 882001087 Ligand binding site; other site 882001088 oligomer interface; other site 882001089 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882001090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882001091 NAD(P) binding site [chemical binding]; other site 882001092 active site 882001093 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 882001094 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 882001095 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 882001096 dimerization interface [polypeptide binding]; other site 882001097 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882001098 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882001099 dimer interface [polypeptide binding]; other site 882001100 putative CheW interface [polypeptide binding]; other site 882001101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 882001102 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 882001103 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882001104 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 882001105 trimer interface [polypeptide binding]; other site 882001106 active site 882001107 substrate binding site [chemical binding]; other site 882001108 CoA binding site [chemical binding]; other site 882001109 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 882001110 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 882001111 NeuB family; Region: NeuB; pfam03102 882001112 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 882001113 NeuB binding interface [polypeptide binding]; other site 882001114 putative substrate binding site [chemical binding]; other site 882001115 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 882001116 active site 882001117 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 882001118 active site 882001119 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 882001120 Hemerythrin family; Region: Hemerythrin-like; cl15774 882001121 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 882001122 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 882001123 inhibitor-cofactor binding pocket; inhibition site 882001124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882001125 catalytic residue [active] 882001126 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH3; cd08184 882001127 putative active site [active] 882001128 metal binding site [ion binding]; metal-binding site 882001129 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 882001130 PAS domain; Region: PAS; smart00091 882001131 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882001132 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001133 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882001134 putative active site [active] 882001135 heme pocket [chemical binding]; other site 882001136 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001137 putative active site [active] 882001138 heme pocket [chemical binding]; other site 882001139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882001140 metal binding site [ion binding]; metal-binding site 882001141 active site 882001142 I-site; other site 882001143 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 882001144 Methyltransferase domain; Region: Methyltransf_24; pfam13578 882001145 Methyltransferase domain; Region: Methyltransf_24; pfam13578 882001146 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882001147 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 882001148 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882001149 PYR/PP interface [polypeptide binding]; other site 882001150 dimer interface [polypeptide binding]; other site 882001151 TPP binding site [chemical binding]; other site 882001152 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882001153 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 882001154 TPP-binding site [chemical binding]; other site 882001155 dimer interface [polypeptide binding]; other site 882001156 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882001157 putative valine binding site [chemical binding]; other site 882001158 dimer interface [polypeptide binding]; other site 882001159 homodimer interface [polypeptide binding]; other site 882001160 substrate-cofactor binding pocket; other site 882001161 Aminotransferase class IV; Region: Aminotran_4; pfam01063 882001162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882001163 catalytic residue [active] 882001164 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 882001165 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 882001166 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882001167 Glutamine amidotransferase class-I; Region: GATase; pfam00117 882001168 glutamine binding [chemical binding]; other site 882001169 catalytic triad [active] 882001170 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 882001171 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 882001172 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 882001173 active site 882001174 metal binding site [ion binding]; metal-binding site 882001175 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 882001176 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 882001177 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 882001178 CoA binding domain; Region: CoA_binding_2; pfam13380 882001179 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 882001180 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 882001181 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 882001182 dimer interface [polypeptide binding]; other site 882001183 PYR/PP interface [polypeptide binding]; other site 882001184 TPP binding site [chemical binding]; other site 882001185 substrate binding site [chemical binding]; other site 882001186 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 882001187 TPP-binding site; other site 882001188 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 882001189 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 882001190 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 882001191 NAD binding site [chemical binding]; other site 882001192 Phe binding site; other site 882001193 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 882001194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882001195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882001196 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 882001197 catalytic residues [active] 882001198 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 882001199 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882001200 ligand binding site [chemical binding]; other site 882001201 flexible hinge region; other site 882001202 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882001203 Sulfatase; Region: Sulfatase; pfam00884 882001204 arylsulfatase; Provisional; Region: PRK13759 882001205 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 882001206 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882001207 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882001208 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 882001209 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 882001210 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 882001211 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882001212 substrate binding pocket [chemical binding]; other site 882001213 membrane-bound complex binding site; other site 882001214 hinge residues; other site 882001215 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882001216 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 882001217 dimer interface [polypeptide binding]; other site 882001218 conserved gate region; other site 882001219 putative PBP binding loops; other site 882001220 ABC-ATPase subunit interface; other site 882001221 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882001222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882001223 Walker A/P-loop; other site 882001224 ATP binding site [chemical binding]; other site 882001225 Q-loop/lid; other site 882001226 ABC transporter signature motif; other site 882001227 Walker B; other site 882001228 D-loop; other site 882001229 H-loop/switch region; other site 882001230 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882001231 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 882001232 dimer interface [polypeptide binding]; other site 882001233 conserved gate region; other site 882001234 putative PBP binding loops; other site 882001235 ABC-ATPase subunit interface; other site 882001236 FAD binding domain; Region: FAD_binding_4; pfam01565 882001237 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 882001238 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 882001239 YaeQ protein; Region: YaeQ; cl01913 882001240 aspartate aminotransferase; Provisional; Region: PRK05764 882001241 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 882001242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882001243 homodimer interface [polypeptide binding]; other site 882001244 catalytic residue [active] 882001245 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 882001246 ligand binding site [chemical binding]; other site 882001247 active site 882001248 UGI interface [polypeptide binding]; other site 882001249 catalytic site [active] 882001250 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 882001251 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882001252 FeS/SAM binding site; other site 882001253 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 882001254 HIT family signature motif; other site 882001255 catalytic residue [active] 882001256 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 882001257 DNA binding site [nucleotide binding] 882001258 dimer interface [polypeptide binding]; other site 882001259 rare lipoprotein A; Provisional; Region: PRK10672 882001260 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 882001261 Sporulation related domain; Region: SPOR; pfam05036 882001262 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 882001263 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 882001264 active site 882001265 catalytic residues [active] 882001266 metal binding site [ion binding]; metal-binding site 882001267 Cache domain; Region: Cache_1; pfam02743 882001268 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 882001269 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 882001270 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882001271 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 882001272 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 882001273 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882001274 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 882001275 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 882001276 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 882001277 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 882001278 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 882001279 conserved cys residue [active] 882001280 EamA-like transporter family; Region: EamA; pfam00892 882001281 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882001282 EamA-like transporter family; Region: EamA; pfam00892 882001283 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 882001284 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 882001285 Sporulation related domain; Region: SPOR; pfam05036 882001286 response regulator PleD; Reviewed; Region: pleD; PRK09581 882001287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001288 active site 882001289 phosphorylation site [posttranslational modification] 882001290 intermolecular recognition site; other site 882001291 dimerization interface [polypeptide binding]; other site 882001292 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001293 putative active site [active] 882001294 heme pocket [chemical binding]; other site 882001295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882001296 metal binding site [ion binding]; metal-binding site 882001297 active site 882001298 I-site; other site 882001299 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 882001300 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 882001301 putative active site [active] 882001302 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 882001303 TrkA-N domain; Region: TrkA_N; pfam02254 882001304 TrkA-C domain; Region: TrkA_C; pfam02080 882001305 Cation transport protein; Region: TrkH; cl17365 882001306 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 882001307 Cation transport protein; Region: TrkH; pfam02386 882001308 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 882001309 Malic enzyme, N-terminal domain; Region: malic; pfam00390 882001310 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 882001311 putative NAD(P) binding site [chemical binding]; other site 882001312 multifunctional aminopeptidase A; Provisional; Region: PRK00913 882001313 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 882001314 interface (dimer of trimers) [polypeptide binding]; other site 882001315 Substrate-binding/catalytic site; other site 882001316 Zn-binding sites [ion binding]; other site 882001317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882001318 metal binding site [ion binding]; metal-binding site 882001319 active site 882001320 I-site; other site 882001321 arginine decarboxylase; Provisional; Region: PRK05354 882001322 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 882001323 dimer interface [polypeptide binding]; other site 882001324 active site 882001325 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882001326 catalytic residues [active] 882001327 substrate binding site [chemical binding]; other site 882001328 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 882001329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882001330 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 882001331 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 882001332 dimer interface [polypeptide binding]; other site 882001333 active site 882001334 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882001335 catalytic residues [active] 882001336 substrate binding site [chemical binding]; other site 882001337 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 882001338 putative active site [active] 882001339 Mn binding site [ion binding]; other site 882001340 PAS fold; Region: PAS_4; pfam08448 882001341 PAS fold; Region: PAS_4; pfam08448 882001342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001343 putative active site [active] 882001344 heme pocket [chemical binding]; other site 882001345 PAS domain S-box; Region: sensory_box; TIGR00229 882001346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001347 putative active site [active] 882001348 heme pocket [chemical binding]; other site 882001349 PAS domain; Region: PAS_9; pfam13426 882001350 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001351 putative active site [active] 882001352 heme pocket [chemical binding]; other site 882001353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882001354 metal binding site [ion binding]; metal-binding site 882001355 active site 882001356 I-site; other site 882001357 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 882001358 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 882001359 Ligand Binding Site [chemical binding]; other site 882001360 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 882001361 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 882001362 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 882001363 putative active site [active] 882001364 catalytic site [active] 882001365 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 882001366 putative active site [active] 882001367 catalytic site [active] 882001368 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 882001369 Chromate transporter; Region: Chromate_transp; pfam02417 882001370 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 882001371 Chromate transporter; Region: Chromate_transp; pfam02417 882001372 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 882001373 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882001374 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 882001375 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 882001376 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 882001377 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 882001378 NADH dehydrogenase; Region: NADHdh; cl00469 882001379 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 882001380 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 882001381 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 882001382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882001383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882001384 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 882001385 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 882001386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882001387 HlyD family secretion protein; Region: HlyD_3; pfam13437 882001388 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 882001389 MMPL family; Region: MMPL; cl14618 882001390 MMPL family; Region: MMPL; cl14618 882001391 YCII-related domain; Region: YCII; cl00999 882001392 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 882001393 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 882001394 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 882001395 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 882001396 active site 882001397 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 882001398 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 882001399 putative active site [active] 882001400 PhoH-like protein; Region: PhoH; cl17668 882001401 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 882001402 active site 882001403 catalytic site [active] 882001404 substrate binding site [chemical binding]; other site 882001405 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; cl00047 882001406 ligand binding site [chemical binding]; other site 882001407 flexible hinge region; other site 882001408 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 882001409 Putative nucleotidyltransferase DUF294; Region: DUF294; pfam03445 882001410 metal binding triad [ion binding]; metal-binding site 882001411 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 882001412 FOG: CBS domain [General function prediction only]; Region: COG0517 882001413 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 882001414 metal binding triad; other site 882001415 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 882001416 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 882001417 Na binding site [ion binding]; other site 882001418 Protein of unknown function, DUF485; Region: DUF485; pfam04341 882001419 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 882001420 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 882001421 NADP-binding site; other site 882001422 homotetramer interface [polypeptide binding]; other site 882001423 substrate binding site [chemical binding]; other site 882001424 homodimer interface [polypeptide binding]; other site 882001425 active site 882001426 CheB methylesterase; Region: CheB_methylest; pfam01339 882001427 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 882001428 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 882001429 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882001430 PAS domain; Region: PAS_10; pfam13596 882001431 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882001432 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001433 putative active site [active] 882001434 heme pocket [chemical binding]; other site 882001435 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 882001436 dimer interface [polypeptide binding]; other site 882001437 phosphorylation site [posttranslational modification] 882001438 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001439 ATP binding site [chemical binding]; other site 882001440 Mg2+ binding site [ion binding]; other site 882001441 G-X-G motif; other site 882001442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001443 active site 882001444 phosphorylation site [posttranslational modification] 882001445 intermolecular recognition site; other site 882001446 dimerization interface [polypeptide binding]; other site 882001447 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 882001448 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 882001449 active site 882001450 Riboflavin kinase; Region: Flavokinase; pfam01687 882001451 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 882001452 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 882001453 Cl- selectivity filter; other site 882001454 Cl- binding residues [ion binding]; other site 882001455 pore gating glutamate residue; other site 882001456 dimer interface [polypeptide binding]; other site 882001457 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 882001458 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 882001459 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 882001460 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 882001461 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 882001462 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 882001463 Part of AAA domain; Region: AAA_19; pfam13245 882001464 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 882001465 DHH family; Region: DHH; pfam01368 882001466 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 882001467 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 882001468 putative active site; other site 882001469 catalytic residue [active] 882001470 3-dehydroquinate synthase; Provisional; Region: PRK02290 882001471 Chorismate mutase type II; Region: CM_2; pfam01817 882001472 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 882001473 Prephenate dehydratase; Region: PDT; pfam00800 882001474 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 882001475 putative L-Phe binding site [chemical binding]; other site 882001476 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 882001477 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 882001478 hinge; other site 882001479 active site 882001480 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 882001481 prephenate dehydrogenase; Provisional; Region: PRK06444 882001482 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 882001483 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 882001484 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 882001485 Glutamine amidotransferase class-I; Region: GATase; pfam00117 882001486 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882001487 glutamine binding [chemical binding]; other site 882001488 catalytic triad [active] 882001489 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 882001490 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882001491 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 882001492 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 882001493 active site 882001494 ribulose/triose binding site [chemical binding]; other site 882001495 phosphate binding site [ion binding]; other site 882001496 substrate (anthranilate) binding pocket [chemical binding]; other site 882001497 product (indole) binding pocket [chemical binding]; other site 882001498 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 882001499 active site 882001500 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 882001501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882001502 catalytic residue [active] 882001503 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 882001504 substrate binding site [chemical binding]; other site 882001505 active site 882001506 catalytic residues [active] 882001507 heterodimer interface [polypeptide binding]; other site 882001508 Winged helix-turn helix; Region: HTH_29; pfam13551 882001509 Helix-turn-helix domain; Region: HTH_28; pfam13518 882001510 Homeodomain-like domain; Region: HTH_32; pfam13565 882001511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 882001512 Integrase core domain; Region: rve; pfam00665 882001513 Integrase core domain; Region: rve_3; pfam13683 882001514 Acyltransferase family; Region: Acyl_transf_3; pfam01757 882001515 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 882001516 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 882001517 active site 882001518 metal binding site [ion binding]; metal-binding site 882001519 Protein kinase domain; Region: Pkinase; pfam00069 882001520 Catalytic domain of Protein Kinases; Region: PKc; cd00180 882001521 active site 882001522 ATP binding site [chemical binding]; other site 882001523 substrate binding site [chemical binding]; other site 882001524 activation loop (A-loop); other site 882001525 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 882001526 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 882001527 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 882001528 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 882001529 NADP binding site [chemical binding]; other site 882001530 homopentamer interface [polypeptide binding]; other site 882001531 substrate binding site [chemical binding]; other site 882001532 active site 882001533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001534 active site 882001535 phosphorylation site [posttranslational modification] 882001536 intermolecular recognition site; other site 882001537 dimerization interface [polypeptide binding]; other site 882001538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001539 PAS fold; Region: PAS_3; pfam08447 882001540 putative active site [active] 882001541 heme pocket [chemical binding]; other site 882001542 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 882001543 dimer interface [polypeptide binding]; other site 882001544 phosphorylation site [posttranslational modification] 882001545 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 882001546 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001547 ATP binding site [chemical binding]; other site 882001548 Mg2+ binding site [ion binding]; other site 882001549 G-X-G motif; other site 882001550 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 882001551 ATP binding site [chemical binding]; other site 882001552 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 882001553 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882001554 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 882001555 Walker A/P-loop; other site 882001556 ATP binding site [chemical binding]; other site 882001557 Q-loop/lid; other site 882001558 ABC transporter signature motif; other site 882001559 Walker B; other site 882001560 D-loop; other site 882001561 H-loop/switch region; other site 882001562 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 882001563 AIR carboxylase; Region: AIRC; pfam00731 882001564 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 882001565 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 882001566 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 882001567 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 882001568 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 882001569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882001570 acyl-activating enzyme (AAE) consensus motif; other site 882001571 AMP binding site [chemical binding]; other site 882001572 active site 882001573 CoA binding site [chemical binding]; other site 882001574 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 882001575 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 882001576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882001577 Zn2+ binding site [ion binding]; other site 882001578 Mg2+ binding site [ion binding]; other site 882001579 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 882001580 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 882001581 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 882001582 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 882001583 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 882001584 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882001585 catalytic residue [active] 882001586 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 882001587 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 882001588 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 882001589 putative RNA binding site [nucleotide binding]; other site 882001590 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 882001591 S-adenosylmethionine binding site [chemical binding]; other site 882001592 DNA polymerase I; Provisional; Region: PRK05755 882001593 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 882001594 active site 882001595 metal binding site 1 [ion binding]; metal-binding site 882001596 putative 5' ssDNA interaction site; other site 882001597 metal binding site 3; metal-binding site 882001598 metal binding site 2 [ion binding]; metal-binding site 882001599 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 882001600 putative DNA binding site [nucleotide binding]; other site 882001601 putative metal binding site [ion binding]; other site 882001602 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 882001603 substrate binding site [chemical binding]; other site 882001604 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 882001605 active site 882001606 DNA binding site [nucleotide binding] 882001607 catalytic site [active] 882001608 4Fe-4S dicluster domain; Region: Fer4_21; pfam14697 882001609 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882001610 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882001611 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 882001612 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 882001613 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 882001614 G1 box; other site 882001615 putative GEF interaction site [polypeptide binding]; other site 882001616 GTP/Mg2+ binding site [chemical binding]; other site 882001617 Switch I region; other site 882001618 G2 box; other site 882001619 G3 box; other site 882001620 Switch II region; other site 882001621 G4 box; other site 882001622 G5 box; other site 882001623 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 882001624 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 882001625 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 882001626 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 882001627 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 882001628 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 882001629 RNase E interface [polypeptide binding]; other site 882001630 trimer interface [polypeptide binding]; other site 882001631 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 882001632 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 882001633 RNase E interface [polypeptide binding]; other site 882001634 trimer interface [polypeptide binding]; other site 882001635 active site 882001636 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 882001637 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 882001638 RNA binding site [nucleotide binding]; other site 882001639 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 882001640 16S/18S rRNA binding site [nucleotide binding]; other site 882001641 S13e-L30e interaction site [polypeptide binding]; other site 882001642 25S rRNA binding site [nucleotide binding]; other site 882001643 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 882001644 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 882001645 RNA binding site [nucleotide binding]; other site 882001646 active site 882001647 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 882001648 DHH family; Region: DHH; pfam01368 882001649 Protein of unknown function (DUF503); Region: DUF503; pfam04456 882001650 Brain acid soluble protein 1 (BASP1 protein); Region: BASP1; pfam05466 882001651 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882001652 Proline-rich; Region: Pro-rich; pfam15240 882001653 Arsenite-resistance protein 2; Region: ARS2; pfam04959 882001654 translation initiation factor IF-2; Validated; Region: infB; PRK05306 882001655 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882001656 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 882001657 G1 box; other site 882001658 putative GEF interaction site [polypeptide binding]; other site 882001659 GTP/Mg2+ binding site [chemical binding]; other site 882001660 Switch I region; other site 882001661 G2 box; other site 882001662 G3 box; other site 882001663 Switch II region; other site 882001664 G4 box; other site 882001665 G5 box; other site 882001666 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 882001667 Translation-initiation factor 2; Region: IF-2; pfam11987 882001668 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 882001669 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 882001670 putative RNA binding cleft [nucleotide binding]; other site 882001671 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 882001672 NusA N-terminal domain; Region: NusA_N; pfam08529 882001673 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 882001674 RNA binding site [nucleotide binding]; other site 882001675 homodimer interface [polypeptide binding]; other site 882001676 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 882001677 G-X-X-G motif; other site 882001678 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 882001679 G-X-X-G motif; other site 882001680 Sm and related proteins; Region: Sm_like; cl00259 882001681 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 882001682 putative oligomer interface [polypeptide binding]; other site 882001683 putative RNA binding site [nucleotide binding]; other site 882001684 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 882001685 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 882001686 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 882001687 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 882001688 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882001689 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882001690 SAF-like; Region: SAF_2; pfam13144 882001691 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 882001692 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 882001693 Rod binding protein; Region: Rod-binding; cl01626 882001694 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882001695 Peptidase family M23; Region: Peptidase_M23; pfam01551 882001696 FlgN protein; Region: FlgN; pfam05130 882001697 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 882001698 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 882001699 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882001700 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 882001701 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882001702 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882001703 Global regulator protein family; Region: CsrA; pfam02599 882001704 flagellar assembly protein FliW; Provisional; Region: PRK13285 882001705 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 882001706 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882001707 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882001708 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 882001709 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882001710 putative substrate translocation pore; other site 882001711 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 882001712 active site 882001713 dimer interface [polypeptide binding]; other site 882001714 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 882001715 tetramer interfaces [polypeptide binding]; other site 882001716 binuclear metal-binding site [ion binding]; other site 882001717 Predicted transcriptional regulator [Transcription]; Region: COG1959 882001718 Rrf2 family protein; Region: rrf2_super; TIGR00738 882001719 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882001720 putative Zn2+ binding site [ion binding]; other site 882001721 putative DNA binding site [nucleotide binding]; other site 882001722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001723 active site 882001724 phosphorylation site [posttranslational modification] 882001725 dimerization interface [polypeptide binding]; other site 882001726 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882001727 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882001728 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 882001729 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 882001730 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 882001731 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882001732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 882001733 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; cl00240 882001734 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882001735 heme-binding residues [chemical binding]; other site 882001736 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882001737 heme-binding residues [chemical binding]; other site 882001738 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882001739 heme-binding residues [chemical binding]; other site 882001740 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882001741 heme-binding residues [chemical binding]; other site 882001742 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 882001743 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 882001744 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882001745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001746 active site 882001747 phosphorylation site [posttranslational modification] 882001748 intermolecular recognition site; other site 882001749 dimerization interface [polypeptide binding]; other site 882001750 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 882001751 Walker A motif; other site 882001752 ATP binding site [chemical binding]; other site 882001753 Walker B motif; other site 882001754 arginine finger; other site 882001755 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882001756 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 882001757 GAF domain; Region: GAF_3; pfam13492 882001758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882001759 PAS domain; Region: PAS; smart00091 882001760 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 882001761 dimer interface [polypeptide binding]; other site 882001762 phosphorylation site [posttranslational modification] 882001763 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001764 ATP binding site [chemical binding]; other site 882001765 Mg2+ binding site [ion binding]; other site 882001766 G-X-G motif; other site 882001767 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 882001768 Ligand Binding Site [chemical binding]; other site 882001769 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 882001770 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882001771 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 882001772 Ligand Binding Site [chemical binding]; other site 882001773 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 882001774 dimerization interface [polypeptide binding]; other site 882001775 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 882001776 ligand binding site [chemical binding]; other site 882001777 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 882001778 TM-ABC transporter signature motif; other site 882001779 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 882001780 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 882001781 TM-ABC transporter signature motif; other site 882001782 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 882001783 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 882001784 Walker A/P-loop; other site 882001785 ATP binding site [chemical binding]; other site 882001786 Q-loop/lid; other site 882001787 ABC transporter signature motif; other site 882001788 Walker B; other site 882001789 D-loop; other site 882001790 H-loop/switch region; other site 882001791 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 882001792 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 882001793 Walker A/P-loop; other site 882001794 ATP binding site [chemical binding]; other site 882001795 Q-loop/lid; other site 882001796 ABC transporter signature motif; other site 882001797 Walker B; other site 882001798 D-loop; other site 882001799 H-loop/switch region; other site 882001800 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882001801 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 882001802 active site 882001803 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 882001804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882001805 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882001806 NAD(P) binding site [chemical binding]; other site 882001807 active site 882001808 Transposase; Region: HTH_Tnp_1; pfam01527 882001809 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 882001810 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882001811 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 882001812 Transposase; Region: HTH_Tnp_1; pfam01527 882001813 HTH-like domain; Region: HTH_21; pfam13276 882001814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 882001815 Integrase core domain; Region: rve; pfam00665 882001816 Integrase core domain; Region: rve_3; pfam13683 882001817 Winged helix-turn helix; Region: HTH_29; pfam13551 882001818 Helix-turn-helix domain; Region: HTH_28; pfam13518 882001819 Homeodomain-like domain; Region: HTH_32; pfam13565 882001820 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 882001821 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 882001822 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882001823 GAF domain; Region: GAF; pfam01590 882001824 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 882001825 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 882001826 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 882001827 active site residue [active] 882001828 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 882001829 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 882001830 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001831 putative active site [active] 882001832 heme pocket [chemical binding]; other site 882001833 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 882001834 Walker A motif; other site 882001835 ATP binding site [chemical binding]; other site 882001836 Walker B motif; other site 882001837 arginine finger; other site 882001838 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 882001839 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 882001840 hexamer interface [polypeptide binding]; other site 882001841 ligand binding site [chemical binding]; other site 882001842 putative active site [active] 882001843 NAD(P) binding site [chemical binding]; other site 882001844 PilZ domain; Region: PilZ; pfam07238 882001845 CreA protein; Region: CreA; cl19505 882001846 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 882001847 methionine sulfoxide reductase B; Provisional; Region: PRK00222 882001848 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 882001849 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 882001850 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 882001851 GTP binding site; other site 882001852 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 882001853 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 882001854 FeS/SAM binding site; other site 882001855 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 882001856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001857 active site 882001858 phosphorylation site [posttranslational modification] 882001859 intermolecular recognition site; other site 882001860 dimerization interface [polypeptide binding]; other site 882001861 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 882001862 anti sigma factor interaction site; other site 882001863 regulatory phosphorylation site [posttranslational modification]; other site 882001864 HAMP domain; Region: HAMP; pfam00672 882001865 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882001866 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882001867 putative active site [active] 882001868 heme pocket [chemical binding]; other site 882001869 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 882001870 dimer interface [polypeptide binding]; other site 882001871 phosphorylation site [posttranslational modification] 882001872 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001873 ATP binding site [chemical binding]; other site 882001874 Mg2+ binding site [ion binding]; other site 882001875 G-X-G motif; other site 882001876 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 882001877 putative ligand binding site [chemical binding]; other site 882001878 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 882001879 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 882001880 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 882001881 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 882001882 CoA binding domain; Region: CoA_binding_2; pfam13380 882001883 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 882001884 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 882001885 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 882001886 [4Fe-4S] binding site [ion binding]; other site 882001887 molybdopterin cofactor binding site; other site 882001888 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 882001889 molybdopterin cofactor binding site; other site 882001890 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882001891 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882001892 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 882001893 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 882001894 Walker A motif; other site 882001895 Putative Fe-S cluster; Region: FeS; cl17515 882001896 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 882001897 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 882001898 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882001899 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882001900 dimer interface [polypeptide binding]; other site 882001901 putative CheW interface [polypeptide binding]; other site 882001902 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 882001903 putative CheA interaction surface; other site 882001904 Lysine efflux permease [General function prediction only]; Region: COG1279 882001905 transcriptional regulator, ArgP family; Region: argP; TIGR03298 882001906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882001907 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 882001908 putative dimerization interface [polypeptide binding]; other site 882001909 DsrE/DsrF-like family; Region: DrsE; cl00672 882001910 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 882001911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001912 active site 882001913 phosphorylation site [posttranslational modification] 882001914 intermolecular recognition site; other site 882001915 dimerization interface [polypeptide binding]; other site 882001916 LytTr DNA-binding domain; Region: LytTR; smart00850 882001917 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 882001918 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 882001919 GAF domain; Region: GAF_3; pfam13492 882001920 Histidine kinase; Region: His_kinase; pfam06580 882001921 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882001922 ATP binding site [chemical binding]; other site 882001923 Mg2+ binding site [ion binding]; other site 882001924 G-X-G motif; other site 882001925 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 882001926 Carbon starvation protein CstA; Region: CstA; pfam02554 882001927 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 882001928 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 882001929 Carbon starvation protein CstA; Region: CstA; pfam02554 882001930 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 882001931 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 882001932 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 882001933 NAD binding site [chemical binding]; other site 882001934 dimer interface [polypeptide binding]; other site 882001935 substrate binding site [chemical binding]; other site 882001936 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882001937 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 882001938 CoenzymeA binding site [chemical binding]; other site 882001939 subunit interaction site [polypeptide binding]; other site 882001940 PHB binding site; other site 882001941 Protein of unknown function (DUF721); Region: DUF721; pfam05258 882001942 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882001943 dimerization interface [polypeptide binding]; other site 882001944 putative DNA binding site [nucleotide binding]; other site 882001945 putative Zn2+ binding site [ion binding]; other site 882001946 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882001947 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 882001948 S-adenosylmethionine binding site [chemical binding]; other site 882001949 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 882001950 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 882001951 homotetramer interface [polypeptide binding]; other site 882001952 ligand binding site [chemical binding]; other site 882001953 catalytic site [active] 882001954 NAD binding site [chemical binding]; other site 882001955 CHASE4 domain; Region: CHASE4; cl01308 882001956 Cache domain; Region: Cache_1; pfam02743 882001957 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 882001958 dimerization interface [polypeptide binding]; other site 882001959 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882001960 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882001961 dimer interface [polypeptide binding]; other site 882001962 putative CheW interface [polypeptide binding]; other site 882001963 Protein of unknown function (DUF330); Region: DUF330; cl01135 882001964 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 882001965 mce related protein; Region: MCE; pfam02470 882001966 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 882001967 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 882001968 Walker A/P-loop; other site 882001969 ATP binding site [chemical binding]; other site 882001970 Q-loop/lid; other site 882001971 ABC transporter signature motif; other site 882001972 Walker B; other site 882001973 D-loop; other site 882001974 H-loop/switch region; other site 882001975 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 882001976 Permease; Region: Permease; pfam02405 882001977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 882001978 active site 882001979 phosphorylation site [posttranslational modification] 882001980 intermolecular recognition site; other site 882001981 dimerization interface [polypeptide binding]; other site 882001982 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882001983 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 882001984 Walker A motif; other site 882001985 ATP binding site [chemical binding]; other site 882001986 Walker B motif; other site 882001987 arginine finger; other site 882001988 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882001989 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 882001990 homotrimer interaction site [polypeptide binding]; other site 882001991 putative active site [active] 882001992 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882001993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882001994 active site 882001995 phosphorylation site [posttranslational modification] 882001996 intermolecular recognition site; other site 882001997 dimerization interface [polypeptide binding]; other site 882001998 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 882001999 Walker A motif; other site 882002000 ATP binding site [chemical binding]; other site 882002001 Walker B motif; other site 882002002 arginine finger; other site 882002003 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 882002004 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 882002005 dimer interface [polypeptide binding]; other site 882002006 phosphorylation site [posttranslational modification] 882002007 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002008 ATP binding site [chemical binding]; other site 882002009 Mg2+ binding site [ion binding]; other site 882002010 G-X-G motif; other site 882002011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002012 active site 882002013 phosphorylation site [posttranslational modification] 882002014 intermolecular recognition site; other site 882002015 dimerization interface [polypeptide binding]; other site 882002016 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 882002017 putative binding surface; other site 882002018 active site 882002019 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 882002020 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 882002021 Cytochrome c7; Region: Cytochrome_C7; cl19206 882002022 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 882002023 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882002024 putative valine binding site [chemical binding]; other site 882002025 dimer interface [polypeptide binding]; other site 882002026 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 882002027 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 882002028 butyrate kinase; Provisional; Region: PRK03011 882002029 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882002030 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882002031 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 882002032 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 882002033 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 882002034 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 882002035 Transglycosylase; Region: Transgly; pfam00912 882002036 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882002037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 882002038 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 882002039 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 882002040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002041 active site 882002042 phosphorylation site [posttranslational modification] 882002043 intermolecular recognition site; other site 882002044 dimerization interface [polypeptide binding]; other site 882002045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002046 active site 882002047 phosphorylation site [posttranslational modification] 882002048 intermolecular recognition site; other site 882002049 dimerization interface [polypeptide binding]; other site 882002050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882002051 metal binding site [ion binding]; metal-binding site 882002052 active site 882002053 I-site; other site 882002054 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882002055 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 882002056 flagellar motor protein MotS; Reviewed; Region: PRK06925 882002057 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882002058 ligand binding site [chemical binding]; other site 882002059 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882002060 Protein of unknown function (DUF342); Region: DUF342; pfam03961 882002061 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 882002062 Putative lysophospholipase; Region: Hydrolase_4; cl19140 882002063 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 882002064 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 882002065 ATP binding site [chemical binding]; other site 882002066 substrate interface [chemical binding]; other site 882002067 Cache domain; Region: Cache_1; pfam02743 882002068 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 882002069 dimerization interface [polypeptide binding]; other site 882002070 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882002071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882002072 dimer interface [polypeptide binding]; other site 882002073 putative CheW interface [polypeptide binding]; other site 882002074 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 882002075 active site 882002076 SAM binding site [chemical binding]; other site 882002077 homodimer interface [polypeptide binding]; other site 882002078 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 882002079 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 882002080 intersubunit interface [polypeptide binding]; other site 882002081 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 882002082 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882002083 Walker A/P-loop; other site 882002084 ATP binding site [chemical binding]; other site 882002085 Q-loop/lid; other site 882002086 ABC transporter signature motif; other site 882002087 Walker B; other site 882002088 D-loop; other site 882002089 H-loop/switch region; other site 882002090 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 882002091 ABC-ATPase subunit interface; other site 882002092 dimer interface [polypeptide binding]; other site 882002093 putative PBP binding regions; other site 882002094 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 882002095 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 882002096 active site 882002097 C-terminal domain interface [polypeptide binding]; other site 882002098 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 882002099 active site 882002100 N-terminal domain interface [polypeptide binding]; other site 882002101 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 882002102 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 882002103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002104 active site 882002105 phosphorylation site [posttranslational modification] 882002106 intermolecular recognition site; other site 882002107 dimerization interface [polypeptide binding]; other site 882002108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002109 active site 882002110 phosphorylation site [posttranslational modification] 882002111 intermolecular recognition site; other site 882002112 dimerization interface [polypeptide binding]; other site 882002113 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882002114 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 882002115 Walker A motif; other site 882002116 ATP binding site [chemical binding]; other site 882002117 Walker B motif; other site 882002118 arginine finger; other site 882002119 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 882002120 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 882002121 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 882002122 active site 882002123 Uncharacterized conserved protein [Function unknown]; Region: COG2835 882002124 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882002125 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 882002126 putative dimer interface [polypeptide binding]; other site 882002127 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882002128 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 882002129 putative dimer interface [polypeptide binding]; other site 882002130 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 882002131 active site 882002132 metal binding site [ion binding]; metal-binding site 882002133 homotetramer interface [polypeptide binding]; other site 882002134 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 882002135 FMN binding site [chemical binding]; other site 882002136 active site 882002137 catalytic residues [active] 882002138 substrate binding site [chemical binding]; other site 882002139 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 882002140 serine O-acetyltransferase; Region: cysE; TIGR01172 882002141 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 882002142 trimer interface [polypeptide binding]; other site 882002143 active site 882002144 substrate binding site [chemical binding]; other site 882002145 CoA binding site [chemical binding]; other site 882002146 cysteine synthase; Region: PLN02565 882002147 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 882002148 dimer interface [polypeptide binding]; other site 882002149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882002150 catalytic residue [active] 882002151 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 882002152 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882002153 catalytic residue [active] 882002154 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 882002155 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 882002156 trimerization site [polypeptide binding]; other site 882002157 active site 882002158 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 882002159 NifU-like domain; Region: NifU; pfam01106 882002160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882002161 Zn2+ binding site [ion binding]; other site 882002162 Mg2+ binding site [ion binding]; other site 882002163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882002164 Zn2+ binding site [ion binding]; other site 882002165 Mg2+ binding site [ion binding]; other site 882002166 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002167 PAS domain; Region: PAS_9; pfam13426 882002168 putative active site [active] 882002169 heme pocket [chemical binding]; other site 882002170 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882002171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882002172 dimer interface [polypeptide binding]; other site 882002173 putative CheW interface [polypeptide binding]; other site 882002174 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; pfam03407 882002175 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 882002176 O-Antigen ligase; Region: Wzy_C; pfam04932 882002177 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 882002178 phosphate binding site [ion binding]; other site 882002179 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882002180 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 882002181 dimer interface [polypeptide binding]; other site 882002182 conserved gate region; other site 882002183 putative PBP binding loops; other site 882002184 ABC-ATPase subunit interface; other site 882002185 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 882002186 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882002187 substrate binding pocket [chemical binding]; other site 882002188 membrane-bound complex binding site; other site 882002189 hinge residues; other site 882002190 ectoine/hydroxyectoine ABC transporter, permease protein EhuD; Region: ectoine_ehuD; TIGR03003 882002191 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 882002192 dimer interface [polypeptide binding]; other site 882002193 conserved gate region; other site 882002194 putative PBP binding loops; other site 882002195 ABC-ATPase subunit interface; other site 882002196 Transglycosylase SLT domain; Region: SLT_2; pfam13406 882002197 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 882002198 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882002199 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882002200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002201 active site 882002202 phosphorylation site [posttranslational modification] 882002203 intermolecular recognition site; other site 882002204 dimerization interface [polypeptide binding]; other site 882002205 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 882002206 Walker A motif; other site 882002207 ATP binding site [chemical binding]; other site 882002208 Walker B motif; other site 882002209 arginine finger; other site 882002210 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882002211 PAS domain; Region: PAS_9; pfam13426 882002212 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882002213 PAS domain; Region: PAS_8; pfam13188 882002214 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 882002215 dimer interface [polypeptide binding]; other site 882002216 phosphorylation site [posttranslational modification] 882002217 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002218 ATP binding site [chemical binding]; other site 882002219 Mg2+ binding site [ion binding]; other site 882002220 G-X-G motif; other site 882002221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002222 active site 882002223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882002224 phosphorylation site [posttranslational modification] 882002225 intermolecular recognition site; other site 882002226 dimerization interface [polypeptide binding]; other site 882002227 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 882002228 dimer interface [polypeptide binding]; other site 882002229 phosphorylation site [posttranslational modification] 882002230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002231 ATP binding site [chemical binding]; other site 882002232 Mg2+ binding site [ion binding]; other site 882002233 G-X-G motif; other site 882002234 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882002235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002236 active site 882002237 phosphorylation site [posttranslational modification] 882002238 intermolecular recognition site; other site 882002239 dimerization interface [polypeptide binding]; other site 882002240 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 882002241 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 882002242 sequence-specific DNA binding site [nucleotide binding]; other site 882002243 Predicted transcriptional regulator [Transcription]; Region: COG2932 882002244 salt bridge; other site 882002245 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 882002246 Catalytic site [active] 882002247 HflC protein; Region: hflC; TIGR01932 882002248 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 882002249 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 882002250 HflK protein; Region: hflK; TIGR01933 882002251 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 882002252 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 882002253 active site 882002254 substrate binding site [chemical binding]; other site 882002255 metal binding site [ion binding]; metal-binding site 882002256 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882002257 4Fe-4S dicluster domain; Region: Fer4_21; pfam14697 882002258 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 882002259 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 882002260 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 882002261 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 882002262 RNA/DNA hybrid binding site [nucleotide binding]; other site 882002263 active site 882002264 Flagellar protein YcgR; Region: YcgR_2; pfam12945 882002265 PilZ domain; Region: PilZ; pfam07238 882002266 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 882002267 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 882002268 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 882002269 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882002270 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882002271 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 882002272 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 882002273 The MopB_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding (MopB) proteins. This CD is of the PHLH region homologous to the catalytic molybdopterin-binding subunit of MopB homologs; Region: MopB_PHLH; cd02764 882002274 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 882002275 putative molybdopterin cofactor binding site; other site 882002276 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882002277 heme-binding residues [chemical binding]; other site 882002278 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 882002279 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 882002280 Substrate binding site; other site 882002281 Cupin domain; Region: Cupin_2; cl17218 882002282 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 882002283 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 882002284 dimerization interface [polypeptide binding]; other site 882002285 PAS domain; Region: PAS_9; pfam13426 882002286 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882002287 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882002288 dimer interface [polypeptide binding]; other site 882002289 putative CheW interface [polypeptide binding]; other site 882002290 malate synthase G; Provisional; Region: PRK02999 882002291 active site 882002292 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 882002293 GTP-binding protein LepA; Provisional; Region: PRK05433 882002294 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 882002295 G1 box; other site 882002296 putative GEF interaction site [polypeptide binding]; other site 882002297 GTP/Mg2+ binding site [chemical binding]; other site 882002298 Switch I region; other site 882002299 G2 box; other site 882002300 G3 box; other site 882002301 Switch II region; other site 882002302 G4 box; other site 882002303 G5 box; other site 882002304 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 882002305 Elongation Factor G, domain II; Region: EFG_II; pfam14492 882002306 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 882002307 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 882002308 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 882002309 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 882002310 Catalytic site [active] 882002311 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 882002312 DctM-like transporters; Region: DctM; pfam06808 882002313 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 882002314 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 882002315 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 882002316 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 882002317 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 882002318 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 882002319 Walker A motif; other site 882002320 ATP binding site [chemical binding]; other site 882002321 Walker B motif; other site 882002322 arginine finger; other site 882002323 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 882002324 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 882002325 dimerization interface [polypeptide binding]; other site 882002326 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 882002327 ligand binding site [chemical binding]; other site 882002328 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 882002329 TM-ABC transporter signature motif; other site 882002330 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 882002331 TM-ABC transporter signature motif; other site 882002332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 882002333 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 882002334 Walker A/P-loop; other site 882002335 ATP binding site [chemical binding]; other site 882002336 Q-loop/lid; other site 882002337 ABC transporter signature motif; other site 882002338 Walker B; other site 882002339 D-loop; other site 882002340 H-loop/switch region; other site 882002341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 882002342 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 882002343 Walker A/P-loop; other site 882002344 ATP binding site [chemical binding]; other site 882002345 Q-loop/lid; other site 882002346 ABC transporter signature motif; other site 882002347 Walker B; other site 882002348 D-loop; other site 882002349 H-loop/switch region; other site 882002350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882002351 metal binding site [ion binding]; metal-binding site 882002352 active site 882002353 I-site; other site 882002354 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 882002355 Transposase; Region: HTH_Tnp_1; cl17663 882002356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882002357 IS2 transposase TnpB; Reviewed; Region: PRK09409 882002358 HTH-like domain; Region: HTH_21; pfam13276 882002359 Integrase core domain; Region: rve; pfam00665 882002360 Integrase core domain; Region: rve_3; pfam13683 882002361 CHASE4 domain; Region: CHASE4; pfam05228 882002362 PAS domain; Region: PAS_8; pfam13188 882002363 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002364 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882002365 putative active site [active] 882002366 heme pocket [chemical binding]; other site 882002367 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002368 putative active site [active] 882002369 heme pocket [chemical binding]; other site 882002370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882002371 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 882002372 dimer interface [polypeptide binding]; other site 882002373 phosphorylation site [posttranslational modification] 882002374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002375 ATP binding site [chemical binding]; other site 882002376 Mg2+ binding site [ion binding]; other site 882002377 G-X-G motif; other site 882002378 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002379 active site 882002380 phosphorylation site [posttranslational modification] 882002381 intermolecular recognition site; other site 882002382 dimerization interface [polypeptide binding]; other site 882002383 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 882002384 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882002385 Zn2+ binding site [ion binding]; other site 882002386 Mg2+ binding site [ion binding]; other site 882002387 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 882002388 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 882002389 ATP-grasp domain; Region: ATP-grasp; pfam02222 882002390 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 882002391 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 882002392 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 882002393 catalytic residues [active] 882002394 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 882002395 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 882002396 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 882002397 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 882002398 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 882002399 conserved cys residue [active] 882002400 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 882002401 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 882002402 active site 882002403 HIGH motif; other site 882002404 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 882002405 KMSKS motif; other site 882002406 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 882002407 tRNA binding surface [nucleotide binding]; other site 882002408 anticodon binding site; other site 882002409 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 882002410 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 882002411 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 882002412 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 882002413 active site 882002414 SAM binding site [chemical binding]; other site 882002415 homodimer interface [polypeptide binding]; other site 882002416 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 882002417 active site 882002418 MOSC domain; Region: MOSC; pfam03473 882002419 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 882002420 active site 882002421 substrate binding site [chemical binding]; other site 882002422 cosubstrate binding site; other site 882002423 catalytic site [active] 882002424 HAMP domain; Region: HAMP; pfam00672 882002425 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882002426 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002427 putative active site [active] 882002428 heme pocket [chemical binding]; other site 882002429 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 882002430 dimer interface [polypeptide binding]; other site 882002431 phosphorylation site [posttranslational modification] 882002432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002433 ATP binding site [chemical binding]; other site 882002434 Mg2+ binding site [ion binding]; other site 882002435 G-X-G motif; other site 882002436 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 882002437 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 882002438 ligand binding site [chemical binding]; other site 882002439 AMMECR1; Region: AMMECR1; pfam01871 882002440 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 882002441 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882002442 putative substrate translocation pore; other site 882002443 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 882002444 Ligand Binding Site [chemical binding]; other site 882002445 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 882002446 Ligand Binding Site [chemical binding]; other site 882002447 PAS fold; Region: PAS_4; pfam08448 882002448 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002449 putative active site [active] 882002450 heme pocket [chemical binding]; other site 882002451 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882002452 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882002453 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002454 putative active site [active] 882002455 heme pocket [chemical binding]; other site 882002456 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 882002457 dimer interface [polypeptide binding]; other site 882002458 phosphorylation site [posttranslational modification] 882002459 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002460 ATP binding site [chemical binding]; other site 882002461 Mg2+ binding site [ion binding]; other site 882002462 G-X-G motif; other site 882002463 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882002464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002465 active site 882002466 phosphorylation site [posttranslational modification] 882002467 intermolecular recognition site; other site 882002468 dimerization interface [polypeptide binding]; other site 882002469 PAS domain; Region: PAS_9; pfam13426 882002470 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002471 putative active site [active] 882002472 heme pocket [chemical binding]; other site 882002473 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 882002474 Walker A motif; other site 882002475 ATP binding site [chemical binding]; other site 882002476 Walker B motif; other site 882002477 arginine finger; other site 882002478 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882002479 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 882002480 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 882002481 dimer interface [polypeptide binding]; other site 882002482 conserved gate region; other site 882002483 putative PBP binding loops; other site 882002484 ABC-ATPase subunit interface; other site 882002485 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882002486 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 882002487 Walker A/P-loop; other site 882002488 ATP binding site [chemical binding]; other site 882002489 Q-loop/lid; other site 882002490 ABC transporter signature motif; other site 882002491 Walker B; other site 882002492 D-loop; other site 882002493 H-loop/switch region; other site 882002494 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 882002495 acetyl-CoA synthetase; Provisional; Region: PRK00174 882002496 active site 882002497 CoA binding site [chemical binding]; other site 882002498 acyl-activating enzyme (AAE) consensus motif; other site 882002499 AMP binding site [chemical binding]; other site 882002500 acetate binding site [chemical binding]; other site 882002501 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 882002502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 882002503 active site 882002504 phosphorylation site [posttranslational modification] 882002505 intermolecular recognition site; other site 882002506 dimerization interface [polypeptide binding]; other site 882002507 LytTr DNA-binding domain; Region: LytTR; smart00850 882002508 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 882002509 HAMP domain; Region: HAMP; pfam00672 882002510 PAS domain; Region: PAS_9; pfam13426 882002511 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882002512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882002513 dimer interface [polypeptide binding]; other site 882002514 putative CheW interface [polypeptide binding]; other site 882002515 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882002516 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 882002517 dimer interface [polypeptide binding]; other site 882002518 conserved gate region; other site 882002519 putative PBP binding loops; other site 882002520 ABC-ATPase subunit interface; other site 882002521 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882002522 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 882002523 dimer interface [polypeptide binding]; other site 882002524 conserved gate region; other site 882002525 putative PBP binding loops; other site 882002526 ABC-ATPase subunit interface; other site 882002527 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 882002528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882002529 substrate binding pocket [chemical binding]; other site 882002530 membrane-bound complex binding site; other site 882002531 hinge residues; other site 882002532 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882002533 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882002534 Walker A/P-loop; other site 882002535 ATP binding site [chemical binding]; other site 882002536 Q-loop/lid; other site 882002537 ABC transporter signature motif; other site 882002538 Walker B; other site 882002539 D-loop; other site 882002540 H-loop/switch region; other site 882002541 GAF domain; Region: GAF_3; pfam13492 882002542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882002543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002544 ATP binding site [chemical binding]; other site 882002545 Mg2+ binding site [ion binding]; other site 882002546 G-X-G motif; other site 882002547 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 882002548 binding surface 882002549 TPR motif; other site 882002550 Tetratricopeptide repeat; Region: TPR_9; pfam13371 882002551 PilZ domain; Region: PilZ; pfam07238 882002552 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 882002553 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 882002554 binding surface 882002555 TPR motif; other site 882002556 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 882002557 TPR repeat; Region: TPR_11; pfam13414 882002558 binding surface 882002559 TPR motif; other site 882002560 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 882002561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882002562 metal binding site [ion binding]; metal-binding site 882002563 active site 882002564 I-site; other site 882002565 histone-like DNA-binding protein HU; Region: HU; cd13831 882002566 dimer interface [polypeptide binding]; other site 882002567 DNA binding site [nucleotide binding] 882002568 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 882002569 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 882002570 MOFRL family; Region: MOFRL; pfam05161 882002571 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 882002572 BON domain; Region: BON; pfam04972 882002573 BON domain; Region: BON; pfam04972 882002574 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 882002575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882002576 catalytic residue [active] 882002577 glutamate racemase; Provisional; Region: PRK00865 882002578 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 882002579 dimer interface [polypeptide binding]; other site 882002580 pyridoxal binding site [chemical binding]; other site 882002581 ATP binding site [chemical binding]; other site 882002582 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882002583 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 882002584 active site 882002585 catalytic residues [active] 882002586 DNA binding site [nucleotide binding] 882002587 Int/Topo IB signature motif; other site 882002588 TOBE domain; Region: TOBE; cl01440 882002589 TOBE domain; Region: TOBE; cl01440 882002590 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 882002591 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 882002592 gamma subunit interface [polypeptide binding]; other site 882002593 epsilon subunit interface [polypeptide binding]; other site 882002594 LBP interface [polypeptide binding]; other site 882002595 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 882002596 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882002597 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 882002598 alpha subunit interaction interface [polypeptide binding]; other site 882002599 Walker A motif; other site 882002600 ATP binding site [chemical binding]; other site 882002601 Walker B motif; other site 882002602 inhibitor binding site; inhibition site 882002603 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882002604 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 882002605 core domain interface [polypeptide binding]; other site 882002606 delta subunit interface [polypeptide binding]; other site 882002607 epsilon subunit interface [polypeptide binding]; other site 882002608 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 882002609 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882002610 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 882002611 beta subunit interaction interface [polypeptide binding]; other site 882002612 Walker A motif; other site 882002613 ATP binding site [chemical binding]; other site 882002614 Walker B motif; other site 882002615 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882002616 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 882002617 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 882002618 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 882002619 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 882002620 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882002621 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 882002622 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 882002623 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 882002624 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 882002625 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882002626 rod shape-determining protein MreC; Provisional; Region: PRK13922 882002627 rod shape-determining protein MreB; Provisional; Region: PRK13927 882002628 MreB and similar proteins; Region: MreB_like; cd10225 882002629 nucleotide binding site [chemical binding]; other site 882002630 Mg binding site [ion binding]; other site 882002631 putative protofilament interaction site [polypeptide binding]; other site 882002632 RodZ interaction site [polypeptide binding]; other site 882002633 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 882002634 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 882002635 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 882002636 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 882002637 DNA binding site [nucleotide binding] 882002638 active site 882002639 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 882002640 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 882002641 NAD binding site [chemical binding]; other site 882002642 homotetramer interface [polypeptide binding]; other site 882002643 homodimer interface [polypeptide binding]; other site 882002644 substrate binding site [chemical binding]; other site 882002645 active site 882002646 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 882002647 ATP binding site [chemical binding]; other site 882002648 active site 882002649 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 882002650 substrate binding site [chemical binding]; other site 882002651 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 882002652 histidinol dehydrogenase; Region: hisD; TIGR00069 882002653 NAD binding site [chemical binding]; other site 882002654 dimerization interface [polypeptide binding]; other site 882002655 product binding site; other site 882002656 substrate binding site [chemical binding]; other site 882002657 zinc binding site [ion binding]; other site 882002658 catalytic residues [active] 882002659 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 882002660 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 882002661 GIY-YIG motif/motif A; other site 882002662 active site 882002663 catalytic site [active] 882002664 putative DNA binding site [nucleotide binding]; other site 882002665 metal binding site [ion binding]; metal-binding site 882002666 UvrB/uvrC motif; Region: UVR; pfam02151 882002667 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 882002668 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 882002669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882002670 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 882002671 dimer interface [polypeptide binding]; other site 882002672 phosphorylation site [posttranslational modification] 882002673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002674 ATP binding site [chemical binding]; other site 882002675 Mg2+ binding site [ion binding]; other site 882002676 G-X-G motif; other site 882002677 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882002678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002679 active site 882002680 phosphorylation site [posttranslational modification] 882002681 intermolecular recognition site; other site 882002682 dimerization interface [polypeptide binding]; other site 882002683 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 882002684 Walker A motif; other site 882002685 ATP binding site [chemical binding]; other site 882002686 Walker B motif; other site 882002687 arginine finger; other site 882002688 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882002689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002690 active site 882002691 phosphorylation site [posttranslational modification] 882002692 intermolecular recognition site; other site 882002693 dimerization interface [polypeptide binding]; other site 882002694 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 882002695 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 882002696 Ligand Binding Site [chemical binding]; other site 882002697 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 882002698 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 882002699 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 882002700 putative ligand binding site [chemical binding]; other site 882002701 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 882002702 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 882002703 nucleotide binding site [chemical binding]; other site 882002704 NEF interaction site [polypeptide binding]; other site 882002705 SBD interface [polypeptide binding]; other site 882002706 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 882002707 dimer interface [polypeptide binding]; other site 882002708 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 882002709 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 882002710 HrcA protein C terminal domain; Region: HrcA; pfam01628 882002711 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 882002712 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 882002713 catalytic triad [active] 882002714 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882002715 AsmA family; Region: AsmA; pfam05170 882002716 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 882002717 cobyric acid synthase; Provisional; Region: PRK00784 882002718 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 882002719 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 882002720 catalytic triad [active] 882002721 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 882002722 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 882002723 Predicted integral membrane protein [Function unknown]; Region: COG5616 882002724 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 882002725 heterotetramer interface [polypeptide binding]; other site 882002726 active site pocket [active] 882002727 cleavage site 882002728 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 882002729 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 882002730 ATP binding site [chemical binding]; other site 882002731 putative Mg++ binding site [ion binding]; other site 882002732 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 882002733 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 882002734 nucleotide binding region [chemical binding]; other site 882002735 ATP-binding site [chemical binding]; other site 882002736 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 882002737 SEC-C motif; Region: SEC-C; pfam02810 882002738 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882002739 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882002740 Cysteine-rich domain; Region: CCG; pfam02754 882002741 FAD binding domain; Region: FAD_binding_4; pfam01565 882002742 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 882002743 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 882002744 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 882002745 SmpB-tmRNA interface; other site 882002746 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 882002747 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 882002748 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882002749 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 882002750 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 882002751 dimerization domain swap beta strand [polypeptide binding]; other site 882002752 regulatory protein interface [polypeptide binding]; other site 882002753 active site 882002754 regulatory phosphorylation site [posttranslational modification]; other site 882002755 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 882002756 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 882002757 putative SAM binding site [chemical binding]; other site 882002758 putative homodimer interface [polypeptide binding]; other site 882002759 hypothetical protein; Provisional; Region: PRK14680 882002760 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 882002761 RNA/DNA hybrid binding site [nucleotide binding]; other site 882002762 active site 882002763 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 882002764 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 882002765 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 882002766 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 882002767 RimM N-terminal domain; Region: RimM; pfam01782 882002768 PRC-barrel domain; Region: PRC; pfam05239 882002769 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 882002770 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 882002771 signal recognition particle protein; Provisional; Region: PRK10867 882002772 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 882002773 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 882002774 P loop; other site 882002775 GTP binding site [chemical binding]; other site 882002776 Signal peptide binding domain; Region: SRP_SPB; pfam02978 882002777 aspartate aminotransferase; Provisional; Region: PRK06836 882002778 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 882002779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882002780 homodimer interface [polypeptide binding]; other site 882002781 catalytic residue [active] 882002782 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 882002783 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 882002784 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 882002785 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 882002786 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 882002787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882002788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882002789 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 882002790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882002791 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882002792 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 882002793 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882002794 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882002795 tricarballylate utilization protein B; Provisional; Region: PRK15033 882002796 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 882002797 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 882002798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882002799 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 882002800 substrate binding pocket [chemical binding]; other site 882002801 membrane-bound complex binding site; other site 882002802 hinge residues; other site 882002803 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 882002804 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 882002805 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 882002806 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 882002807 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 882002808 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 882002809 FeS/SAM binding site; other site 882002810 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 882002811 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 882002812 dimer interface [polypeptide binding]; other site 882002813 active site 882002814 Schiff base residues; other site 882002815 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 882002816 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 882002817 FeS/SAM binding site; other site 882002818 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 882002819 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 882002820 Yip1 domain; Region: Yip1; pfam04893 882002821 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 882002822 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 882002823 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 882002824 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 882002825 flagellar capping protein; Provisional; Region: PRK12765 882002826 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 882002827 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 882002828 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 882002829 Glycoprotease family; Region: Peptidase_M22; pfam00814 882002830 RIP metalloprotease RseP; Region: TIGR00054 882002831 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 882002832 active site 882002833 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 882002834 protein binding site [polypeptide binding]; other site 882002835 putative substrate binding region [chemical binding]; other site 882002836 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 882002837 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 882002838 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 882002839 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 882002840 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 882002841 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882002842 catalytic residue [active] 882002843 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 882002844 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 882002845 active site 882002846 dimer interface [polypeptide binding]; other site 882002847 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 882002848 hinge region; other site 882002849 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 882002850 putative nucleotide binding site [chemical binding]; other site 882002851 uridine monophosphate binding site [chemical binding]; other site 882002852 homohexameric interface [polypeptide binding]; other site 882002853 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882002854 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 882002855 putative metal binding site; other site 882002856 elongation factor Ts; Provisional; Region: tsf; PRK09377 882002857 UBA/TS-N domain; Region: UBA; pfam00627 882002858 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 882002859 rRNA interaction site [nucleotide binding]; other site 882002860 S8 interaction site; other site 882002861 putative laminin-1 binding site; other site 882002862 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 882002863 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 882002864 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 882002865 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882002866 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 882002867 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 882002868 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 882002869 elongation factor G; Reviewed; Region: PRK12740 882002870 G1 box; other site 882002871 putative GEF interaction site [polypeptide binding]; other site 882002872 GTP/Mg2+ binding site [chemical binding]; other site 882002873 Switch I region; other site 882002874 G2 box; other site 882002875 G3 box; other site 882002876 Switch II region; other site 882002877 G4 box; other site 882002878 G5 box; other site 882002879 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 882002880 Elongation Factor G, domain II; Region: EFG_II; pfam14492 882002881 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 882002882 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 882002883 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 882002884 catalytic residues [active] 882002885 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 882002886 active site 882002887 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 882002888 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 882002889 active site 882002890 MltA specific insert domain; Region: MltA; smart00925 882002891 3D domain; Region: 3D; cl01439 882002892 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 882002893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882002894 active site 882002895 phosphorylation site [posttranslational modification] 882002896 intermolecular recognition site; other site 882002897 dimerization interface [polypeptide binding]; other site 882002898 K-box region; Region: K-box; pfam01486 882002899 PAS domain S-box; Region: sensory_box; TIGR00229 882002900 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882002901 putative active site [active] 882002902 heme pocket [chemical binding]; other site 882002903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 882002904 Histidine kinase; Region: HisKA_2; pfam07568 882002905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882002906 ATP binding site [chemical binding]; other site 882002907 Mg2+ binding site [ion binding]; other site 882002908 G-X-G motif; other site 882002909 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 882002910 homoserine dehydrogenase; Provisional; Region: PRK06349 882002911 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 882002912 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 882002913 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 882002914 aminotransferase; Validated; Region: PRK08175 882002915 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 882002916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882002917 homodimer interface [polypeptide binding]; other site 882002918 catalytic residue [active] 882002919 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 882002920 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 882002921 ADP binding site [chemical binding]; other site 882002922 magnesium binding site [ion binding]; other site 882002923 putative shikimate binding site; other site 882002924 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 882002925 Ligand Binding Site [chemical binding]; other site 882002926 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 882002927 Tetramer interface [polypeptide binding]; other site 882002928 active site 882002929 FMN-binding site [chemical binding]; other site 882002930 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 882002931 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 882002932 Helix-hairpin-helix containing domain; Region: HHH_4; pfam14490 882002933 AAA domain; Region: AAA_30; pfam13604 882002934 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 882002935 NLPC_P60 stabilizing domain, N term; Region: N_NLPC_P60; pfam12912 882002936 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 882002937 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 882002938 NlpC/P60 family; Region: NLPC_P60; cl17555 882002939 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 882002940 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 882002941 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 882002942 FeS/SAM binding site; other site 882002943 hypothetical protein; Provisional; Region: PRK11820 882002944 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 882002945 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 882002946 hypothetical protein; Provisional; Region: PRK04323 882002947 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 882002948 Guanylate kinase; Region: Guanylate_kin; pfam00625 882002949 catalytic site [active] 882002950 G-X2-G-X-G-K; other site 882002951 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 882002952 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 882002953 active site 882002954 dimer interface [polypeptide binding]; other site 882002955 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 882002956 TPR motif; other site 882002957 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882002958 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 882002959 binding surface 882002960 TPR motif; other site 882002961 TPR repeat; Region: TPR_11; pfam13414 882002962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882002963 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 882002964 Zn2+ binding site [ion binding]; other site 882002965 Mg2+ binding site [ion binding]; other site 882002966 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 882002967 DHH family; Region: DHH; pfam01368 882002968 DHHA1 domain; Region: DHHA1; pfam02272 882002969 lipoyl synthase; Provisional; Region: PRK05481 882002970 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 882002971 FeS/SAM binding site; other site 882002972 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882002973 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 882002974 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 882002975 catalytic loop [active] 882002976 iron binding site [ion binding]; other site 882002977 Domain of unknown function (DUF4445); Region: DUF4445; pfam14574 882002978 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 882002979 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 882002980 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 882002981 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 882002982 dimerization interface 3.5A [polypeptide binding]; other site 882002983 active site 882002984 Uncharacterized conserved protein [Function unknown]; Region: COG3334 882002985 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 882002986 cobalamin synthase; Reviewed; Region: cobS; PRK00235 882002987 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 882002988 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 882002989 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 882002990 CoA binding domain; Region: CoA_binding; pfam02629 882002991 ATP synthase subunit C; Region: ATP-synt_C; cl00466 882002992 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 882002993 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 882002994 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 882002995 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 882002996 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 882002997 homotrimer interaction site [polypeptide binding]; other site 882002998 putative active site [active] 882002999 TRAM domain; Region: TRAM; cl01282 882003000 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 882003001 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 882003002 S-adenosylmethionine binding site [chemical binding]; other site 882003003 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 882003004 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 882003005 substrate binding site; other site 882003006 tetramer interface; other site 882003007 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 882003008 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 882003009 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 882003010 GTP1/OBG; Region: GTP1_OBG; pfam01018 882003011 Obg GTPase; Region: Obg; cd01898 882003012 G1 box; other site 882003013 GTP/Mg2+ binding site [chemical binding]; other site 882003014 Switch I region; other site 882003015 G2 box; other site 882003016 G3 box; other site 882003017 Switch II region; other site 882003018 G4 box; other site 882003019 G5 box; other site 882003020 gamma-glutamyl kinase; Provisional; Region: PRK05429 882003021 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 882003022 nucleotide binding site [chemical binding]; other site 882003023 homotetrameric interface [polypeptide binding]; other site 882003024 putative phosphate binding site [ion binding]; other site 882003025 putative allosteric binding site; other site 882003026 PUA domain; Region: PUA; pfam01472 882003027 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 882003028 dimer interface [polypeptide binding]; other site 882003029 substrate binding site [chemical binding]; other site 882003030 ATP binding site [chemical binding]; other site 882003031 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882003032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882003033 ATP binding site [chemical binding]; other site 882003034 Mg2+ binding site [ion binding]; other site 882003035 G-X-G motif; other site 882003036 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882003037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003038 active site 882003039 phosphorylation site [posttranslational modification] 882003040 intermolecular recognition site; other site 882003041 dimerization interface [polypeptide binding]; other site 882003042 PAS domain S-box; Region: sensory_box; TIGR00229 882003043 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882003044 putative active site [active] 882003045 heme pocket [chemical binding]; other site 882003046 PAS domain; Region: PAS_8; pfam13188 882003047 PAS fold; Region: PAS_4; pfam08448 882003048 PAS domain; Region: PAS_8; pfam13188 882003049 PAS domain; Region: PAS_9; pfam13426 882003050 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882003051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882003052 dimer interface [polypeptide binding]; other site 882003053 putative CheW interface [polypeptide binding]; other site 882003054 DNA binding domain, excisionase family; Region: excise; TIGR01764 882003055 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 882003056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882003057 metal binding site [ion binding]; metal-binding site 882003058 active site 882003059 I-site; other site 882003060 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 882003061 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 882003062 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882003063 Peptidase M16C associated; Region: M16C_assoc; pfam08367 882003064 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882003065 metal binding site 2 [ion binding]; metal-binding site 882003066 putative DNA binding helix; other site 882003067 metal binding site 1 [ion binding]; metal-binding site 882003068 dimer interface [polypeptide binding]; other site 882003069 structural Zn2+ binding site [ion binding]; other site 882003070 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 882003071 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 882003072 Protein of unknown function (DUF1451); Region: DUF1451; cl19727 882003073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882003074 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 882003075 dimer interface [polypeptide binding]; other site 882003076 phosphorylation site [posttranslational modification] 882003077 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882003078 ATP binding site [chemical binding]; other site 882003079 Mg2+ binding site [ion binding]; other site 882003080 G-X-G motif; other site 882003081 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882003082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003083 active site 882003084 phosphorylation site [posttranslational modification] 882003085 intermolecular recognition site; other site 882003086 dimerization interface [polypeptide binding]; other site 882003087 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 882003088 Walker A motif; other site 882003089 ATP binding site [chemical binding]; other site 882003090 Walker B motif; other site 882003091 arginine finger; other site 882003092 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882003093 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882003094 EamA-like transporter family; Region: EamA; pfam00892 882003095 EamA-like transporter family; Region: EamA; pfam00892 882003096 CopC domain; Region: CopC; cl01012 882003097 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 882003098 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 882003099 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 882003100 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 882003101 dimer interface [polypeptide binding]; other site 882003102 putative functional site; other site 882003103 putative MPT binding site; other site 882003104 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 882003105 putative active site [active] 882003106 metal binding site [ion binding]; metal-binding site 882003107 homodimer binding site [polypeptide binding]; other site 882003108 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 882003109 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 882003110 active site 882003111 HIGH motif; other site 882003112 dimer interface [polypeptide binding]; other site 882003113 KMSKS motif; other site 882003114 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 882003115 RNA binding surface [nucleotide binding]; other site 882003116 OstA-like protein; Region: OstA; cl00844 882003117 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 882003118 Organic solvent tolerance protein; Region: OstA_C; pfam04453 882003119 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 882003120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 882003121 active site 882003122 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882003123 dimer interface [polypeptide binding]; other site 882003124 substrate binding site [chemical binding]; other site 882003125 catalytic residues [active] 882003126 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 882003127 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 882003128 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 882003129 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 882003130 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 882003131 replicative DNA helicase; Region: DnaB; TIGR00665 882003132 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 882003133 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 882003134 Walker A motif; other site 882003135 ATP binding site [chemical binding]; other site 882003136 Walker B motif; other site 882003137 DNA binding loops [nucleotide binding] 882003138 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 882003139 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 882003140 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 882003141 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 882003142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 882003143 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 882003144 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; cl19202 882003145 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 882003146 NAD(P) binding pocket [chemical binding]; other site 882003147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882003148 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 882003149 substrate binding pocket [chemical binding]; other site 882003150 membrane-bound complex binding site; other site 882003151 hinge residues; other site 882003152 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 882003153 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 882003154 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 882003155 dimer interface [polypeptide binding]; other site 882003156 conserved gate region; other site 882003157 putative PBP binding loops; other site 882003158 ABC-ATPase subunit interface; other site 882003159 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882003160 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882003161 Walker A/P-loop; other site 882003162 ATP binding site [chemical binding]; other site 882003163 Q-loop/lid; other site 882003164 ABC transporter signature motif; other site 882003165 Walker B; other site 882003166 D-loop; other site 882003167 H-loop/switch region; other site 882003168 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 882003169 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 882003170 MPT binding site; other site 882003171 trimer interface [polypeptide binding]; other site 882003172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882003173 Zn2+ binding site [ion binding]; other site 882003174 Mg2+ binding site [ion binding]; other site 882003175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882003176 Zn2+ binding site [ion binding]; other site 882003177 Mg2+ binding site [ion binding]; other site 882003178 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 882003179 putative active site [active] 882003180 hypothetical protein; Provisional; Region: PRK05255 882003181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003182 active site 882003183 phosphorylation site [posttranslational modification] 882003184 intermolecular recognition site; other site 882003185 dimerization interface [polypeptide binding]; other site 882003186 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 882003187 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 882003188 DAK2 domain; Region: Dak2; cl03685 882003189 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 882003190 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 882003191 active pocket/dimerization site; other site 882003192 active site 882003193 phosphorylation site [posttranslational modification] 882003194 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 882003195 dimerization domain swap beta strand [polypeptide binding]; other site 882003196 regulatory protein interface [polypeptide binding]; other site 882003197 active site 882003198 regulatory phosphorylation site [posttranslational modification]; other site 882003199 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 882003200 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 882003201 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882003202 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 882003203 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 882003204 active site 882003205 hypothetical protein; Provisional; Region: PRK06361 882003206 Bifunctional nuclease; Region: DNase-RNase; pfam02577 882003207 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 882003208 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 882003209 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 882003210 FeS/SAM binding site; other site 882003211 TRAM domain; Region: TRAM; cl01282 882003212 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 882003213 metal-binding site [ion binding] 882003214 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 882003215 substrate binding site [chemical binding]; other site 882003216 ATP binding site [chemical binding]; other site 882003217 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 882003218 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 882003219 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882003220 minor groove reading motif; other site 882003221 helix-hairpin-helix signature motif; other site 882003222 substrate binding pocket [chemical binding]; other site 882003223 active site 882003224 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 882003225 RNase_H superfamily; Region: RNase_H_2; pfam13482 882003226 active site 882003227 catalytic site [active] 882003228 substrate binding site [chemical binding]; other site 882003229 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 882003230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882003231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003232 active site 882003233 phosphorylation site [posttranslational modification] 882003234 intermolecular recognition site; other site 882003235 dimerization interface [polypeptide binding]; other site 882003236 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 882003237 intracellular protease, PfpI family; Region: PfpI; TIGR01382 882003238 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 882003239 conserved cys residue [active] 882003240 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 882003241 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 882003242 FAD binding site [chemical binding]; other site 882003243 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 882003244 putative active site [active] 882003245 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 882003246 Sulfite exporter TauE/SafE; Region: TauE; cl19196 882003247 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 882003248 DsbD alpha interface [polypeptide binding]; other site 882003249 catalytic residues [active] 882003250 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 882003251 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 882003252 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 882003253 active site 882003254 CoA binding domain; Region: CoA_binding; cl17356 882003255 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 882003256 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 882003257 HSP70 interaction site [polypeptide binding]; other site 882003258 EamA-like transporter family; Region: EamA; pfam00892 882003259 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882003260 EamA-like transporter family; Region: EamA; pfam00892 882003261 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882003262 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 882003263 homotrimer interface [polypeptide binding]; other site 882003264 Walker A motif; other site 882003265 GTP binding site [chemical binding]; other site 882003266 Walker B motif; other site 882003267 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 882003268 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003269 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003270 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003271 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 882003272 VCBS repeat; Region: VCBS_repeat; TIGR01965 882003273 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003274 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003275 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882003276 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 882003277 metal ion-dependent adhesion site (MIDAS); other site 882003278 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 882003279 Outer membrane efflux protein; Region: OEP; pfam02321 882003280 Outer membrane efflux protein; Region: OEP; pfam02321 882003281 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39_likeD; cd02421 882003282 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 882003283 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882003284 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 882003285 Walker A/P-loop; other site 882003286 ATP binding site [chemical binding]; other site 882003287 Q-loop/lid; other site 882003288 ABC transporter signature motif; other site 882003289 Walker B; other site 882003290 D-loop; other site 882003291 H-loop/switch region; other site 882003292 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 882003293 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 882003294 HlyD family secretion protein; Region: HlyD_3; pfam13437 882003295 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: Peptidase_C93; cl17596 882003296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882003297 PAS fold; Region: PAS_4; pfam08448 882003298 putative active site [active] 882003299 heme pocket [chemical binding]; other site 882003300 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882003301 Zn2+ binding site [ion binding]; other site 882003302 Mg2+ binding site [ion binding]; other site 882003303 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 882003304 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 882003305 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 882003306 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 882003307 Walker A/P-loop; other site 882003308 ATP binding site [chemical binding]; other site 882003309 Q-loop/lid; other site 882003310 ABC transporter signature motif; other site 882003311 Walker B; other site 882003312 D-loop; other site 882003313 H-loop/switch region; other site 882003314 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 882003315 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882003316 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 882003317 RNA binding surface [nucleotide binding]; other site 882003318 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882003319 active site 882003320 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 882003321 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 882003322 CoA-binding site [chemical binding]; other site 882003323 ATP-binding [chemical binding]; other site 882003324 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882003325 active site 882003326 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 882003327 Sulfate transporter family; Region: Sulfate_transp; cl19250 882003328 replication factor A; Reviewed; Region: PRK07211 882003329 cytidylate kinase; Provisional; Region: cmk; PRK00023 882003330 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 882003331 CMP-binding site; other site 882003332 The sites determining sugar specificity; other site 882003333 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 882003334 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 882003335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882003336 homodimer interface [polypeptide binding]; other site 882003337 catalytic residue [active] 882003338 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 882003339 Ligand Binding Site [chemical binding]; other site 882003340 Competence-damaged protein; Region: CinA; pfam02464 882003341 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882003342 Glucokinase; Region: Glucokinase; pfam02685 882003343 Uncharacterized conserved protein [Function unknown]; Region: COG0398 882003344 mercuric reductase; Validated; Region: PRK06370 882003345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882003346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882003347 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 882003348 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 882003349 catalytic residues [active] 882003350 NosL; Region: NosL; cl01769 882003351 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 882003352 putative active site pocket [active] 882003353 4-fold oligomerization interface [polypeptide binding]; other site 882003354 metal binding residues [ion binding]; metal-binding site 882003355 3-fold/trimer interface [polypeptide binding]; other site 882003356 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 882003357 sec-independent translocase; Provisional; Region: tatB; PRK00404 882003358 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 882003359 GMP synthase; Reviewed; Region: guaA; PRK00074 882003360 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 882003361 AMP/PPi binding site [chemical binding]; other site 882003362 candidate oxyanion hole; other site 882003363 catalytic triad [active] 882003364 potential glutamine specificity residues [chemical binding]; other site 882003365 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 882003366 ATP Binding subdomain [chemical binding]; other site 882003367 Ligand Binding sites [chemical binding]; other site 882003368 Dimerization subdomain; other site 882003369 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 882003370 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 882003371 active site 882003372 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 882003373 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 882003374 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 882003375 binding surface 882003376 Tetratricopeptide repeat; Region: TPR_16; pfam13432 882003377 TPR motif; other site 882003378 TPR repeat; Region: TPR_11; pfam13414 882003379 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882003380 CcmB protein; Region: CcmB; cl17444 882003381 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 882003382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882003383 Walker A/P-loop; other site 882003384 ATP binding site [chemical binding]; other site 882003385 Q-loop/lid; other site 882003386 ABC transporter signature motif; other site 882003387 Walker B; other site 882003388 D-loop; other site 882003389 H-loop/switch region; other site 882003390 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 882003391 CcmE; Region: CcmE; cl00994 882003392 Domain of unknown function DUF21; Region: DUF21; pfam01595 882003393 FOG: CBS domain [General function prediction only]; Region: COG0517 882003394 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 882003395 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 882003396 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 882003397 active site 882003398 motif I; other site 882003399 motif II; other site 882003400 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 882003401 putative active site [active] 882003402 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882003403 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 882003404 Walker A/P-loop; other site 882003405 ATP binding site [chemical binding]; other site 882003406 Q-loop/lid; other site 882003407 ABC transporter signature motif; other site 882003408 Walker B; other site 882003409 D-loop; other site 882003410 H-loop/switch region; other site 882003411 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 882003412 cobalt transport protein CbiM; Validated; Region: PRK06265 882003413 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 882003414 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 882003415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882003416 homodimer interface [polypeptide binding]; other site 882003417 catalytic residue [active] 882003418 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882003419 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 882003420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882003421 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 882003422 AIR carboxylase; Region: AIRC; smart01001 882003423 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882003424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003425 active site 882003426 phosphorylation site [posttranslational modification] 882003427 intermolecular recognition site; other site 882003428 dimerization interface [polypeptide binding]; other site 882003429 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 882003430 Walker A motif; other site 882003431 ATP binding site [chemical binding]; other site 882003432 Walker B motif; other site 882003433 arginine finger; other site 882003434 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882003435 aconitate hydratase; Validated; Region: PRK07229 882003436 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 882003437 substrate binding site [chemical binding]; other site 882003438 ligand binding site [chemical binding]; other site 882003439 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 882003440 substrate binding site [chemical binding]; other site 882003441 SurA N-terminal domain; Region: SurA_N_3; cl07813 882003442 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 882003443 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 882003444 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 882003445 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882003446 active site 882003447 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 882003448 putative ligand binding site [chemical binding]; other site 882003449 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 882003450 TM-ABC transporter signature motif; other site 882003451 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 882003452 TM-ABC transporter signature motif; other site 882003453 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 882003454 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 882003455 Walker A/P-loop; other site 882003456 ATP binding site [chemical binding]; other site 882003457 Q-loop/lid; other site 882003458 ABC transporter signature motif; other site 882003459 Walker B; other site 882003460 D-loop; other site 882003461 H-loop/switch region; other site 882003462 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 882003463 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 882003464 EBNA-3B; Provisional; Region: PHA03378 882003465 Ribosomal protein L34; Region: Ribosomal_L34; pfam00468 882003466 Ribonuclease P; Region: Ribonuclease_P; pfam00825 882003467 Haemolytic domain; Region: Haemolytic; pfam01809 882003468 membrane protein insertase; Provisional; Region: PRK01318 882003469 YidC periplasmic domain; Region: YidC_periplas; pfam14849 882003470 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 882003471 Jag N-terminus; Region: Jag_N; pfam14804 882003472 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 882003473 G-X-X-G motif; other site 882003474 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 882003475 RxxxH motif; other site 882003476 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 882003477 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 882003478 trmE is a tRNA modification GTPase; Region: trmE; cd04164 882003479 G1 box; other site 882003480 GTP/Mg2+ binding site [chemical binding]; other site 882003481 Switch I region; other site 882003482 G2 box; other site 882003483 Switch II region; other site 882003484 G3 box; other site 882003485 G4 box; other site 882003486 G5 box; other site 882003487 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 882003488 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882003489 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882003490 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882003491 4Fe-4S binding domain; Region: Fer4_5; pfam12801 882003492 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882003493 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882003494 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 882003495 catalytic site [active] 882003496 putative active site [active] 882003497 putative substrate binding site [chemical binding]; other site 882003498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882003499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003500 active site 882003501 phosphorylation site [posttranslational modification] 882003502 intermolecular recognition site; other site 882003503 dimerization interface [polypeptide binding]; other site 882003504 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 882003505 DNA binding site [nucleotide binding] 882003506 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 882003507 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 882003508 Walker A/P-loop; other site 882003509 ATP binding site [chemical binding]; other site 882003510 Q-loop/lid; other site 882003511 ABC transporter signature motif; other site 882003512 Walker B; other site 882003513 D-loop; other site 882003514 H-loop/switch region; other site 882003515 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 882003516 PhoU domain; Region: PhoU; pfam01895 882003517 PhoU domain; Region: PhoU; pfam01895 882003518 XXXCH domain; Region: XXXCH_domain; TIGR04358 882003519 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 882003520 phosphate binding site [ion binding]; other site 882003521 putative substrate binding pocket [chemical binding]; other site 882003522 dimer interface [polypeptide binding]; other site 882003523 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 882003524 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 882003525 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 882003526 motif 1; other site 882003527 active site 882003528 motif 2; other site 882003529 motif 3; other site 882003530 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 882003531 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 882003532 DHHA1 domain; Region: DHHA1; pfam02272 882003533 recombinase A; Provisional; Region: recA; PRK09354 882003534 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 882003535 hexamer interface [polypeptide binding]; other site 882003536 Walker A motif; other site 882003537 ATP binding site [chemical binding]; other site 882003538 Walker B motif; other site 882003539 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 882003540 Ligand Binding Site [chemical binding]; other site 882003541 Domain of unknown function (DUF814); Region: DUF814; pfam05670 882003542 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 882003543 Na2 binding site [ion binding]; other site 882003544 putative substrate binding site 1 [chemical binding]; other site 882003545 Na binding site 1 [ion binding]; other site 882003546 putative substrate binding site 2 [chemical binding]; other site 882003547 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 882003548 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 882003549 active site 882003550 motif I; other site 882003551 motif II; other site 882003552 argininosuccinate lyase; Provisional; Region: PRK00855 882003553 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 882003554 active sites [active] 882003555 tetramer interface [polypeptide binding]; other site 882003556 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 882003557 ANP binding site [chemical binding]; other site 882003558 Substrate Binding Site II [chemical binding]; other site 882003559 Substrate Binding Site I [chemical binding]; other site 882003560 ornithine carbamoyltransferase; Provisional; Region: PRK00779 882003561 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882003562 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882003563 hypothetical protein; Provisional; Region: PRK04334 882003564 Mu-like bacteriophage. target-site duplication = AAGGC; PHAGE01 882003565 DNA methylase; Region: N6_N4_Mtase; cl17433 882003566 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 882003567 Phage Tail Collar Domain; Region: Collar; pfam07484 882003568 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 882003569 Baseplate J-like protein; Region: Baseplate_J; pfam04865 882003570 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882003571 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882003572 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 882003573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882003574 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882003575 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 882003576 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 882003577 Magnesium ion binding site [ion binding]; other site 882003578 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 882003579 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 882003580 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 882003581 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 882003582 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 882003583 Mu-like prophage I protein; Region: Mu-like_Pro; cl19864 882003584 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 882003585 Protein of unknown function (DUF935); Region: DUF935; pfam06074 882003586 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 882003587 Phage Terminase; Region: Terminase_1; cl19862 882003588 Terminase-like family; Region: Terminase_6; pfam03237 882003589 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 882003590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882003591 catalytic residue [active] 882003592 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 882003593 Helix-turn-helix domain; Region: HTH_17; pfam12728 882003594 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 882003595 DNA sequence specific (IHF) and non-specific (HU) domains; Region: HU_IHF; cd00591 882003596 DNA binding site [nucleotide binding] 882003597 dimer interface [polypeptide binding]; other site 882003598 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 882003599 AAA domain; Region: AAA_22; pfam13401 882003600 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882003601 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 882003602 Integrase core domain; Region: rve; pfam00665 882003603 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 882003604 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882003605 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 882003606 non-specific DNA binding site [nucleotide binding]; other site 882003607 salt bridge; other site 882003608 sequence-specific DNA binding site [nucleotide binding]; other site 882003609 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 882003610 Predicted transcriptional regulator [Transcription]; Region: COG2932 882003611 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 882003612 Catalytic site [active] 882003613 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 882003614 DHHW protein; Region: DHHW; pfam14286 882003615 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882003616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003617 active site 882003618 phosphorylation site [posttranslational modification] 882003619 intermolecular recognition site; other site 882003620 dimerization interface [polypeptide binding]; other site 882003621 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 882003622 Walker A motif; other site 882003623 ATP binding site [chemical binding]; other site 882003624 Walker B motif; other site 882003625 arginine finger; other site 882003626 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882003627 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 882003628 Na binding site [ion binding]; other site 882003629 PAS domain; Region: PAS_9; pfam13426 882003630 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882003631 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 882003632 dimer interface [polypeptide binding]; other site 882003633 phosphorylation site [posttranslational modification] 882003634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882003635 ATP binding site [chemical binding]; other site 882003636 Mg2+ binding site [ion binding]; other site 882003637 G-X-G motif; other site 882003638 Urea transporter; Region: UT; pfam03253 882003639 Zinc ribbon domain; Region: Zn-ribbon_8; pfam09723 882003640 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 882003641 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 882003642 putative substrate translocation pore; other site 882003643 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 882003644 multimer interface [polypeptide binding]; other site 882003645 active site 882003646 catalytic triad [active] 882003647 dimer interface [polypeptide binding]; other site 882003648 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882003649 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882003650 Cache domain; Region: Cache_1; pfam02743 882003651 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 882003652 dimerization interface [polypeptide binding]; other site 882003653 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882003654 PAS domain; Region: PAS_9; pfam13426 882003655 putative active site [active] 882003656 heme pocket [chemical binding]; other site 882003657 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882003658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882003659 dimer interface [polypeptide binding]; other site 882003660 putative CheW interface [polypeptide binding]; other site 882003661 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 882003662 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 882003663 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 882003664 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 882003665 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 882003666 Ubiquitin-like proteins; Region: UBQ; cl00155 882003667 charged pocket; other site 882003668 hydrophobic patch; other site 882003669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003670 active site 882003671 phosphorylation site [posttranslational modification] 882003672 intermolecular recognition site; other site 882003673 dimerization interface [polypeptide binding]; other site 882003674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882003675 Zn2+ binding site [ion binding]; other site 882003676 Mg2+ binding site [ion binding]; other site 882003677 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882003678 putative active site [active] 882003679 heme pocket [chemical binding]; other site 882003680 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 882003681 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882003682 Zn2+ binding site [ion binding]; other site 882003683 Mg2+ binding site [ion binding]; other site 882003684 Colicin V production protein; Region: Colicin_V; pfam02674 882003685 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 882003686 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 882003687 homodimer interface [polypeptide binding]; other site 882003688 metal binding site [ion binding]; metal-binding site 882003689 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 882003690 homodimer interface [polypeptide binding]; other site 882003691 active site 882003692 putative chemical substrate binding site [chemical binding]; other site 882003693 metal binding site [ion binding]; metal-binding site 882003694 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882003695 GAF domain; Region: GAF_2; pfam13185 882003696 PAS domain S-box; Region: sensory_box; TIGR00229 882003697 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882003698 putative active site [active] 882003699 heme pocket [chemical binding]; other site 882003700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882003701 metal binding site [ion binding]; metal-binding site 882003702 active site 882003703 I-site; other site 882003704 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 882003705 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 882003706 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 882003707 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 882003708 Walker A motif; other site 882003709 ATP binding site [chemical binding]; other site 882003710 Walker B motif; other site 882003711 arginine finger; other site 882003712 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882003713 Acylphosphatase; Region: Acylphosphatase; pfam00708 882003714 DNA repair protein radc; Region: radc; TIGR00608 882003715 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 882003716 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 882003717 MPN+ (JAMM) motif; other site 882003718 Zinc-binding site [ion binding]; other site 882003719 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 882003720 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 882003721 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 882003722 active site 882003723 HIGH motif; other site 882003724 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 882003725 KMSKS motif; other site 882003726 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 882003727 tRNA binding surface [nucleotide binding]; other site 882003728 transcription antitermination factor NusB; Region: nusB; TIGR01951 882003729 putative RNA binding site [nucleotide binding]; other site 882003730 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 882003731 homopentamer interface [polypeptide binding]; other site 882003732 active site 882003733 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 882003734 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 882003735 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 882003736 dimerization interface [polypeptide binding]; other site 882003737 active site 882003738 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 882003739 Lumazine binding domain; Region: Lum_binding; pfam00677 882003740 Lumazine binding domain; Region: Lum_binding; pfam00677 882003741 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 882003742 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 882003743 catalytic motif [active] 882003744 Zn binding site [ion binding]; other site 882003745 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 882003746 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 882003747 catalytic motif [active] 882003748 Zn binding site [ion binding]; other site 882003749 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 882003750 dimer interface [polypeptide binding]; other site 882003751 active site 882003752 glycine-pyridoxal phosphate binding site [chemical binding]; other site 882003753 folate binding site [chemical binding]; other site 882003754 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 882003755 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 882003756 dimer interface [polypeptide binding]; other site 882003757 active site 882003758 acyl carrier protein; Provisional; Region: acpP; PRK00982 882003759 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 882003760 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 882003761 NAD(P) binding site [chemical binding]; other site 882003762 homotetramer interface [polypeptide binding]; other site 882003763 homodimer interface [polypeptide binding]; other site 882003764 active site 882003765 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 882003766 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 882003767 dimer interface [polypeptide binding]; other site 882003768 active site 882003769 CoA binding pocket [chemical binding]; other site 882003770 putative phosphate acyltransferase; Provisional; Region: PRK05331 882003771 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 882003772 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 882003773 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 882003774 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 882003775 Rhomboid family; Region: Rhomboid; cl11446 882003776 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 882003777 Wnt and FGF inhibitory regulator; Region: Shisa; pfam13908 882003778 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 882003779 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 882003780 active site 882003781 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 882003782 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882003783 Domain of unknown function DUF77; Region: DUF77; pfam01910 882003784 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 882003785 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 882003786 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882003787 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 882003788 putative FMN binding site [chemical binding]; other site 882003789 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 882003790 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 882003791 YcaO-like family; Region: YcaO; pfam02624 882003792 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 882003793 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 882003794 AP (apurinic/apyrimidinic) site pocket; other site 882003795 DNA interaction; other site 882003796 Metal-binding active site; metal-binding site 882003797 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 882003798 dimer interface [polypeptide binding]; other site 882003799 catalytic triad [active] 882003800 peroxidatic and resolving cysteines [active] 882003801 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 882003802 Nitrogen regulatory protein P-II; Region: P-II; smart00938 882003803 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 882003804 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 882003805 metal binding triad; other site 882003806 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 882003807 HD domain; Region: HD; pfam01966 882003808 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 882003809 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 882003810 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882003811 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882003812 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882003813 Walker A/P-loop; other site 882003814 ATP binding site [chemical binding]; other site 882003815 Q-loop/lid; other site 882003816 ABC transporter signature motif; other site 882003817 Walker B; other site 882003818 D-loop; other site 882003819 H-loop/switch region; other site 882003820 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882003821 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 882003822 dimer interface [polypeptide binding]; other site 882003823 conserved gate region; other site 882003824 putative PBP binding loops; other site 882003825 ABC-ATPase subunit interface; other site 882003826 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882003827 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 882003828 substrate binding pocket [chemical binding]; other site 882003829 membrane-bound complex binding site; other site 882003830 hinge residues; other site 882003831 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 882003832 Cupin domain; Region: Cupin_2; cl17218 882003833 VacJ like lipoprotein; Region: VacJ; cl01073 882003834 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 882003835 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 882003836 mce related protein; Region: MCE; pfam02470 882003837 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 882003838 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 882003839 Walker A/P-loop; other site 882003840 ATP binding site [chemical binding]; other site 882003841 Q-loop/lid; other site 882003842 ABC transporter signature motif; other site 882003843 Walker B; other site 882003844 D-loop; other site 882003845 H-loop/switch region; other site 882003846 Permease; Region: Permease; pfam02405 882003847 cell division protein FtsN; Region: ftsN; TIGR02223 882003848 Sporulation related domain; Region: SPOR; pfam05036 882003849 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 882003850 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 882003851 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 882003852 active site 882003853 HIGH motif; other site 882003854 KMSK motif region; other site 882003855 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 882003856 tRNA binding surface [nucleotide binding]; other site 882003857 anticodon binding site; other site 882003858 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 882003859 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 882003860 S-adenosylmethionine binding site [chemical binding]; other site 882003861 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 882003862 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 882003863 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 882003864 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 882003865 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 882003866 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 882003867 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 882003868 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 882003869 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 882003870 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 882003871 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 882003872 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 882003873 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 882003874 Walker A motif; other site 882003875 ATP binding site [chemical binding]; other site 882003876 Walker B motif; other site 882003877 arginine finger; other site 882003878 Phage Tail Protein X; Region: Phage_tail_X; cl02088 882003879 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 882003880 Walker A motif; other site 882003881 ATP binding site [chemical binding]; other site 882003882 Walker B motif; other site 882003883 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 882003884 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 882003885 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 882003886 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 882003887 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 882003888 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 882003889 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882003890 catalytic residue [active] 882003891 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 882003892 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 882003893 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 882003894 Type II secretion system (T2SS), protein J; Region: T2SJ; cl19722 882003895 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 882003896 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 882003897 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 882003898 Walker A motif; other site 882003899 ATP binding site [chemical binding]; other site 882003900 Walker B motif; other site 882003901 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 882003902 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 882003903 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 882003904 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 882003905 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 882003906 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 882003907 Walker A motif; other site 882003908 ATP binding site [chemical binding]; other site 882003909 Walker B motif; other site 882003910 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 882003911 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 882003912 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 882003913 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 882003914 FtsH Extracellular; Region: FtsH_ext; pfam06480 882003915 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 882003916 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 882003917 Walker A motif; other site 882003918 ATP binding site [chemical binding]; other site 882003919 Walker B motif; other site 882003920 arginine finger; other site 882003921 Peptidase family M41; Region: Peptidase_M41; pfam01434 882003922 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 882003923 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 882003924 substrate binding pocket [chemical binding]; other site 882003925 dimer interface [polypeptide binding]; other site 882003926 inhibitor binding site; inhibition site 882003927 Uncharacterized conserved protein [Function unknown]; Region: COG1624 882003928 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 882003929 YbbR-like protein; Region: YbbR; pfam07949 882003930 YbbR-like protein; Region: YbbR; pfam07949 882003931 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 882003932 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 882003933 active site 882003934 substrate binding site [chemical binding]; other site 882003935 metal binding site [ion binding]; metal-binding site 882003936 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 882003937 active site 882003938 tetramer interface; other site 882003939 primosome assembly protein PriA; Validated; Region: PRK05580 882003940 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 882003941 ATP binding site [chemical binding]; other site 882003942 putative Mg++ binding site [ion binding]; other site 882003943 helicase superfamily c-terminal domain; Region: HELICc; smart00490 882003944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882003945 active site 882003946 phosphorylation site [posttranslational modification] 882003947 intermolecular recognition site; other site 882003948 dimerization interface [polypeptide binding]; other site 882003949 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 882003950 tetrathionate reductase subunit B; Provisional; Region: PRK14993 882003951 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882003952 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882003953 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882003954 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 882003955 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 882003956 Thioredoxin; Region: Thioredoxin_4; cl17273 882003957 Protein of unknown function DUF45; Region: DUF45; pfam01863 882003958 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 882003959 ATP-sulfurylase; Region: ATPS; cd00517 882003960 active site 882003961 HXXH motif; other site 882003962 flexible loop; other site 882003963 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 882003964 S17 interaction site [polypeptide binding]; other site 882003965 S8 interaction site; other site 882003966 16S rRNA interaction site [nucleotide binding]; other site 882003967 streptomycin interaction site [chemical binding]; other site 882003968 23S rRNA interaction site [nucleotide binding]; other site 882003969 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 882003970 30S ribosomal protein S7; Validated; Region: PRK05302 882003971 elongation factor G; Reviewed; Region: PRK00007 882003972 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 882003973 G1 box; other site 882003974 putative GEF interaction site [polypeptide binding]; other site 882003975 GTP/Mg2+ binding site [chemical binding]; other site 882003976 Switch I region; other site 882003977 G2 box; other site 882003978 G3 box; other site 882003979 Switch II region; other site 882003980 G4 box; other site 882003981 G5 box; other site 882003982 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 882003983 Elongation Factor G, domain II; Region: EFG_II; pfam14492 882003984 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 882003985 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 882003986 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 882003987 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 882003988 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 882003989 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 882003990 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 882003991 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 882003992 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 882003993 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 882003994 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 882003995 putative translocon binding site; other site 882003996 protein-rRNA interface [nucleotide binding]; other site 882003997 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 882003998 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 882003999 G-X-X-G motif; other site 882004000 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 882004001 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 882004002 23S rRNA interface [nucleotide binding]; other site 882004003 5S rRNA interface [nucleotide binding]; other site 882004004 putative antibiotic binding site [chemical binding]; other site 882004005 L25 interface [polypeptide binding]; other site 882004006 L27 interface [polypeptide binding]; other site 882004007 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 882004008 23S rRNA interface [nucleotide binding]; other site 882004009 putative translocon interaction site; other site 882004010 signal recognition particle (SRP54) interaction site; other site 882004011 L23 interface [polypeptide binding]; other site 882004012 trigger factor interaction site; other site 882004013 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 882004014 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 882004015 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 882004016 RNA binding site [nucleotide binding]; other site 882004017 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 882004018 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 882004019 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 882004020 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 882004021 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 882004022 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 882004023 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882004024 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882004025 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 882004026 23S rRNA interface [nucleotide binding]; other site 882004027 L21e interface [polypeptide binding]; other site 882004028 5S rRNA interface [nucleotide binding]; other site 882004029 L27 interface [polypeptide binding]; other site 882004030 L5 interface [polypeptide binding]; other site 882004031 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 882004032 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 882004033 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 882004034 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 882004035 23S rRNA binding site [nucleotide binding]; other site 882004036 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 882004037 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 882004038 SecY translocase; Region: SecY; pfam00344 882004039 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 882004040 active site 882004041 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 882004042 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 882004043 30S ribosomal protein S11; Validated; Region: PRK05309 882004044 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 882004045 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 882004046 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 882004047 RNA binding surface [nucleotide binding]; other site 882004048 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 882004049 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 882004050 alphaNTD - beta interaction site [polypeptide binding]; other site 882004051 alphaNTD homodimer interface [polypeptide binding]; other site 882004052 alphaNTD - beta' interaction site [polypeptide binding]; other site 882004053 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 882004054 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 882004055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882004056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882004057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882004058 dimerization interface [polypeptide binding]; other site 882004059 selenophosphate synthetase; Provisional; Region: PRK00943 882004060 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 882004061 dimerization interface [polypeptide binding]; other site 882004062 putative ATP binding site [chemical binding]; other site 882004063 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 882004064 trigger factor; Region: tig; TIGR00115 882004065 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 882004066 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 882004067 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 882004068 oligomer interface [polypeptide binding]; other site 882004069 active site residues [active] 882004070 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 882004071 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 882004072 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 882004073 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 882004074 Walker A motif; other site 882004075 ATP binding site [chemical binding]; other site 882004076 Walker B motif; other site 882004077 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 882004078 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 882004079 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 882004080 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 882004081 Walker A motif; other site 882004082 ATP binding site [chemical binding]; other site 882004083 Walker B motif; other site 882004084 arginine finger; other site 882004085 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882004086 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 882004087 metal binding site 2 [ion binding]; metal-binding site 882004088 putative DNA binding helix; other site 882004089 metal binding site 1 [ion binding]; metal-binding site 882004090 dimer interface [polypeptide binding]; other site 882004091 structural Zn2+ binding site [ion binding]; other site 882004092 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 882004093 ABC-ATPase subunit interface; other site 882004094 dimer interface [polypeptide binding]; other site 882004095 putative PBP binding regions; other site 882004096 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 882004097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882004098 Walker A/P-loop; other site 882004099 ATP binding site [chemical binding]; other site 882004100 Q-loop/lid; other site 882004101 ABC transporter signature motif; other site 882004102 Walker B; other site 882004103 D-loop; other site 882004104 H-loop/switch region; other site 882004105 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 882004106 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 882004107 intersubunit interface [polypeptide binding]; other site 882004108 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 882004109 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 882004110 prolyl-tRNA synthetase; Provisional; Region: PRK09194 882004111 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 882004112 dimer interface [polypeptide binding]; other site 882004113 motif 1; other site 882004114 active site 882004115 motif 2; other site 882004116 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 882004117 putative deacylase active site [active] 882004118 motif 3; other site 882004119 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 882004120 anticodon binding site; other site 882004121 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 882004122 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 882004123 generic binding surface II; other site 882004124 generic binding surface I; other site 882004125 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882004126 Peptidase family M23; Region: Peptidase_M23; pfam01551 882004127 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14067 882004128 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882004129 substrate binding pocket [chemical binding]; other site 882004130 chain length determination region; other site 882004131 active site lid residues [active] 882004132 substrate-Mg2+ binding site; other site 882004133 catalytic residues [active] 882004134 aspartate-rich region 1; other site 882004135 aspartate-rich region 2; other site 882004136 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 882004137 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 882004138 TPP-binding site; other site 882004139 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 882004140 PYR/PP interface [polypeptide binding]; other site 882004141 dimer interface [polypeptide binding]; other site 882004142 TPP binding site [chemical binding]; other site 882004143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882004144 MarC family integral membrane protein; Region: MarC; cl00919 882004145 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 882004146 active site 882004147 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 882004148 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 882004149 active site 882004150 PHP Thumb interface [polypeptide binding]; other site 882004151 metal binding site [ion binding]; metal-binding site 882004152 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 882004153 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 882004154 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 882004155 generic binding surface II; other site 882004156 generic binding surface I; other site 882004157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882004158 Zn2+ binding site [ion binding]; other site 882004159 Mg2+ binding site [ion binding]; other site 882004160 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 882004161 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 882004162 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 882004163 motif II; other site 882004164 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 882004165 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 882004166 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 882004167 NAD binding site [chemical binding]; other site 882004168 homodimer interface [polypeptide binding]; other site 882004169 active site 882004170 substrate binding site [chemical binding]; other site 882004171 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 882004172 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 882004173 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 882004174 NADP binding site [chemical binding]; other site 882004175 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 882004176 active site 882004177 putative substrate binding site [chemical binding]; other site 882004178 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 882004179 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 882004180 NAD binding site [chemical binding]; other site 882004181 substrate binding site [chemical binding]; other site 882004182 homodimer interface [polypeptide binding]; other site 882004183 active site 882004184 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 882004185 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 882004186 active site 882004187 C-terminal domain interface [polypeptide binding]; other site 882004188 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 882004189 active site 882004190 N-terminal domain interface [polypeptide binding]; other site 882004191 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 882004192 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 882004193 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 882004194 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 882004195 active site residue [active] 882004196 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 882004197 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 882004198 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 882004199 motif II; other site 882004200 YGGT family; Region: YGGT; pfam02325 882004201 DivIVA protein; Region: DivIVA; pfam05103 882004202 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 882004203 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 882004204 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882004205 PYR/PP interface [polypeptide binding]; other site 882004206 dimer interface [polypeptide binding]; other site 882004207 TPP binding site [chemical binding]; other site 882004208 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; cd00368 882004209 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 882004210 TPP-binding site [chemical binding]; other site 882004211 dimer interface [polypeptide binding]; other site 882004212 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 882004213 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882004214 putative valine binding site [chemical binding]; other site 882004215 dimer interface [polypeptide binding]; other site 882004216 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 882004217 ketol-acid reductoisomerase; Provisional; Region: PRK05479 882004218 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 882004219 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 882004220 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882004221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882004222 active site 882004223 Predicted integral membrane protein [Function unknown]; Region: COG0392 882004224 M28 Zn-Peptidases; Region: M28_like_3; cd05644 882004225 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 882004226 active site 882004227 metal binding site [ion binding]; metal-binding site 882004228 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 882004229 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882004230 substrate binding pocket [chemical binding]; other site 882004231 membrane-bound complex binding site; other site 882004232 hinge residues; other site 882004233 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 882004234 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 882004235 NlpC/P60 family; Region: NLPC_P60; pfam00877 882004236 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 882004237 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 882004238 Ferritin-like domain; Region: Ferritin; pfam00210 882004239 heme binding site [chemical binding]; other site 882004240 ferroxidase pore; other site 882004241 ferroxidase diiron center [ion binding]; other site 882004242 IS2 transposase TnpB; Reviewed; Region: PRK09409 882004243 HTH-like domain; Region: HTH_21; pfam13276 882004244 Integrase core domain; Region: rve; pfam00665 882004245 Integrase core domain; Region: rve_3; pfam13683 882004246 Transposase; Region: HTH_Tnp_1; cl17663 882004247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882004248 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 882004249 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 882004250 dimerization interface [polypeptide binding]; other site 882004251 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882004252 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882004253 dimer interface [polypeptide binding]; other site 882004254 putative CheW interface [polypeptide binding]; other site 882004255 Predicted permeases [General function prediction only]; Region: COG0679 882004256 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 882004257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882004258 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 882004259 dimerization interface [polypeptide binding]; other site 882004260 substrate binding pocket [chemical binding]; other site 882004261 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 882004262 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 882004263 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 882004264 FeS/SAM binding site; other site 882004265 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 882004266 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 882004267 dimerization interface [polypeptide binding]; other site 882004268 putative ATP binding site [chemical binding]; other site 882004269 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 882004270 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882004271 FeS/SAM binding site; other site 882004272 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 882004273 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 882004274 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 882004275 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 882004276 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 882004277 putative ligand binding site [chemical binding]; other site 882004278 putative NAD binding site [chemical binding]; other site 882004279 catalytic site [active] 882004280 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 882004281 putative ligand binding site [chemical binding]; other site 882004282 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 882004283 dimerization interface [polypeptide binding]; other site 882004284 PAS domain; Region: PAS_9; pfam13426 882004285 PAS domain S-box; Region: sensory_box; TIGR00229 882004286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882004287 putative active site [active] 882004288 heme pocket [chemical binding]; other site 882004289 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882004290 metal binding site [ion binding]; metal-binding site 882004291 active site 882004292 I-site; other site 882004293 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 882004294 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 882004295 AsmA family; Region: AsmA; pfam05170 882004296 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 882004297 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882004298 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882004299 putative active site [active] 882004300 heme pocket [chemical binding]; other site 882004301 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 882004302 dimer interface [polypeptide binding]; other site 882004303 phosphorylation site [posttranslational modification] 882004304 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882004305 ATP binding site [chemical binding]; other site 882004306 Mg2+ binding site [ion binding]; other site 882004307 G-X-G motif; other site 882004308 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882004309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004310 active site 882004311 phosphorylation site [posttranslational modification] 882004312 intermolecular recognition site; other site 882004313 dimerization interface [polypeptide binding]; other site 882004314 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 882004315 Walker A motif; other site 882004316 ATP binding site [chemical binding]; other site 882004317 Walker B motif; other site 882004318 arginine finger; other site 882004319 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882004320 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 882004321 putative binding surface; other site 882004322 active site 882004323 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 882004324 metal ion-dependent adhesion site (MIDAS); other site 882004325 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 882004326 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882004327 ligand binding site [chemical binding]; other site 882004328 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 882004329 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882004330 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 882004331 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 882004332 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882004333 catalytic residue [active] 882004334 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 882004335 tetramer interface [polypeptide binding]; other site 882004336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882004337 catalytic residue [active] 882004338 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 882004339 lipoyl attachment site [posttranslational modification]; other site 882004340 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882004341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004342 active site 882004343 phosphorylation site [posttranslational modification] 882004344 intermolecular recognition site; other site 882004345 dimerization interface [polypeptide binding]; other site 882004346 phosphoglucomutase; Validated; Region: PRK07564 882004347 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 882004348 active site 882004349 substrate binding site [chemical binding]; other site 882004350 metal binding site [ion binding]; metal-binding site 882004351 GTP-binding protein YchF; Reviewed; Region: PRK09601 882004352 YchF GTPase; Region: YchF; cd01900 882004353 G1 box; other site 882004354 GTP/Mg2+ binding site [chemical binding]; other site 882004355 Switch I region; other site 882004356 G2 box; other site 882004357 Switch II region; other site 882004358 G3 box; other site 882004359 G4 box; other site 882004360 G5 box; other site 882004361 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 882004362 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882004363 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 882004364 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882004365 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882004366 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882004367 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 882004368 putative binding surface; other site 882004369 active site 882004370 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 882004371 anti sigma factor interaction site; other site 882004372 regulatory phosphorylation site [posttranslational modification]; other site 882004373 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 882004374 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 882004375 FeS/SAM binding site; other site 882004376 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 882004377 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 882004378 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882004379 putative substrate translocation pore; other site 882004380 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 882004381 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 882004382 DRTGG domain; Region: DRTGG; pfam07085 882004383 ribonuclease III; Reviewed; Region: rnc; PRK00102 882004384 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 882004385 dimerization interface [polypeptide binding]; other site 882004386 active site 882004387 metal binding site [ion binding]; metal-binding site 882004388 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 882004389 dsRNA binding site [nucleotide binding]; other site 882004390 flagellin; Reviewed; Region: PRK08869 882004391 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882004392 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882004393 FlaG protein; Region: FlaG; cl00591 882004394 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 882004395 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882004396 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 882004397 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 882004398 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882004399 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 882004400 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 882004401 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 882004402 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 882004403 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 882004404 putative active site [active] 882004405 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 882004406 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 882004407 Protein of unknown function (DUF342); Region: DUF342; pfam03961 882004408 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 882004409 anti sigma factor interaction site; other site 882004410 regulatory phosphorylation site [posttranslational modification]; other site 882004411 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 882004412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882004413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004414 active site 882004415 phosphorylation site [posttranslational modification] 882004416 intermolecular recognition site; other site 882004417 dimerization interface [polypeptide binding]; other site 882004418 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 882004419 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 882004420 putative active site [active] 882004421 dimerization interface [polypeptide binding]; other site 882004422 putative tRNAtyr binding site [nucleotide binding]; other site 882004423 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 882004424 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 882004425 acyl-activating enzyme (AAE) consensus motif; other site 882004426 putative AMP binding site [chemical binding]; other site 882004427 putative active site [active] 882004428 putative CoA binding site [chemical binding]; other site 882004429 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 882004430 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 882004431 substrate binding site; other site 882004432 dimer interface; other site 882004433 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 882004434 homotrimer interaction site [polypeptide binding]; other site 882004435 zinc binding site [ion binding]; other site 882004436 CDP-binding sites; other site 882004437 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 882004438 Putative zinc ribbon domain; Region: DUF164; pfam02591 882004439 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 882004440 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 882004441 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882004442 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882004443 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 882004444 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 882004445 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 882004446 Ligand Binding Site [chemical binding]; other site 882004447 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 882004448 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 882004449 tRNA; other site 882004450 putative tRNA binding site [nucleotide binding]; other site 882004451 putative NADP binding site [chemical binding]; other site 882004452 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 882004453 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882004454 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 882004455 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 882004456 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 882004457 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 882004458 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 882004459 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 882004460 feedback inhibition sensing region; other site 882004461 homohexameric interface [polypeptide binding]; other site 882004462 nucleotide binding site [chemical binding]; other site 882004463 N-acetyl-L-glutamate binding site [chemical binding]; other site 882004464 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 882004465 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 882004466 Walker A motif; other site 882004467 ATP binding site [chemical binding]; other site 882004468 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 882004469 Walker B motif; other site 882004470 arginine finger; other site 882004471 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 882004472 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 882004473 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 882004474 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 882004475 protein binding site [polypeptide binding]; other site 882004476 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 882004477 protein binding site [polypeptide binding]; other site 882004478 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 882004479 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 882004480 RNA binding site [nucleotide binding]; other site 882004481 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 882004482 RNA binding site [nucleotide binding]; other site 882004483 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 882004484 RNA binding site [nucleotide binding]; other site 882004485 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 882004486 RNA binding site [nucleotide binding]; other site 882004487 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 882004488 RNA binding site [nucleotide binding]; other site 882004489 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 882004490 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 882004491 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882004492 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 882004493 putative dimer interface [polypeptide binding]; other site 882004494 AAA domain; Region: AAA_32; pfam13654 882004495 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882004496 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 882004497 PhoU domain; Region: PhoU; pfam01895 882004498 PhoU domain; Region: PhoU; pfam01895 882004499 lysogenic bacteriophage with hits to lambdoid phages. insertion into tRNA-Ser-4. attL/R=CACCCTCTCCGCCATAC; PHAGE02 882004500 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 882004501 Double zinc ribbon; Region: DZR; pfam12773 882004502 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 882004503 Staphylococcal nuclease homologues; Region: SNc; smart00318 882004504 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 882004505 Catalytic site; other site 882004506 Phage-related protein, tail component [Function unknown]; Region: COG4733 882004507 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 882004508 NlpC/P60 family; Region: NLPC_P60; cl17555 882004509 Phage-related minor tail protein [Function unknown]; Region: COG5281 882004510 tape measure domain; Region: tape_meas_nterm; TIGR02675 882004511 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 882004512 YcfA-like protein; Region: YcfA; pfam07927 882004513 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 882004514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 882004515 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 882004516 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 882004517 Bacteriophage HK97-gp10, putative tail-component; Region: HK97-gp10_like; pfam04883 882004518 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 882004519 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 882004520 oligomerization interface [polypeptide binding]; other site 882004521 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 882004522 Phage capsid family; Region: Phage_capsid; pfam05065 882004523 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 882004524 oligomer interface [polypeptide binding]; other site 882004525 active site residues [active] 882004526 Phage portal protein; Region: Phage_portal; pfam04860 882004527 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 882004528 Phage Terminase; Region: Terminase_1; cl19862 882004529 Phage terminase, small subunit; Region: Terminase_4; pfam05119 882004530 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 882004531 active site 882004532 virion protein; Provisional; Region: V; PHA02564 882004533 PemK-like protein; Region: PemK; pfam02452 882004534 Phage terminase large subunit (GpA); Region: Terminase_GpA; cl19377 882004535 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 882004536 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 882004537 cofactor binding site; other site 882004538 DNA binding site [nucleotide binding] 882004539 substrate interaction site [chemical binding]; other site 882004540 Helix-turn-helix domain; Region: HTH_38; pfam13936 882004541 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882004542 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 882004543 non-specific DNA binding site [nucleotide binding]; other site 882004544 salt bridge; other site 882004545 sequence-specific DNA binding site [nucleotide binding]; other site 882004546 Predicted transcriptional regulator [Transcription]; Region: COG2932 882004547 Helix-turn-helix domain; Region: HTH_38; pfam13936 882004548 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 882004549 Catalytic site [active] 882004550 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 882004551 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]; Region: COG2888; cl19729 882004552 integrase; Provisional; Region: PRK09692 882004553 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 882004554 active site 882004555 Int/Topo IB signature motif; other site 882004556 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 882004557 nucleoside/Zn binding site; other site 882004558 dimer interface [polypeptide binding]; other site 882004559 catalytic motif [active] 882004560 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 882004561 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 882004562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882004563 Beta-Casp domain; Region: Beta-Casp; smart01027 882004564 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 882004565 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 882004566 S-adenosylmethionine binding site [chemical binding]; other site 882004567 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 882004568 active site 882004569 (T/H)XGH motif; other site 882004570 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 882004571 Sulphur transport; Region: Sulf_transp; cl19477 882004572 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 882004573 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882004574 catalytic residue [active] 882004575 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 882004576 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 882004577 putative active site [active] 882004578 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 882004579 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 882004580 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 882004581 putative active site [active] 882004582 putative substrate binding site [chemical binding]; other site 882004583 putative cosubstrate binding site; other site 882004584 catalytic site [active] 882004585 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 882004586 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 882004587 ATP binding site [chemical binding]; other site 882004588 putative Mg++ binding site [ion binding]; other site 882004589 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 882004590 nucleotide binding region [chemical binding]; other site 882004591 ATP-binding site [chemical binding]; other site 882004592 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 882004593 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 882004594 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 882004595 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882004596 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 882004597 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 882004598 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882004599 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882004600 putative active site [active] 882004601 heme pocket [chemical binding]; other site 882004602 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882004603 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882004604 putative active site [active] 882004605 heme pocket [chemical binding]; other site 882004606 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 882004607 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 882004608 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 882004609 S-adenosylmethionine binding site [chemical binding]; other site 882004610 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 882004611 catalytic core [active] 882004612 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 882004613 Ligand binding site; other site 882004614 metal-binding site 882004615 HD domain; Region: HD; pfam01966 882004616 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 882004617 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 882004618 XdhC Rossmann domain; Region: XdhC_C; pfam13478 882004619 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882004620 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 882004621 acyl-activating enzyme (AAE) consensus motif; other site 882004622 active site 882004623 AMP binding site [chemical binding]; other site 882004624 CoA binding site [chemical binding]; other site 882004625 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 882004626 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 882004627 FeS/SAM binding site; other site 882004628 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 882004629 Methyltransferase domain; Region: Methyltransf_31; pfam13847 882004630 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 882004631 S-adenosylmethionine binding site [chemical binding]; other site 882004632 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 882004633 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882004634 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882004635 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882004636 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882004637 Cysteine-rich domain; Region: CCG; pfam02754 882004638 Cysteine-rich domain; Region: CCG; pfam02754 882004639 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 882004640 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 882004641 catalytic loop [active] 882004642 iron binding site [ion binding]; other site 882004643 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 882004644 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 882004645 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 882004646 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 882004647 putative MPT binding site; other site 882004648 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 882004649 Cache domain; Region: Cache_1; pfam02743 882004650 GAF domain; Region: GAF; cl17456 882004651 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882004652 Zn2+ binding site [ion binding]; other site 882004653 Mg2+ binding site [ion binding]; other site 882004654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882004655 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882004656 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882004657 PAS domain; Region: PAS; smart00091 882004658 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882004659 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 882004660 dimer interface [polypeptide binding]; other site 882004661 phosphorylation site [posttranslational modification] 882004662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882004663 ATP binding site [chemical binding]; other site 882004664 Mg2+ binding site [ion binding]; other site 882004665 G-X-G motif; other site 882004666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004667 active site 882004668 phosphorylation site [posttranslational modification] 882004669 intermolecular recognition site; other site 882004670 dimerization interface [polypeptide binding]; other site 882004671 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 882004672 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 882004673 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 882004674 Active Sites [active] 882004675 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 882004676 Ferritin-like domain; Region: Ferritin; pfam00210 882004677 ferroxidase diiron center [ion binding]; other site 882004678 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 882004679 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 882004680 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 882004681 dimer interface [polypeptide binding]; other site 882004682 PYR/PP interface [polypeptide binding]; other site 882004683 TPP binding site [chemical binding]; other site 882004684 substrate binding site [chemical binding]; other site 882004685 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 882004686 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 882004687 TPP-binding site [chemical binding]; other site 882004688 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 882004689 transcription termination factor Rho; Provisional; Region: rho; PRK09376 882004690 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 882004691 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 882004692 RNA binding site [nucleotide binding]; other site 882004693 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 882004694 multimer interface [polypeptide binding]; other site 882004695 Walker A motif; other site 882004696 ATP binding site [chemical binding]; other site 882004697 Walker B motif; other site 882004698 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 882004699 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 882004700 putative active site [active] 882004701 catalytic residue [active] 882004702 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 882004703 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 882004704 5S rRNA interface [nucleotide binding]; other site 882004705 CTC domain interface [polypeptide binding]; other site 882004706 L16 interface [polypeptide binding]; other site 882004707 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 882004708 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 882004709 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 882004710 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882004711 active site 882004712 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 882004713 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 882004714 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 882004715 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 882004716 active site 882004717 HslU subunit interaction site [polypeptide binding]; other site 882004718 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 882004719 Peptidase family M48; Region: Peptidase_M48; cl12018 882004720 TPR repeat; Region: TPR_11; pfam13414 882004721 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 882004722 binding surface 882004723 TPR motif; other site 882004724 Tetratricopeptide repeat; Region: TPR_16; pfam13432 882004725 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 882004726 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 882004727 active site 882004728 HIGH motif; other site 882004729 KMSKS motif; other site 882004730 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 882004731 tRNA binding surface [nucleotide binding]; other site 882004732 anticodon binding site; other site 882004733 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 882004734 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 882004735 TPR motif; other site 882004736 binding surface 882004737 Tetratricopeptide repeat; Region: TPR_19; pfam14559 882004738 TPR repeat; Region: TPR_11; pfam13414 882004739 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 882004740 binding surface 882004741 TPR motif; other site 882004742 Tetratricopeptide repeat; Region: TPR_16; pfam13432 882004743 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 882004744 TPR motif; other site 882004745 binding surface 882004746 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 882004747 binding surface 882004748 TPR motif; other site 882004749 TPR repeat; Region: TPR_11; pfam13414 882004750 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 882004751 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 882004752 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882004753 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882004754 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 882004755 DNA binding residues [nucleotide binding] 882004756 Homocysteine S-methyltransferase; Region: S-methyl_trans; cl14105 882004757 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 882004758 substrate binding pocket [chemical binding]; other site 882004759 dimer interface [polypeptide binding]; other site 882004760 inhibitor binding site; inhibition site 882004761 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 882004762 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 882004763 B12 binding site [chemical binding]; other site 882004764 cobalt ligand [ion binding]; other site 882004765 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 882004766 catalytic residues [active] 882004767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882004768 Coenzyme A binding pocket [chemical binding]; other site 882004769 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882004770 active site 882004771 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 882004772 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 882004773 DNA repair protein RadA; Provisional; Region: PRK11823 882004774 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 882004775 Walker A motif; other site 882004776 ATP binding site [chemical binding]; other site 882004777 Walker B motif; other site 882004778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882004779 putative CheW interface [polypeptide binding]; other site 882004780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004781 active site 882004782 phosphorylation site [posttranslational modification] 882004783 intermolecular recognition site; other site 882004784 dimerization interface [polypeptide binding]; other site 882004785 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 882004786 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 882004787 putative binding surface; other site 882004788 active site 882004789 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 882004790 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882004791 ATP binding site [chemical binding]; other site 882004792 Mg2+ binding site [ion binding]; other site 882004793 G-X-G motif; other site 882004794 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 882004795 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 882004796 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 882004797 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 882004798 S-adenosylmethionine binding site [chemical binding]; other site 882004799 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 882004800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882004801 active site 882004802 phosphorylation site [posttranslational modification] 882004803 intermolecular recognition site; other site 882004804 dimerization interface [polypeptide binding]; other site 882004805 CheB methylesterase; Region: CheB_methylest; pfam01339 882004806 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 882004807 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882004808 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 882004809 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 882004810 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 882004811 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 882004812 putative active site [active] 882004813 putative metal binding residues [ion binding]; other site 882004814 signature motif; other site 882004815 putative triphosphate binding site [ion binding]; other site 882004816 dimer interface [polypeptide binding]; other site 882004817 Uncharacterized conserved protein [Function unknown]; Region: COG2127 882004818 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 882004819 Clp amino terminal domain; Region: Clp_N; pfam02861 882004820 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 882004821 Walker A motif; other site 882004822 ATP binding site [chemical binding]; other site 882004823 Walker B motif; other site 882004824 arginine finger; other site 882004825 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 882004826 Walker A motif; other site 882004827 ATP binding site [chemical binding]; other site 882004828 Walker B motif; other site 882004829 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882004830 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 882004831 excinuclease ABC subunit B; Provisional; Region: PRK05298 882004832 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 882004833 ATP binding site [chemical binding]; other site 882004834 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 882004835 nucleotide binding region [chemical binding]; other site 882004836 ATP-binding site [chemical binding]; other site 882004837 Ultra-violet resistance protein B; Region: UvrB; pfam12344 882004838 UvrB/uvrC motif; Region: UVR; pfam02151 882004839 Ion channel; Region: Ion_trans_2; pfam07885 882004840 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 882004841 TrkA-N domain; Region: TrkA_N; pfam02254 882004842 TrkA-C domain; Region: TrkA_C; pfam02080 882004843 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 882004844 active site 882004845 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 882004846 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 882004847 nucleotide binding pocket [chemical binding]; other site 882004848 K-X-D-G motif; other site 882004849 catalytic site [active] 882004850 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 882004851 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 882004852 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 882004853 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 882004854 Dimer interface [polypeptide binding]; other site 882004855 dihydrodipicolinate reductase; Provisional; Region: PRK00048 882004856 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 882004857 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 882004858 NAD synthetase; Provisional; Region: PRK13981 882004859 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 882004860 multimer interface [polypeptide binding]; other site 882004861 active site 882004862 catalytic triad [active] 882004863 protein interface 1 [polypeptide binding]; other site 882004864 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 882004865 homodimer interface [polypeptide binding]; other site 882004866 NAD binding pocket [chemical binding]; other site 882004867 ATP binding pocket [chemical binding]; other site 882004868 Mg binding site [ion binding]; other site 882004869 active-site loop [active] 882004870 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 882004871 putative [4Fe-4S] binding site [ion binding]; other site 882004872 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 882004873 putative molybdopterin cofactor binding site [chemical binding]; other site 882004874 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 882004875 molybdopterin cofactor binding site; other site 882004876 ACT domain-containing protein [General function prediction only]; Region: COG4747 882004877 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 882004878 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 882004879 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 882004880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882004881 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882004882 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 882004883 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882004884 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882004885 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 882004886 acyl-activating enzyme (AAE) consensus motif; other site 882004887 AMP binding site [chemical binding]; other site 882004888 active site 882004889 CoA binding site [chemical binding]; other site 882004890 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 882004891 FMN binding site [chemical binding]; other site 882004892 dimer interface [polypeptide binding]; other site 882004893 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 882004894 phosphoglyceromutase; Provisional; Region: PRK05434 882004895 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 882004896 putative active site [active] 882004897 catalytic triad [active] 882004898 CTP synthetase; Validated; Region: pyrG; PRK05380 882004899 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 882004900 Catalytic site [active] 882004901 active site 882004902 UTP binding site [chemical binding]; other site 882004903 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 882004904 active site 882004905 putative oxyanion hole; other site 882004906 catalytic triad [active] 882004907 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 882004908 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 882004909 Lipopolysaccharide-assembly, LptC-related; Region: LptC; cl01200 882004910 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 882004911 OstA-like protein; Region: OstA; cl00844 882004912 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 882004913 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 882004914 Walker A/P-loop; other site 882004915 ATP binding site [chemical binding]; other site 882004916 Q-loop/lid; other site 882004917 ABC transporter signature motif; other site 882004918 Walker B; other site 882004919 D-loop; other site 882004920 H-loop/switch region; other site 882004921 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 882004922 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 882004923 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 882004924 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 882004925 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 882004926 30S subunit binding site; other site 882004927 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 882004928 active site 882004929 phosphorylation site [posttranslational modification] 882004930 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 882004931 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882004932 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 882004933 active pocket/dimerization site; other site 882004934 active site 882004935 phosphorylation site [posttranslational modification] 882004936 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 882004937 active site 882004938 phosphorylation site [posttranslational modification] 882004939 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 882004940 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 882004941 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 882004942 DHHA2 domain; Region: DHHA2; pfam02833 882004943 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 882004944 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 882004945 region of former lysogenic bacteriophage. attL/R=NONE; PHAGE03 882004946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882004947 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 882004948 Predicted permeases [General function prediction only]; Region: COG0701 882004949 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882004950 dimerization interface [polypeptide binding]; other site 882004951 putative DNA binding site [nucleotide binding]; other site 882004952 putative Zn2+ binding site [ion binding]; other site 882004953 Low molecular weight phosphatase family; Region: LMWPc; cd00115 882004954 active site 882004955 diaminopimelate decarboxylase; Region: lysA; TIGR01048 882004956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 882004957 active site 882004958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882004959 substrate binding site [chemical binding]; other site 882004960 catalytic residues [active] 882004961 dimer interface [polypeptide binding]; other site 882004962 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 882004963 MutS domain I; Region: MutS_I; pfam01624 882004964 MutS domain II; Region: MutS_II; pfam05188 882004965 MutS domain III; Region: MutS_III; pfam05192 882004966 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 882004967 Walker A/P-loop; other site 882004968 ATP binding site [chemical binding]; other site 882004969 Q-loop/lid; other site 882004970 ABC transporter signature motif; other site 882004971 Walker B; other site 882004972 D-loop; other site 882004973 H-loop/switch region; other site 882004974 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 882004975 TPR motif; other site 882004976 binding surface 882004977 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 882004978 binding surface 882004979 TPR motif; other site 882004980 TPR repeat; Region: TPR_11; pfam13414 882004981 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 882004982 TPR motif; other site 882004983 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 882004984 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 882004985 nucleotide binding site/active site [active] 882004986 HIT family signature motif; other site 882004987 catalytic residue [active] 882004988 DHH family; Region: DHH; pfam01368 882004989 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 882004990 DHHA1 domain; Region: DHHA1; pfam02272 882004991 FOG: CBS domain [General function prediction only]; Region: COG0517 882004992 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 882004993 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 882004994 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 882004995 active site 882004996 NTP binding site [chemical binding]; other site 882004997 metal binding triad [ion binding]; metal-binding site 882004998 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882004999 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 882005000 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 882005001 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 882005002 active site 882005003 Int/Topo IB signature motif; other site 882005004 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 882005005 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 882005006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882005007 homodimer interface [polypeptide binding]; other site 882005008 catalytic residue [active] 882005009 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 882005010 catalytic center binding site [active] 882005011 ATP binding site [chemical binding]; other site 882005012 metallochaperone-like domain; Region: TRASH; smart00746 882005013 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 882005014 active site 882005015 intersubunit interactions; other site 882005016 catalytic residue [active] 882005017 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 882005018 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 882005019 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 882005020 Predicted GTPase [General function prediction only]; Region: COG0218 882005021 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 882005022 G1 box; other site 882005023 GTP/Mg2+ binding site [chemical binding]; other site 882005024 Switch I region; other site 882005025 G2 box; other site 882005026 G3 box; other site 882005027 Switch II region; other site 882005028 G4 box; other site 882005029 G5 box; other site 882005030 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 882005031 trimer interface [polypeptide binding]; other site 882005032 active site 882005033 dimer interface [polypeptide binding]; other site 882005034 elongation factor P; Validated; Region: PRK00529 882005035 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 882005036 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 882005037 RNA binding site [nucleotide binding]; other site 882005038 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 882005039 RNA binding site [nucleotide binding]; other site 882005040 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 882005041 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 882005042 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 882005043 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 882005044 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 882005045 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 882005046 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 882005047 RNA binding surface [nucleotide binding]; other site 882005048 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 882005049 active site 882005050 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 882005051 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 882005052 CPxP motif; other site 882005053 DsrE/DsrF-like family; Region: DrsE; pfam02635 882005054 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 882005055 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 882005056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882005057 Walker A/P-loop; other site 882005058 ATP binding site [chemical binding]; other site 882005059 Q-loop/lid; other site 882005060 ABC transporter signature motif; other site 882005061 Walker B; other site 882005062 D-loop; other site 882005063 H-loop/switch region; other site 882005064 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 882005065 putative acyl-acceptor binding pocket; other site 882005066 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 882005067 putative acyl-acceptor binding pocket; other site 882005068 Predicted transcriptional regulator [Transcription]; Region: COG2932 882005069 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 882005070 Catalytic site [active] 882005071 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 882005072 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 882005073 substrate binding site [chemical binding]; other site 882005074 dimer interface [polypeptide binding]; other site 882005075 catalytic triad [active] 882005076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 882005077 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 882005078 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 882005079 nudix motif; other site 882005080 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 882005081 active site 882005082 dimerization interface [polypeptide binding]; other site 882005083 rod shape-determining protein MreB; Provisional; Region: PRK13930 882005084 MreB and similar proteins; Region: MreB_like; cd10225 882005085 nucleotide binding site [chemical binding]; other site 882005086 Mg binding site [ion binding]; other site 882005087 putative protofilament interaction site [polypeptide binding]; other site 882005088 RodZ interaction site [polypeptide binding]; other site 882005089 GAF domain; Region: GAF_2; pfam13185 882005090 GAF domain; Region: GAF_3; pfam13492 882005091 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 882005092 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 882005093 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 882005094 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 882005095 recombination factor protein RarA; Reviewed; Region: PRK13342 882005096 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 882005097 Walker A motif; other site 882005098 ATP binding site [chemical binding]; other site 882005099 Walker B motif; other site 882005100 arginine finger; other site 882005101 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 882005102 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882005103 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 882005104 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 882005105 putative acyl-acceptor binding pocket; other site 882005106 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882005107 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882005108 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 882005109 active site 882005110 nucleotide binding site [chemical binding]; other site 882005111 HIGH motif; other site 882005112 KMSKS motif; other site 882005113 lysogenic bacteriophage with hits to lambdoid phages; insertion into tRNA-Gly-3; attL/R=ATGGTGCGCCTGACAAGAATCGAACTTGTGGCCTAGCGCTTAGGAGGCGCT ; PHAGE04 882005114 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 882005115 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 882005116 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 882005117 NAD binding site [chemical binding]; other site 882005118 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 882005119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 882005120 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 882005121 Protein of unknown function DUF45; Region: DUF45; pfam01863 882005122 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 882005123 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 882005124 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 882005125 ATP binding site [chemical binding]; other site 882005126 putative Mg++ binding site [ion binding]; other site 882005127 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 882005128 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 882005129 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 882005130 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 882005131 Virulence protein RhuM family; Region: Virulence_RhuM; cl19850 882005132 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 882005133 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 882005134 HsdM N-terminal domain; Region: HsdM_N; pfam12161 882005135 Methyltransferase domain; Region: Methyltransf_26; pfam13659 882005136 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 882005137 hypothetical protein; Region: PHA00661 882005138 hypothetical protein; Region: PHA00662 882005139 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 882005140 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 882005141 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 882005142 DNA-binding interface [nucleotide binding]; DNA binding site 882005143 virion protein; Provisional; Region: V; PHA02564 882005144 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 882005145 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 882005146 non-specific DNA binding site [nucleotide binding]; other site 882005147 salt bridge; other site 882005148 sequence-specific DNA binding site [nucleotide binding]; other site 882005149 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 882005150 active site 882005151 DNA binding site [nucleotide binding] 882005152 Int/Topo IB signature motif; other site 882005153 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 882005154 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 882005155 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882005156 non-specific DNA binding site [nucleotide binding]; other site 882005157 salt bridge; other site 882005158 sequence-specific DNA binding site [nucleotide binding]; other site 882005159 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 882005160 non-specific DNA binding site [nucleotide binding]; other site 882005161 salt bridge; other site 882005162 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882005163 sequence-specific DNA binding site [nucleotide binding]; other site 882005164 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 882005165 cofactor binding site; other site 882005166 DNA binding site [nucleotide binding] 882005167 substrate interaction site [chemical binding]; other site 882005168 Histidine kinase-like ATPases; This family includes several ATP-binding 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 882005169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882005170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882005171 ATP binding site [chemical binding]; other site 882005172 Mg2+ binding site [ion binding]; other site 882005173 G-X-G motif; other site 882005174 T5orf172 domain; Region: T5orf172; pfam10544 882005175 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 882005176 DNA polymerase II large subunit; Validated; Region: PRK04023 882005177 Helix-turn-helix domain; Region: HTH_17; pfam12728 882005178 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 882005179 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 882005180 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 882005181 active site 882005182 catalytic residues [active] 882005183 DNA binding site [nucleotide binding] 882005184 Int/Topo IB signature motif; other site 882005185 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 882005186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882005187 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882005188 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882005189 hypothetical protein; Provisional; Region: PRK11770 882005190 Domain of unknown function (DUF307); Region: DUF307; pfam03733 882005191 Domain of unknown function (DUF307); Region: DUF307; pfam03733 882005192 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 882005193 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 882005194 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 882005195 FeS/SAM binding site; other site 882005196 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 882005197 aspartate ammonia-lyase; Provisional; Region: PRK13353 882005198 Aspartase; Region: Aspartase; cd01357 882005199 active sites [active] 882005200 tetramer interface [polypeptide binding]; other site 882005201 biotin synthase; Provisional; Region: PRK07094 882005202 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 882005203 FeS/SAM binding site; other site 882005204 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 882005205 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 882005206 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 882005207 G1 box; other site 882005208 GTP/Mg2+ binding site [chemical binding]; other site 882005209 Switch I region; other site 882005210 G2 box; other site 882005211 Switch II region; other site 882005212 G3 box; other site 882005213 G4 box; other site 882005214 G5 box; other site 882005215 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 882005216 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882005217 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 882005218 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 882005219 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 882005220 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 882005221 catalytic loop [active] 882005222 iron binding site [ion binding]; other site 882005223 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 882005224 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 882005225 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882005226 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 882005227 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 882005228 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 882005229 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 882005230 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882005231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 882005232 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882005233 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 882005234 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 882005235 active site clefts [active] 882005236 zinc binding site [ion binding]; other site 882005237 dimer interface [polypeptide binding]; other site 882005238 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 882005239 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 882005240 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 882005241 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 882005242 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 882005243 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882005244 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 882005245 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882005246 Cysteine-rich domain; Region: CCG; pfam02754 882005247 Cysteine-rich domain; Region: CCG; pfam02754 882005248 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 882005249 malonic semialdehyde reductase; Provisional; Region: PRK10538 882005250 putative NAD(P) binding site [chemical binding]; other site 882005251 homodimer interface [polypeptide binding]; other site 882005252 homotetramer interface [polypeptide binding]; other site 882005253 active site 882005254 MarC family integral membrane protein; Region: MarC; cl00919 882005255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882005256 metal binding site [ion binding]; metal-binding site 882005257 active site 882005258 I-site; other site 882005259 Staphylococcal nuclease homologues; Region: SNc; smart00318 882005260 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 882005261 Catalytic site; other site 882005262 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 882005263 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 882005264 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 882005265 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882005266 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882005267 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 882005268 DNA binding residues [nucleotide binding] 882005269 DNA primase; Validated; Region: dnaG; PRK05667 882005270 CHC2 zinc finger; Region: zf-CHC2; cl17510 882005271 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 882005272 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 882005273 active site 882005274 metal binding site [ion binding]; metal-binding site 882005275 interdomain interaction site; other site 882005276 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 882005277 MutS domain III; Region: MutS_III; pfam05192 882005278 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 882005279 Walker A/P-loop; other site 882005280 ATP binding site [chemical binding]; other site 882005281 Q-loop/lid; other site 882005282 ABC transporter signature motif; other site 882005283 Walker B; other site 882005284 D-loop; other site 882005285 H-loop/switch region; other site 882005286 Smr domain; Region: Smr; pfam01713 882005287 Yqey-like protein; Region: YqeY; pfam09424 882005288 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 882005289 histone-like DNA-binding protein HU; Region: HU; cd13831 882005290 dimer interface [polypeptide binding]; other site 882005291 DNA binding site [nucleotide binding] 882005292 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 882005293 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 882005294 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 882005295 elongation factor G; Reviewed; Region: PRK12740 882005296 G1 box; other site 882005297 putative GEF interaction site [polypeptide binding]; other site 882005298 GTP/Mg2+ binding site [chemical binding]; other site 882005299 Switch I region; other site 882005300 G2 box; other site 882005301 G3 box; other site 882005302 Switch II region; other site 882005303 G4 box; other site 882005304 G5 box; other site 882005305 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 882005306 Elongation Factor G, domain II; Region: EFG_II; pfam14492 882005307 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 882005308 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 882005309 Putative lysophospholipase; Region: Hydrolase_4; cl19140 882005310 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882005311 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 882005312 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882005313 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 882005314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882005315 metal binding site [ion binding]; metal-binding site 882005316 active site 882005317 I-site; other site 882005318 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 882005319 MgtE intracellular N domain; Region: MgtE_N; smart00924 882005320 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 882005321 Divalent cation transporter; Region: MgtE; cl00786 882005322 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 882005323 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 882005324 dimerization interface [polypeptide binding]; other site 882005325 active site 882005326 quinolinate synthetase; Provisional; Region: PRK09375 882005327 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 882005328 L-aspartate oxidase; Provisional; Region: PRK06175 882005329 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 882005330 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 882005331 putative active site [active] 882005332 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 882005333 Uncharacterized subfamily with similarity to Heme-copper oxidase subunit II cupredoxin domain; Region: CuRO_HCO_II_like_2; cd13915 882005334 CuA binuclear center [ion binding]; other site 882005335 Cytochrome c; Region: Cytochrom_C; pfam00034 882005336 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 882005337 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 882005338 Subunit I/III interface [polypeptide binding]; other site 882005339 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 882005340 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 882005341 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 882005342 Cu(I) binding site [ion binding]; other site 882005343 Cytochrome c; Region: Cytochrom_C; cl11414 882005344 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 882005345 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 882005346 Protein export membrane protein; Region: SecD_SecF; pfam02355 882005347 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 882005348 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 882005349 Preprotein translocase subunit; Region: YajC; pfam02699 882005350 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 882005351 putative subunit interface; other site 882005352 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 882005353 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 882005354 putative active site [active] 882005355 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882005356 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882005357 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882005358 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 882005359 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 882005360 active site 882005361 FMN binding site [chemical binding]; other site 882005362 substrate binding site [chemical binding]; other site 882005363 3Fe-4S cluster binding site [ion binding]; other site 882005364 Esterase/lipase [General function prediction only]; Region: COG1647 882005365 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 882005366 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 882005367 active site 882005368 putative substrate binding pocket [chemical binding]; other site 882005369 diaminopimelate aminotransferase; Provisional; Region: PRK13983 882005370 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 882005371 metal binding site [ion binding]; metal-binding site 882005372 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 882005373 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 882005374 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 882005375 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882005376 phosphoenolpyruvate synthase; Validated; Region: PRK06464 882005377 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; cl17700 882005378 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 882005379 pyruvate carboxylase; Reviewed; Region: PRK12999 882005380 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882005381 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882005382 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 882005383 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 882005384 active site 882005385 catalytic residues [active] 882005386 metal binding site [ion binding]; metal-binding site 882005387 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 882005388 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 882005389 carboxyltransferase (CT) interaction site; other site 882005390 biotinylation site [posttranslational modification]; other site 882005391 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 882005392 biotin/lipoate protein ligase; Provisional; Region: PTZ00276 882005393 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 882005394 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 882005395 metal binding triad [ion binding]; metal-binding site 882005396 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882005397 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 882005398 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 882005399 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 882005400 binding surface 882005401 TPR motif; other site 882005402 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882005403 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 882005404 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882005405 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 882005406 catalytic residues [active] 882005407 UGMP family protein; Validated; Region: PRK09604 882005408 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 882005409 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 882005410 AMP binding site [chemical binding]; other site 882005411 metal binding site [ion binding]; metal-binding site 882005412 active site 882005413 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 882005414 TPR motif; other site 882005415 Septum formation initiator; Region: DivIC; pfam04977 882005416 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 882005417 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 882005418 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 882005419 Walker A motif; other site 882005420 Predicted membrane protein [Function unknown]; Region: COG1238 882005421 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 882005422 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 882005423 S-adenosylmethionine binding site [chemical binding]; other site 882005424 FOG: CBS domain [General function prediction only]; Region: COG0517 882005425 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_15; cd04803 882005426 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882005427 Peptidase family M23; Region: Peptidase_M23; pfam01551 882005428 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 882005429 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 882005430 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 882005431 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 882005432 Cache domain; Region: Cache_1; pfam02743 882005433 HAMP domain; Region: HAMP; pfam00672 882005434 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882005435 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882005436 dimer interface [polypeptide binding]; other site 882005437 putative CheW interface [polypeptide binding]; other site 882005438 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 882005439 DNA-binding site [nucleotide binding]; DNA binding site 882005440 RNA-binding motif; other site 882005441 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 882005442 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 882005443 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 882005444 putative active site [active] 882005445 catalytic triad [active] 882005446 putative dimer interface [polypeptide binding]; other site 882005447 peptide chain release factor 2; Validated; Region: prfB; PRK00578 882005448 This domain is found in peptide chain release factors; Region: PCRF; smart00937 882005449 RF-1 domain; Region: RF-1; pfam00472 882005450 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882005451 metal binding site [ion binding]; metal-binding site 882005452 active site 882005453 I-site; other site 882005454 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882005455 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 882005456 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 882005457 P-loop; other site 882005458 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 882005459 dimer interface [polypeptide binding]; other site 882005460 DNA binding site [nucleotide binding] 882005461 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 882005462 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 882005463 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 882005464 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 882005465 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 882005466 dimer interface [polypeptide binding]; other site 882005467 active site 882005468 catalytic residue [active] 882005469 Cache domain; Region: Cache_1; pfam02743 882005470 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 882005471 dimerization interface [polypeptide binding]; other site 882005472 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882005473 PAS domain; Region: PAS_9; pfam13426 882005474 putative active site [active] 882005475 heme pocket [chemical binding]; other site 882005476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882005477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882005478 dimer interface [polypeptide binding]; other site 882005479 putative CheW interface [polypeptide binding]; other site 882005480 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 882005481 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 882005482 Aspartase; Region: Aspartase; cd01357 882005483 active sites [active] 882005484 tetramer interface [polypeptide binding]; other site 882005485 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 882005486 substrate binding site [chemical binding]; other site 882005487 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 882005488 Clp amino terminal domain; Region: Clp_N; pfam02861 882005489 Clp amino terminal domain; Region: Clp_N; pfam02861 882005490 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 882005491 Walker A motif; other site 882005492 ATP binding site [chemical binding]; other site 882005493 Walker B motif; other site 882005494 arginine finger; other site 882005495 Not1 N-terminal domain, CCR4-Not complex component; Region: Not3; pfam04065 882005496 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 882005497 Walker A motif; other site 882005498 ATP binding site [chemical binding]; other site 882005499 Walker B motif; other site 882005500 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882005501 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882005502 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 882005503 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 882005504 HSP70 interaction site [polypeptide binding]; other site 882005505 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 882005506 substrate binding site [polypeptide binding]; other site 882005507 dimer interface [polypeptide binding]; other site 882005508 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 882005509 putative active site [active] 882005510 putative metal binding site [ion binding]; other site 882005511 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 882005512 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 882005513 tetramer interface [polypeptide binding]; other site 882005514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882005515 catalytic residue [active] 882005516 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882005517 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 882005518 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 882005519 PhoH-like protein; Region: PhoH; pfam02562 882005520 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 882005521 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 882005522 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 882005523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882005524 Zn2+ binding site [ion binding]; other site 882005525 Mg2+ binding site [ion binding]; other site 882005526 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 882005527 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882005528 PAS domain; Region: PAS_9; pfam13426 882005529 putative active site [active] 882005530 heme pocket [chemical binding]; other site 882005531 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882005532 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882005533 dimer interface [polypeptide binding]; other site 882005534 putative CheW interface [polypeptide binding]; other site 882005535 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 882005536 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 882005537 GatB domain; Region: GatB_Yqey; smart00845 882005538 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 882005539 Protein of unknown function DUF89; Region: DUF89; cl15397 882005540 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 882005541 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 882005542 dimer interface [polypeptide binding]; other site 882005543 active site 882005544 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 882005545 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 882005546 domain interfaces; other site 882005547 active site 882005548 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 882005549 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 882005550 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 882005551 Probable Catalytic site; other site 882005552 AAA domain; Region: AAA_32; pfam13654 882005553 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882005554 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 882005555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882005556 putative substrate translocation pore; other site 882005557 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 882005558 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 882005559 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 882005560 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 882005561 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 882005562 dimer interface [polypeptide binding]; other site 882005563 motif 1; other site 882005564 active site 882005565 motif 2; other site 882005566 motif 3; other site 882005567 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 882005568 Recombination protein O N terminal; Region: RecO_N; pfam11967 882005569 Recombination protein O C terminal; Region: RecO_C; pfam02565 882005570 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 882005571 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 882005572 non-specific DNA binding site [nucleotide binding]; other site 882005573 salt bridge; other site 882005574 sequence-specific DNA binding site [nucleotide binding]; other site 882005575 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 882005576 SurA N-terminal domain; Region: SurA_N; pfam09312 882005577 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 882005578 SurA N-terminal domain; Region: SurA_N_3; cl07813 882005579 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 882005580 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 882005581 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 882005582 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 882005583 ATP binding site [chemical binding]; other site 882005584 putative Mg++ binding site [ion binding]; other site 882005585 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 882005586 nucleotide binding region [chemical binding]; other site 882005587 ATP-binding site [chemical binding]; other site 882005588 TRCF domain; Region: TRCF; pfam03461 882005589 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 882005590 putative CheA interaction surface; other site 882005591 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 882005592 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 882005593 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 882005594 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 882005595 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 882005596 active site 882005597 hydrophilic channel; other site 882005598 dimerization interface [polypeptide binding]; other site 882005599 catalytic residues [active] 882005600 active site lid [active] 882005601 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 882005602 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 882005603 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 882005604 putative substrate binding site [chemical binding]; other site 882005605 putative ATP binding site [chemical binding]; other site 882005606 FOG: CBS domain [General function prediction only]; Region: COG0517 882005607 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 882005608 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 882005609 aspartate kinase; Reviewed; Region: PRK06635 882005610 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 882005611 putative nucleotide binding site [chemical binding]; other site 882005612 putative catalytic residues [active] 882005613 putative Mg ion binding site [ion binding]; other site 882005614 putative aspartate binding site [chemical binding]; other site 882005615 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 882005616 putative allosteric regulatory site; other site 882005617 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 882005618 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 882005619 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 882005620 active site 882005621 catalytic residues [active] 882005622 metal binding site [ion binding]; metal-binding site 882005623 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 882005624 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 882005625 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 882005626 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 882005627 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 882005628 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 882005629 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 882005630 putative substrate-binding site; other site 882005631 nickel binding site [ion binding]; other site 882005632 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 882005633 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 882005634 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 882005635 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 882005636 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 882005637 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 882005638 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 882005639 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 882005640 putative substrate-binding site; other site 882005641 nickel binding site [ion binding]; other site 882005642 HupF/HypC family; Region: HupF_HypC; pfam01455 882005643 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 882005644 active site 882005645 catalytic triad [active] 882005646 oxyanion hole [active] 882005647 switch loop; other site 882005648 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 882005649 putative active site pocket [active] 882005650 dimerization interface [polypeptide binding]; other site 882005651 putative catalytic residue [active] 882005652 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 882005653 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 882005654 active site 882005655 HIGH motif; other site 882005656 KMSKS motif; other site 882005657 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 882005658 tRNA binding surface [nucleotide binding]; other site 882005659 anticodon binding site; other site 882005660 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882005661 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 882005662 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 882005663 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 882005664 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 882005665 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 882005666 binding surface 882005667 TPR motif; other site 882005668 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 882005669 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882005670 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882005671 adenylate kinase; Provisional; Region: PRK14529 882005672 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 882005673 AMP-binding site [chemical binding]; other site 882005674 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 882005675 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 882005676 intracellular protease, PfpI family; Region: PfpI; TIGR01382 882005677 proposed catalytic triad [active] 882005678 conserved cys residue [active] 882005679 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 882005680 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 882005681 dimer interface [polypeptide binding]; other site 882005682 conserved gate region; other site 882005683 putative PBP binding loops; other site 882005684 ABC-ATPase subunit interface; other site 882005685 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 882005686 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 882005687 dimer interface [polypeptide binding]; other site 882005688 conserved gate region; other site 882005689 ABC-ATPase subunit interface; other site 882005690 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 882005691 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 882005692 Walker A/P-loop; other site 882005693 ATP binding site [chemical binding]; other site 882005694 Q-loop/lid; other site 882005695 ABC transporter signature motif; other site 882005696 Walker B; other site 882005697 D-loop; other site 882005698 H-loop/switch region; other site 882005699 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 882005700 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 882005701 substrate binding pocket [chemical binding]; other site 882005702 membrane-bound complex binding site; other site 882005703 hinge residues; other site 882005704 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 882005705 FAD binding domain; Region: FAD_binding_2; pfam00890 882005706 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882005707 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 882005708 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 882005709 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 882005710 active site 882005711 motif I; other site 882005712 motif II; other site 882005713 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 882005714 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 882005715 DAK2 domain; Region: Dak2; pfam02734 882005716 EDD domain protein, DegV family; Region: DegV; TIGR00762 882005717 Ferredoxin [Energy production and conversion]; Region: COG1146 882005718 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882005719 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 882005720 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 882005721 dimer interface [polypeptide binding]; other site 882005722 PYR/PP interface [polypeptide binding]; other site 882005723 TPP binding site [chemical binding]; other site 882005724 substrate binding site [chemical binding]; other site 882005725 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882005726 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 882005727 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 882005728 TPP-binding site [chemical binding]; other site 882005729 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 882005730 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 882005731 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 882005732 GAF domain; Region: GAF; pfam01590 882005733 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 882005734 Walker A motif; other site 882005735 ATP binding site [chemical binding]; other site 882005736 Walker B motif; other site 882005737 arginine finger; other site 882005738 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882005739 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 882005740 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 882005741 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 882005742 dimer interface [polypeptide binding]; other site 882005743 PYR/PP interface [polypeptide binding]; other site 882005744 TPP binding site [chemical binding]; other site 882005745 substrate binding site [chemical binding]; other site 882005746 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 882005747 TPP-binding site; other site 882005748 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 882005749 putative catalytic cysteine [active] 882005750 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 882005751 active site 882005752 (T/H)XGH motif; other site 882005753 TPR repeat; Region: TPR_11; pfam13414 882005754 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 882005755 binding surface 882005756 TPR motif; other site 882005757 Tetratricopeptide repeat; Region: TPR_19; pfam14559 882005758 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 882005759 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882005760 putative active site [active] 882005761 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882005762 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882005763 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 882005764 dimer interface [polypeptide binding]; other site 882005765 phosphorylation site [posttranslational modification] 882005766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882005767 ATP binding site [chemical binding]; other site 882005768 Mg2+ binding site [ion binding]; other site 882005769 G-X-G motif; other site 882005770 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 882005771 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 882005772 FOG: CBS domain [General function prediction only]; Region: COG0517 882005773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882005774 metal binding site [ion binding]; metal-binding site 882005775 active site 882005776 I-site; other site 882005777 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 882005778 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 882005779 putative binding surface; other site 882005780 active site 882005781 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 882005782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882005783 ATP binding site [chemical binding]; other site 882005784 Mg2+ binding site [ion binding]; other site 882005785 G-X-G motif; other site 882005786 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 882005787 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 882005788 putative CheA interaction surface; other site 882005789 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 882005790 HAMP domain; Region: HAMP; pfam00672 882005791 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882005792 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 882005793 dimer interface [polypeptide binding]; other site 882005794 putative CheW interface [polypeptide binding]; other site 882005795 Predicted transcriptional regulator [Transcription]; Region: COG1959 882005796 Rrf2 family protein; Region: rrf2_super; TIGR00738 882005797 Predicted transcriptional regulator [Transcription]; Region: COG1959 882005798 Rrf2 family protein; Region: rrf2_super; TIGR00738 882005799 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882005800 putative DNA binding site [nucleotide binding]; other site 882005801 putative Zn2+ binding site [ion binding]; other site 882005802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 882005803 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 882005804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882005805 active site 882005806 phosphorylation site [posttranslational modification] 882005807 intermolecular recognition site; other site 882005808 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 882005809 Sel1-like repeats; Region: SEL1; smart00671 882005810 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 882005811 active site residue [active] 882005812 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 882005813 diiron binding motif [ion binding]; other site 882005814 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 882005815 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882005816 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 882005817 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882005818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882005819 dimer interface [polypeptide binding]; other site 882005820 putative CheW interface [polypeptide binding]; other site 882005821 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 882005822 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 882005823 ring oligomerisation interface [polypeptide binding]; other site 882005824 ATP/Mg binding site [chemical binding]; other site 882005825 stacking interactions; other site 882005826 hinge regions; other site 882005827 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 882005828 oligomerisation interface [polypeptide binding]; other site 882005829 mobile loop; other site 882005830 roof hairpin; other site 882005831 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 882005832 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882005833 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882005834 ABC transporter ATPase component; Reviewed; Region: PRK11147 882005835 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882005836 ABC transporter; Region: ABC_tran_2; pfam12848 882005837 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882005838 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 882005839 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 882005840 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 882005841 ATP binding site [chemical binding]; other site 882005842 Mg++ binding site [ion binding]; other site 882005843 motif III; other site 882005844 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 882005845 nucleotide binding region [chemical binding]; other site 882005846 ATP-binding site [chemical binding]; other site 882005847 Phosphotransferase enzyme family; Region: APH; pfam01636 882005848 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 882005849 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 882005850 LabA_like proteins; Region: LabA_like; cd06167 882005851 putative metal binding site [ion binding]; other site 882005852 Uncharacterized conserved protein [Function unknown]; Region: COG1432 882005853 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl19047 882005854 DsrE/DsrF-like family; Region: DrsE; pfam02635 882005855 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 882005856 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 882005857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882005858 ABC transporter signature motif; other site 882005859 Walker B; other site 882005860 D-loop; other site 882005861 H-loop/switch region; other site 882005862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882005863 Walker A/P-loop; other site 882005864 ATP binding site [chemical binding]; other site 882005865 Q-loop/lid; other site 882005866 ABC transporter signature motif; other site 882005867 Walker B; other site 882005868 D-loop; other site 882005869 H-loop/switch region; other site 882005870 Protein of unknown function (DUF554); Region: DUF554; pfam04474 882005871 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882005872 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 882005873 trimer interface [polypeptide binding]; other site 882005874 active site 882005875 substrate binding site [chemical binding]; other site 882005876 CoA binding site [chemical binding]; other site 882005877 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 882005878 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 882005879 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882005880 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 882005881 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 882005882 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882005883 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882005884 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 882005885 anti sigma factor interaction site; other site 882005886 regulatory phosphorylation site [posttranslational modification]; other site 882005887 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 882005888 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 882005889 Sulfate transporter family; Region: Sulfate_transp; cl19250 882005890 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 882005891 Transposase domain (DUF772); Region: DUF772; pfam05598 882005892 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 882005893 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 882005894 Winged helix-turn helix; Region: HTH_29; pfam13551 882005895 Helix-turn-helix domain; Region: HTH_28; pfam13518 882005896 Homeodomain-like domain; Region: HTH_32; pfam13565 882005897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 882005898 Integrase core domain; Region: rve; pfam00665 882005899 Integrase core domain; Region: rve_3; pfam13683 882005900 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 882005901 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 882005902 Catalytic site; other site 882005903 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 882005904 putative transposase OrfB; Reviewed; Region: PHA02517 882005905 HTH-like domain; Region: HTH_21; pfam13276 882005906 Integrase core domain; Region: rve; pfam00665 882005907 Integrase core domain; Region: rve_3; pfam13683 882005908 Transposase; Region: HTH_Tnp_1; pfam01527 882005909 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 882005910 cubane metal cluster [ion binding]; other site 882005911 hybrid metal cluster; other site 882005912 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 882005913 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882005914 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 882005915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882005916 metal binding site [ion binding]; metal-binding site 882005917 active site 882005918 I-site; other site 882005919 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 882005920 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 882005921 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 882005922 Transposase; Region: DDE_Tnp_ISL3; pfam01610 882005923 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 882005924 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 882005925 TIGR02687 family protein; Region: TIGR02687 882005926 PglZ domain; Region: PglZ; pfam08665 882005927 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 882005928 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 882005929 Methyltransferase domain; Region: Methyltransf_26; pfam13659 882005930 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 882005931 Predicted ATPases [General function prediction only]; Region: COG1106 882005932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882005933 Walker A/P-loop; other site 882005934 ATP binding site [chemical binding]; other site 882005935 AAA domain; Region: AAA_21; pfam13304 882005936 Walker B; other site 882005937 D-loop; other site 882005938 H-loop/switch region; other site 882005939 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 882005940 WYL domain; Region: WYL; pfam13280 882005941 Transposase; Region: HTH_Tnp_1; cl17663 882005942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882005943 IS2 transposase TnpB; Reviewed; Region: PRK09409 882005944 HTH-like domain; Region: HTH_21; pfam13276 882005945 Integrase core domain; Region: rve; pfam00665 882005946 Integrase core domain; Region: rve_3; pfam13683 882005947 ERF superfamily; Region: ERF; pfam04404 882005948 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 882005949 Predicted transcriptional regulator [Transcription]; Region: COG3905 882005950 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 882005951 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 882005952 Walker A motif; other site 882005953 ATP binding site [chemical binding]; other site 882005954 Walker B motif; other site 882005955 WGR domain; Region: WGR; cl01581 882005956 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 882005957 Fic family protein [Function unknown]; Region: COG3177 882005958 Fic/DOC family; Region: Fic; pfam02661 882005959 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 882005960 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 882005961 metal ion-dependent adhesion site (MIDAS); other site 882005962 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 882005963 Ligand binding site; other site 882005964 Putative Catalytic site; other site 882005965 DXD motif; other site 882005966 Uncharacterized conserved protein [Function unknown]; Region: COG0398 882005967 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 882005968 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 882005969 active site 882005970 HIGH motif; other site 882005971 KMSKS motif; other site 882005972 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 882005973 tRNA binding surface [nucleotide binding]; other site 882005974 anticodon binding site; other site 882005975 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 882005976 dimer interface [polypeptide binding]; other site 882005977 putative tRNA-binding site [nucleotide binding]; other site 882005978 PSP1 C-terminal conserved region; Region: PSP1; cl00770 882005979 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 882005980 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 882005981 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 882005982 active site 882005983 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 882005984 active site 882005985 ADP/pyrophosphate binding site [chemical binding]; other site 882005986 dimerization interface [polypeptide binding]; other site 882005987 allosteric effector site; other site 882005988 fructose-1,6-bisphosphate binding site; other site 882005989 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 882005990 AroM protein; Region: AroM; cl17601 882005991 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 882005992 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 882005993 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 882005994 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 882005995 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 882005996 FMN binding site [chemical binding]; other site 882005997 substrate binding site [chemical binding]; other site 882005998 putative catalytic residue [active] 882005999 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 882006000 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 882006001 active site 882006002 DNA binding site [nucleotide binding] 882006003 Int/Topo IB signature motif; other site 882006004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006005 active site 882006006 phosphorylation site [posttranslational modification] 882006007 intermolecular recognition site; other site 882006008 dimerization interface [polypeptide binding]; other site 882006009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882006010 metal binding site [ion binding]; metal-binding site 882006011 active site 882006012 I-site; other site 882006013 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 882006014 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882006015 Zn2+ binding site [ion binding]; other site 882006016 Mg2+ binding site [ion binding]; other site 882006017 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 882006018 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 882006019 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 882006020 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 882006021 binding surface 882006022 TPR motif; other site 882006023 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 882006024 putative binding surface; other site 882006025 active site 882006026 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 882006027 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 882006028 putative binding surface; other site 882006029 active site 882006030 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 882006031 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006032 ATP binding site [chemical binding]; other site 882006033 Mg2+ binding site [ion binding]; other site 882006034 G-X-G motif; other site 882006035 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 882006036 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882006037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006038 active site 882006039 phosphorylation site [posttranslational modification] 882006040 intermolecular recognition site; other site 882006041 dimerization interface [polypeptide binding]; other site 882006042 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 882006043 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882006044 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 882006045 P-loop; other site 882006046 Magnesium ion binding site [ion binding]; other site 882006047 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 882006048 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 882006049 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 882006050 HEAT repeats; Region: HEAT_2; pfam13646 882006051 HEAT repeats; Region: HEAT_2; pfam13646 882006052 HEAT repeats; Region: HEAT_2; pfam13646 882006053 HEAT repeats; Region: HEAT_2; pfam13646 882006054 HEAT repeats; Region: HEAT_2; pfam13646 882006055 HEAT repeats; Region: HEAT_2; pfam13646 882006056 HEAT repeats; Region: HEAT_2; pfam13646 882006057 HEAT repeats; Region: HEAT_2; pfam13646 882006058 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 882006059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006060 active site 882006061 phosphorylation site [posttranslational modification] 882006062 intermolecular recognition site; other site 882006063 dimerization interface [polypeptide binding]; other site 882006064 CheB methylesterase; Region: CheB_methylest; pfam01339 882006065 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882006066 PAS fold; Region: PAS; pfam00989 882006067 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006068 putative active site [active] 882006069 heme pocket [chemical binding]; other site 882006070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882006071 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 882006072 dimer interface [polypeptide binding]; other site 882006073 phosphorylation site [posttranslational modification] 882006074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006075 ATP binding site [chemical binding]; other site 882006076 Mg2+ binding site [ion binding]; other site 882006077 G-X-G motif; other site 882006078 flagellin; Reviewed; Region: PRK08869 882006079 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882006080 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882006081 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 882006082 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882006083 Zn2+ binding site [ion binding]; other site 882006084 Mg2+ binding site [ion binding]; other site 882006085 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882006086 synthetase active site [active] 882006087 NTP binding site [chemical binding]; other site 882006088 metal binding site [ion binding]; metal-binding site 882006089 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 882006090 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 882006091 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 882006092 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 882006093 peptide binding site [polypeptide binding]; other site 882006094 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 882006095 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 882006096 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 882006097 ATP binding site [chemical binding]; other site 882006098 putative Mg++ binding site [ion binding]; other site 882006099 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 882006100 nucleotide binding region [chemical binding]; other site 882006101 ATP-binding site [chemical binding]; other site 882006102 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 882006103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882006104 DNA-binding site [nucleotide binding]; DNA binding site 882006105 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 882006106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882006107 homodimer interface [polypeptide binding]; other site 882006108 catalytic residue [active] 882006109 B3/4 domain; Region: B3_4; smart00873 882006110 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882006111 EamA-like transporter family; Region: EamA; pfam00892 882006112 EamA-like transporter family; Region: EamA; pfam00892 882006113 EF-hand domain; Region: EF-hand_6; pfam13405 882006114 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 882006115 thiamine phosphate binding site [chemical binding]; other site 882006116 active site 882006117 pyrophosphate binding site [ion binding]; other site 882006118 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 882006119 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 882006120 putative ATP binding site [chemical binding]; other site 882006121 putative substrate interface [chemical binding]; other site 882006122 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 882006123 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 882006124 FeS/SAM binding site; other site 882006125 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 882006126 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 882006127 ThiS interaction site; other site 882006128 putative active site [active] 882006129 tetramer interface [polypeptide binding]; other site 882006130 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 882006131 thiS-thiF/thiG interaction site; other site 882006132 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882006133 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 882006134 ligand binding site [chemical binding]; other site 882006135 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882006136 putative switch regulator; other site 882006137 non-specific DNA interactions [nucleotide binding]; other site 882006138 DNA binding site [nucleotide binding] 882006139 sequence specific DNA binding site [nucleotide binding]; other site 882006140 putative cAMP binding site [chemical binding]; other site 882006141 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 882006142 ACS interaction site; other site 882006143 CODH interaction site; other site 882006144 cubane metal cluster (B-cluster) [ion binding]; other site 882006145 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 882006146 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 882006147 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 882006148 P-loop; other site 882006149 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 882006150 Ligand Binding Site [chemical binding]; other site 882006151 Family of unknown function (DUF490); Region: DUF490; pfam04357 882006152 Surface antigen; Region: Bac_surface_Ag; pfam01103 882006153 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 882006154 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 882006155 P loop nucleotide binding; other site 882006156 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882006157 switch II; other site 882006158 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 882006159 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 882006160 P loop nucleotide binding; other site 882006161 switch II; other site 882006162 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006163 PAS domain; Region: PAS_9; pfam13426 882006164 putative active site [active] 882006165 heme pocket [chemical binding]; other site 882006166 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 882006167 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882006168 Walker A motif; other site 882006169 ATP binding site [chemical binding]; other site 882006170 Walker B motif; other site 882006171 arginine finger; other site 882006172 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882006173 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 882006174 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 882006175 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 882006176 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 882006177 Walker A motif; other site 882006178 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 882006179 L-lactate permease; Region: Lactate_perm; cl00701 882006180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882006181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882006182 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 882006183 putative dimerization interface [polypeptide binding]; other site 882006184 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 882006185 Sulfate transporter family; Region: Sulfate_transp; cl19250 882006186 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882006187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006188 active site 882006189 phosphorylation site [posttranslational modification] 882006190 intermolecular recognition site; other site 882006191 dimerization interface [polypeptide binding]; other site 882006192 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 882006193 Walker A motif; other site 882006194 ATP binding site [chemical binding]; other site 882006195 Walker B motif; other site 882006196 arginine finger; other site 882006197 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882006198 Flp/Fap pilin component; Region: Flp_Fap; cl01585 882006199 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 882006200 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 882006201 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 882006202 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 882006203 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 882006204 BON domain; Region: BON; pfam04972 882006205 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 882006206 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 882006207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 882006208 active site 882006209 dimerization interface [polypeptide binding]; other site 882006210 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 882006211 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 882006212 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 882006213 ATP binding site [chemical binding]; other site 882006214 Walker A motif; other site 882006215 hexamer interface [polypeptide binding]; other site 882006216 Walker B motif; other site 882006217 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 882006218 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 882006219 TPR repeat; Region: TPR_11; pfam13414 882006220 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 882006221 binding surface 882006222 TPR motif; other site 882006223 Tetratricopeptide repeat; Region: TPR_16; pfam13432 882006224 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 882006225 binding surface 882006226 TPR motif; other site 882006227 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882006228 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 882006229 binding surface 882006230 TPR motif; other site 882006231 TPR repeat; Region: TPR_11; pfam13414 882006232 TadE-like protein; Region: TadE; pfam07811 882006233 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 882006234 metal ion-dependent adhesion site (MIDAS); other site 882006235 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006236 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882006237 putative active site [active] 882006238 heme pocket [chemical binding]; other site 882006239 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882006240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006241 putative active site [active] 882006242 heme pocket [chemical binding]; other site 882006243 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 882006244 dimer interface [polypeptide binding]; other site 882006245 phosphorylation site [posttranslational modification] 882006246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006247 ATP binding site [chemical binding]; other site 882006248 Mg2+ binding site [ion binding]; other site 882006249 G-X-G motif; other site 882006250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006251 active site 882006252 phosphorylation site [posttranslational modification] 882006253 intermolecular recognition site; other site 882006254 dimerization interface [polypeptide binding]; other site 882006255 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 882006256 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 882006257 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 882006258 Qo binding site; other site 882006259 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 882006260 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 882006261 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 882006262 CoA-ligase; Region: Ligase_CoA; pfam00549 882006263 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 882006264 CoA binding domain; Region: CoA_binding; pfam02629 882006265 CoA-ligase; Region: Ligase_CoA; pfam00549 882006266 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 882006267 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 882006268 active site 882006269 Zn binding site [ion binding]; other site 882006270 thymidylate kinase; Validated; Region: tmk; PRK00698 882006271 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 882006272 TMP-binding site; other site 882006273 ATP-binding site [chemical binding]; other site 882006274 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 882006275 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 882006276 generic binding surface I; other site 882006277 generic binding surface II; other site 882006278 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 882006279 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882006280 Zn2+ binding site [ion binding]; other site 882006281 Mg2+ binding site [ion binding]; other site 882006282 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 882006283 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 882006284 intersubunit interface [polypeptide binding]; other site 882006285 active site 882006286 zinc binding site [ion binding]; other site 882006287 Na+ binding site [ion binding]; other site 882006288 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 882006289 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 882006290 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882006291 Chloramphenicol acetyltransferase; Region: CAT; smart01059 882006292 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 882006293 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882006294 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 882006295 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 882006296 Domain of unknown function DUF21; Region: DUF21; pfam01595 882006297 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 882006298 Transporter associated domain; Region: CorC_HlyC; smart01091 882006299 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 882006300 Domain of unknown function (DUF814); Region: DUF814; pfam05670 882006301 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 882006302 lysogenic bacteriophage with hits to lambdoid phages. insertion into tRNA-Gly-3. attL/R=TGGAGCGGGAAACGGGATTTGAACCCGCGACCTTCAGCTTGGGAAGCTG; PHAGE05 882006303 XkdW protein; Region: XkdW; pfam09636 882006304 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; pfam06805 882006305 Phage-related protein, tail component [Function unknown]; Region: COG4733 882006306 NlpC/P60 family; Region: NLPC_P60; cl17555 882006307 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 882006308 Phage-related minor tail protein [Function unknown]; Region: COG5281 882006309 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 882006310 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 882006311 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 882006312 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 882006313 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882006314 catalytic residue [active] 882006315 Holin family; Region: Phage_holin_4; pfam05105 882006316 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 882006317 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 882006318 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 882006319 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 882006320 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 882006321 tandem repeat interface [polypeptide binding]; other site 882006322 oligomer interface [polypeptide binding]; other site 882006323 active site residues [active] 882006324 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 882006325 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 882006326 Predicted helicase [General function prediction only]; Region: COG4889 882006327 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 882006328 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 882006329 ATP binding site [chemical binding]; other site 882006330 putative Mg++ binding site [ion binding]; other site 882006331 Methyltransferase domain; Region: Methyltransf_26; pfam13659 882006332 HNH endonuclease; Region: HNH_5; pfam14279 882006333 IS2 transposase TnpB; Reviewed; Region: PRK09409 882006334 HTH-like domain; Region: HTH_21; pfam13276 882006335 Integrase core domain; Region: rve; pfam00665 882006336 Integrase core domain; Region: rve_3; pfam13683 882006337 Transposase; Region: HTH_Tnp_1; cl17663 882006338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882006339 phage regulatory protein, rha family; Region: phage_pRha; TIGR02681 882006340 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 882006341 Phage terminase large subunit (GpA); Region: Terminase_GpA; cl19377 882006342 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882006343 CHC2 zinc finger; Region: zf-CHC2; cl17510 882006344 DNA primase, catalytic core; Region: dnaG; TIGR01391 882006345 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 882006346 active site 882006347 metal binding site [ion binding]; metal-binding site 882006348 interdomain interaction site; other site 882006349 D5 N terminal like; Region: D5_N; smart00885 882006350 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 882006351 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882006352 Zn-ribbon containing protein (DUF2072); Region: DUF2072; cl19836 882006353 Helix-turn-helix domain; Region: HTH_17; pfam12728 882006354 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 882006355 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 882006356 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 882006357 active site 882006358 DNA binding site [nucleotide binding] 882006359 Int/Topo IB signature motif; other site 882006360 Protein involved in formate dehydrogenase formation; Region: FdhE; cl19312 882006361 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 882006362 dimer interface [polypeptide binding]; other site 882006363 active site 882006364 metal binding site [ion binding]; metal-binding site 882006365 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 882006366 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 882006367 substrate binding pocket [chemical binding]; other site 882006368 membrane-bound complex binding site; other site 882006369 hinge residues; other site 882006370 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 882006371 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882006372 catalytic residue [active] 882006373 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 882006374 homotrimer interaction site [polypeptide binding]; other site 882006375 putative active site [active] 882006376 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 882006377 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 882006378 substrate binding site [chemical binding]; other site 882006379 tetramer interface [polypeptide binding]; other site 882006380 catalytic residue [active] 882006381 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 882006382 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882006383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 882006384 YheO-like PAS domain; Region: PAS_6; pfam08348 882006385 HTH domain; Region: HTH_22; pfam13309 882006386 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 882006387 S-adenosylmethionine binding site [chemical binding]; other site 882006388 YcaO-like family; Region: YcaO; pfam02624 882006389 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 882006390 binding surface 882006391 TPR motif; other site 882006392 TPR repeat; Region: TPR_11; pfam13414 882006393 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 882006394 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 882006395 TPR motif; other site 882006396 binding surface 882006397 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 882006398 MoaE homodimer interface [polypeptide binding]; other site 882006399 MoaD interaction [polypeptide binding]; other site 882006400 active site residues [active] 882006401 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 882006402 Catalytic site; other site 882006403 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 882006404 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 882006405 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 882006406 rRNA binding site [nucleotide binding]; other site 882006407 predicted 30S ribosome binding site; other site 882006408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882006409 Coenzyme A binding pocket [chemical binding]; other site 882006410 GTPase RsgA; Reviewed; Region: PRK01889 882006411 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 882006412 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 882006413 GTPase/Zn-binding domain interface [polypeptide binding]; other site 882006414 GTP/Mg2+ binding site [chemical binding]; other site 882006415 G4 box; other site 882006416 G5 box; other site 882006417 G1 box; other site 882006418 Switch I region; other site 882006419 G2 box; other site 882006420 G3 box; other site 882006421 Switch II region; other site 882006422 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 882006423 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 882006424 dimer interface [polypeptide binding]; other site 882006425 ssDNA binding site [nucleotide binding]; other site 882006426 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882006427 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 882006428 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 882006429 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882006430 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 882006431 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882006432 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 882006433 PilZ domain; Region: PilZ; pfam07238 882006434 flagellar motor protein MotS; Reviewed; Region: PRK06925 882006435 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882006436 ligand binding site [chemical binding]; other site 882006437 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 882006438 purine nucleoside phosphorylase; Provisional; Region: PRK08202 882006439 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 882006440 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 882006441 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 882006442 G1 box; other site 882006443 putative GEF interaction site [polypeptide binding]; other site 882006444 GTP/Mg2+ binding site [chemical binding]; other site 882006445 Switch I region; other site 882006446 G2 box; other site 882006447 G3 box; other site 882006448 Switch II region; other site 882006449 G4 box; other site 882006450 G5 box; other site 882006451 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 882006452 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 882006453 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 882006454 Putative lysophospholipase; Region: Hydrolase_4; cl19140 882006455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882006456 HI0933-like protein; Region: HI0933_like; pfam03486 882006457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882006458 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 882006459 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 882006460 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 882006461 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 882006462 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 882006463 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 882006464 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 882006465 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 882006466 active site 882006467 dimer interface [polypeptide binding]; other site 882006468 catalytic nucleophile [active] 882006469 glycogen branching enzyme; Provisional; Region: PRK12313 882006470 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 882006471 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 882006472 active site 882006473 catalytic site [active] 882006474 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 882006475 glycogen synthase; Provisional; Region: glgA; PRK00654 882006476 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 882006477 ADP-binding pocket [chemical binding]; other site 882006478 homodimer interface [polypeptide binding]; other site 882006479 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 882006480 nudix motif; other site 882006481 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 882006482 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 882006483 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 882006484 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 882006485 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 882006486 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 882006487 RNA binding site [nucleotide binding]; other site 882006488 peroxidase; Provisional; Region: PRK15000 882006489 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 882006490 dimer interface [polypeptide binding]; other site 882006491 decamer (pentamer of dimers) interface [polypeptide binding]; other site 882006492 catalytic triad [active] 882006493 peroxidatic and resolving cysteines [active] 882006494 Medium-chain acyl-CoA synthetase (MACS) of AAE_MA like; Region: MACS_AAE_MA_like; cd05970 882006495 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 882006496 active site 882006497 acyl-activating enzyme (AAE) consensus motif; other site 882006498 putative CoA binding site [chemical binding]; other site 882006499 AMP binding site [chemical binding]; other site 882006500 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882006501 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 882006502 non-specific DNA binding site [nucleotide binding]; other site 882006503 salt bridge; other site 882006504 sequence-specific DNA binding site [nucleotide binding]; other site 882006505 Cupin domain; Region: Cupin_2; pfam07883 882006506 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 882006507 DnaA N-terminal domain; Region: DnaA_N; pfam11638 882006508 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 882006509 Walker A motif; other site 882006510 ATP binding site [chemical binding]; other site 882006511 Walker B motif; other site 882006512 arginine finger; other site 882006513 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 882006514 DnaA box-binding interface [nucleotide binding]; other site 882006515 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 882006516 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 882006517 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 882006518 Walker A motif; other site 882006519 ATP binding site [chemical binding]; other site 882006520 Walker B motif; other site 882006521 arginine finger; other site 882006522 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 882006523 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 882006524 RuvA N terminal domain; Region: RuvA_N; pfam01330 882006525 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 882006526 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 882006527 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 882006528 active site 882006529 putative DNA-binding cleft [nucleotide binding]; other site 882006530 dimer interface [polypeptide binding]; other site 882006531 hypothetical protein; Validated; Region: PRK00110 882006532 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 882006533 S-adenosylmethionine binding site [chemical binding]; other site 882006534 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 882006535 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 882006536 Autotransporter beta-domain; Region: Autotransporter; smart00869 882006537 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 882006538 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882006539 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 882006540 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 882006541 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 882006542 dimer interface [polypeptide binding]; other site 882006543 active site 882006544 glycine loop; other site 882006545 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882006546 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 882006547 Walker A motif; other site 882006548 ATP binding site [chemical binding]; other site 882006549 Walker B motif; other site 882006550 arginine finger; other site 882006551 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882006552 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882006553 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 882006554 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 882006555 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882006556 Cache domain; Region: Cache_1; pfam02743 882006557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882006558 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 882006559 dimer interface [polypeptide binding]; other site 882006560 phosphorylation site [posttranslational modification] 882006561 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006562 ATP binding site [chemical binding]; other site 882006563 Mg2+ binding site [ion binding]; other site 882006564 G-X-G motif; other site 882006565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882006566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006567 active site 882006568 phosphorylation site [posttranslational modification] 882006569 intermolecular recognition site; other site 882006570 dimerization interface [polypeptide binding]; other site 882006571 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 882006572 Domain of unknown function (DUF697); Region: DUF697; cl12064 882006573 L-lactate permease; Region: Lactate_perm; cl00701 882006574 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 882006575 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 882006576 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 882006577 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 882006578 NADH dehydrogenase; Region: NADHdh; cl00469 882006579 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 882006580 hydrogenase 4 subunit H; Validated; Region: PRK08222 882006581 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882006582 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 882006583 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 882006584 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 882006585 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 882006586 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882006587 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882006588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl19151 882006589 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 882006590 Cache domain; Region: Cache_1; pfam02743 882006591 HAMP domain; Region: HAMP; pfam00672 882006592 PAS fold; Region: PAS_4; pfam08448 882006593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882006594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882006595 dimer interface [polypeptide binding]; other site 882006596 putative CheW interface [polypeptide binding]; other site 882006597 Transglycosylase; Region: Transgly; cl19357 882006598 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 882006599 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 882006600 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 882006601 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 882006602 dimer interface [polypeptide binding]; other site 882006603 conserved gate region; other site 882006604 putative PBP binding loops; other site 882006605 ABC-ATPase subunit interface; other site 882006606 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 882006607 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 882006608 Walker A/P-loop; other site 882006609 ATP binding site [chemical binding]; other site 882006610 Q-loop/lid; other site 882006611 ABC transporter signature motif; other site 882006612 Walker B; other site 882006613 D-loop; other site 882006614 H-loop/switch region; other site 882006615 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 882006616 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 882006617 putative cation:proton antiport protein; Provisional; Region: PRK10669 882006618 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 882006619 TrkA-N domain; Region: TrkA_N; pfam02254 882006620 TrkA-C domain; Region: TrkA_C; pfam02080 882006621 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 882006622 Sel1-like repeats; Region: SEL1; smart00671 882006623 Sel1-like repeats; Region: SEL1; smart00671 882006624 Sel1-like repeats; Region: SEL1; smart00671 882006625 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 882006626 TIGR00153 family protein; Region: TIGR00153 882006627 Phosphate transporter family; Region: PHO4; pfam01384 882006628 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 882006629 Domain of unknown function (DUF386); Region: DUF386; cl01047 882006630 Cache domain; Region: Cache_1; pfam02743 882006631 HAMP domain; Region: HAMP; pfam00672 882006632 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882006633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882006634 dimer interface [polypeptide binding]; other site 882006635 putative CheW interface [polypeptide binding]; other site 882006636 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882006637 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 882006638 putative active site [active] 882006639 hypothetical protein; Provisional; Region: PRK11568 882006640 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 882006641 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 882006642 DNA topoisomerase III; Provisional; Region: PRK07726 882006643 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 882006644 active site 882006645 putative interdomain interaction site [polypeptide binding]; other site 882006646 putative metal-binding site [ion binding]; other site 882006647 putative nucleotide binding site [chemical binding]; other site 882006648 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 882006649 domain I; other site 882006650 DNA binding groove [nucleotide binding] 882006651 phosphate binding site [ion binding]; other site 882006652 domain II; other site 882006653 domain III; other site 882006654 nucleotide binding site [chemical binding]; other site 882006655 catalytic site [active] 882006656 domain IV; other site 882006657 Mut7-C RNAse domain; Region: Mut7-C; cl19501 882006658 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 882006659 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 882006660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882006661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882006662 dimer interface [polypeptide binding]; other site 882006663 putative CheW interface [polypeptide binding]; other site 882006664 Rubrerythrin [Energy production and conversion]; Region: COG1592 882006665 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 882006666 binuclear metal center [ion binding]; other site 882006667 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 882006668 iron binding site [ion binding]; other site 882006669 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882006670 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; cl17355 882006671 DNA binding site [nucleotide binding] 882006672 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 882006673 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 882006674 active site 882006675 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 882006676 metal-binding site [ion binding] 882006677 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 882006678 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 882006679 metal-binding site [ion binding] 882006680 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882006681 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882006682 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 882006683 metal-binding site [ion binding] 882006684 AMIN domain; Region: AMIN; pfam11741 882006685 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 882006686 binding surface 882006687 TPR motif; other site 882006688 TPR repeat; Region: TPR_11; pfam13414 882006689 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 882006690 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 882006691 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 882006692 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 882006693 Walker A motif; other site 882006694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 882006695 Smr domain; Region: Smr; pfam01713 882006696 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 882006697 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 882006698 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 882006699 Nucleoside diphosphate kinase; Region: NDK; pfam00334 882006700 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 882006701 active site 882006702 multimer interface [polypeptide binding]; other site 882006703 cell division protein; Validated; Region: ftsH; CHL00176 882006704 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 882006705 NodB motif; other site 882006706 putative active site [active] 882006707 putative catalytic site [active] 882006708 Zn binding site [ion binding]; other site 882006709 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 882006710 C-terminal peptidase (prc); Region: prc; TIGR00225 882006711 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 882006712 protein binding site [polypeptide binding]; other site 882006713 Catalytic dyad [active] 882006714 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 882006715 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882006716 Peptidase family M23; Region: Peptidase_M23; pfam01551 882006717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882006718 minor groove reading motif; other site 882006719 helix-hairpin-helix signature motif; other site 882006720 substrate binding pocket [chemical binding]; other site 882006721 active site 882006722 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 882006723 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 882006724 S-adenosylmethionine binding site [chemical binding]; other site 882006725 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882006726 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 882006727 dimer interface [polypeptide binding]; other site 882006728 conserved gate region; other site 882006729 putative PBP binding loops; other site 882006730 ABC-ATPase subunit interface; other site 882006731 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 882006732 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 882006733 dimer interface [polypeptide binding]; other site 882006734 conserved gate region; other site 882006735 putative PBP binding loops; other site 882006736 ABC-ATPase subunit interface; other site 882006737 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 882006738 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882006739 substrate binding pocket [chemical binding]; other site 882006740 membrane-bound complex binding site; other site 882006741 hinge residues; other site 882006742 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882006743 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 882006744 Walker A/P-loop; other site 882006745 ATP binding site [chemical binding]; other site 882006746 Q-loop/lid; other site 882006747 ABC transporter signature motif; other site 882006748 Walker B; other site 882006749 D-loop; other site 882006750 H-loop/switch region; other site 882006751 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 882006752 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 882006753 inhibitor-cofactor binding pocket; inhibition site 882006754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882006755 catalytic residue [active] 882006756 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 882006757 trimer interface [polypeptide binding]; other site 882006758 active site 882006759 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 882006760 putative homodimer interface [polypeptide binding]; other site 882006761 putative active site pocket [active] 882006762 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 882006763 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 882006764 Glucose inhibited division protein A; Region: GIDA; pfam01134 882006765 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 882006766 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 882006767 active site 882006768 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 882006769 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882006770 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 882006771 active site 882006772 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 882006773 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 882006774 Probable Catalytic site; other site 882006775 metal-binding site 882006776 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 882006777 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882006778 transmembrane helices; other site 882006779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882006780 Zn2+ binding site [ion binding]; other site 882006781 Mg2+ binding site [ion binding]; other site 882006782 GAF domain; Region: GAF; cl17456 882006783 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882006784 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 882006785 Walker A motif; other site 882006786 ATP binding site [chemical binding]; other site 882006787 Walker B motif; other site 882006788 arginine finger; other site 882006789 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882006790 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 882006791 FAD binding pocket [chemical binding]; other site 882006792 FAD binding motif [chemical binding]; other site 882006793 phosphate binding motif [ion binding]; other site 882006794 beta-alpha-beta structure motif; other site 882006795 NAD binding pocket [chemical binding]; other site 882006796 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 882006797 thiamine phosphate binding site [chemical binding]; other site 882006798 active site 882006799 pyrophosphate binding site [ion binding]; other site 882006800 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 882006801 substrate binding site [chemical binding]; other site 882006802 multimerization interface [polypeptide binding]; other site 882006803 ATP binding site [chemical binding]; other site 882006804 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 882006805 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 882006806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882006807 homodimer interface [polypeptide binding]; other site 882006808 catalytic residue [active] 882006809 LabA_like proteins; Region: LabA_like; cd06167 882006810 putative metal binding site [ion binding]; other site 882006811 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 882006812 CTP synthetase; Validated; Region: pyrG; PRK05380 882006813 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 882006814 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 882006815 active site 882006816 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 882006817 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 882006818 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 882006819 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 882006820 trimer interface [polypeptide binding]; other site 882006821 active site 882006822 UDP-GlcNAc binding site [chemical binding]; other site 882006823 lipid binding site [chemical binding]; lipid-binding site 882006824 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 882006825 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 882006826 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 882006827 active site 882006828 metal binding site [ion binding]; metal-binding site 882006829 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 882006830 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 882006831 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 882006832 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 882006833 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 882006834 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 882006835 Surface antigen; Region: Bac_surface_Ag; pfam01103 882006836 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882006837 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882006838 Walker A/P-loop; other site 882006839 ATP binding site [chemical binding]; other site 882006840 Q-loop/lid; other site 882006841 ABC transporter signature motif; other site 882006842 Walker B; other site 882006843 D-loop; other site 882006844 H-loop/switch region; other site 882006845 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 882006846 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882006847 FtsX-like permease family; Region: FtsX; pfam02687 882006848 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 882006849 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 882006850 dimer interface [polypeptide binding]; other site 882006851 putative anticodon binding site; other site 882006852 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 882006853 motif 1; other site 882006854 active site 882006855 motif 2; other site 882006856 motif 3; other site 882006857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882006858 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882006859 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882006860 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 882006861 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882006862 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882006863 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882006864 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882006865 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 882006866 Walker A/P-loop; other site 882006867 ATP binding site [chemical binding]; other site 882006868 Q-loop/lid; other site 882006869 ABC transporter signature motif; other site 882006870 Walker B; other site 882006871 D-loop; other site 882006872 H-loop/switch region; other site 882006873 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 882006874 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 882006875 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 882006876 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882006877 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 882006878 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 882006879 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 882006880 dimer interface [polypeptide binding]; other site 882006881 conserved gate region; other site 882006882 putative PBP binding loops; other site 882006883 ABC-ATPase subunit interface; other site 882006884 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 882006885 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 882006886 dimer interface [polypeptide binding]; other site 882006887 conserved gate region; other site 882006888 putative PBP binding loops; other site 882006889 ABC-ATPase subunit interface; other site 882006890 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 882006891 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882006892 Walker A/P-loop; other site 882006893 ATP binding site [chemical binding]; other site 882006894 Q-loop/lid; other site 882006895 ABC transporter signature motif; other site 882006896 Walker B; other site 882006897 D-loop; other site 882006898 H-loop/switch region; other site 882006899 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882006900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882006901 Walker A/P-loop; other site 882006902 ATP binding site [chemical binding]; other site 882006903 Q-loop/lid; other site 882006904 ABC transporter signature motif; other site 882006905 Walker B; other site 882006906 D-loop; other site 882006907 H-loop/switch region; other site 882006908 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882006909 TolR protein; Region: tolR; TIGR02801 882006910 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 882006911 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 882006912 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882006913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882006914 active site 882006915 phosphorylation site [posttranslational modification] 882006916 intermolecular recognition site; other site 882006917 dimerization interface [polypeptide binding]; other site 882006918 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 882006919 Walker A motif; other site 882006920 ATP binding site [chemical binding]; other site 882006921 Walker B motif; other site 882006922 arginine finger; other site 882006923 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882006924 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 882006925 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006926 putative active site [active] 882006927 heme pocket [chemical binding]; other site 882006928 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 882006929 dimer interface [polypeptide binding]; other site 882006930 phosphorylation site [posttranslational modification] 882006931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006932 ATP binding site [chemical binding]; other site 882006933 Mg2+ binding site [ion binding]; other site 882006934 G-X-G motif; other site 882006935 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 882006936 putative active site [active] 882006937 metal binding site [ion binding]; metal-binding site 882006938 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 882006939 diiron binding motif [ion binding]; other site 882006940 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 882006941 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 882006942 FAD binding pocket [chemical binding]; other site 882006943 FAD binding motif [chemical binding]; other site 882006944 phosphate binding motif [ion binding]; other site 882006945 beta-alpha-beta structure motif; other site 882006946 NAD binding pocket [chemical binding]; other site 882006947 Iron coordination center [ion binding]; other site 882006948 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882006949 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 882006950 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 882006951 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882006952 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 882006953 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 882006954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882006955 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882006956 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882006957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882006958 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882006959 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 882006960 Cysteine-rich domain; Region: CCG; pfam02754 882006961 Cysteine-rich domain; Region: CCG; pfam02754 882006962 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882006963 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 882006964 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 882006965 dimer interface [polypeptide binding]; other site 882006966 active site 882006967 metal binding site [ion binding]; metal-binding site 882006968 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 882006969 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882006970 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 882006971 substrate binding pocket [chemical binding]; other site 882006972 membrane-bound complex binding site; other site 882006973 hinge residues; other site 882006974 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 882006975 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 882006976 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 882006977 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 882006978 EF-hand domain pair; Region: EF-hand_7; pfam13499 882006979 Ca2+ binding site [ion binding]; other site 882006980 PAS domain; Region: PAS_9; pfam13426 882006981 PAS domain S-box; Region: sensory_box; TIGR00229 882006982 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882006983 putative active site [active] 882006984 heme pocket [chemical binding]; other site 882006985 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 882006986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882006987 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 882006988 dimer interface [polypeptide binding]; other site 882006989 phosphorylation site [posttranslational modification] 882006990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882006991 ATP binding site [chemical binding]; other site 882006992 Mg2+ binding site [ion binding]; other site 882006993 G-X-G motif; other site 882006994 cheY-homologous receiver domain; Region: REC; smart00448 882006995 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 882006996 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 882006997 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 882006998 Orbivirus helicase VP6; Region: Orbi_VP6; pfam01516 882006999 MgtE intracellular N domain; Region: MgtE_N; cl15244 882007000 EVE domain; Region: EVE; cl00728 882007001 SlyX; Region: SlyX; pfam04102 882007002 VanZ like family; Region: VanZ; cl01971 882007003 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 882007004 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 882007005 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 882007006 active site 1 [active] 882007007 dimer interface [polypeptide binding]; other site 882007008 hexamer interface [polypeptide binding]; other site 882007009 active site 2 [active] 882007010 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 882007011 putative FMN binding site [chemical binding]; other site 882007012 Predicted transcriptional regulators [Transcription]; Region: COG1733 882007013 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882007014 dimerization interface [polypeptide binding]; other site 882007015 putative Zn2+ binding site [ion binding]; other site 882007016 putative DNA binding site [nucleotide binding]; other site 882007017 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882007018 EamA-like transporter family; Region: EamA; pfam00892 882007019 Predicted permeases [General function prediction only]; Region: RarD; COG2962 882007020 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 882007021 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 882007022 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 882007023 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 882007024 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 882007025 substrate binding pocket [chemical binding]; other site 882007026 membrane-bound complex binding site; other site 882007027 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882007028 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007029 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882007030 putative active site [active] 882007031 heme pocket [chemical binding]; other site 882007032 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007033 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882007034 putative active site [active] 882007035 heme pocket [chemical binding]; other site 882007036 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007037 putative active site [active] 882007038 heme pocket [chemical binding]; other site 882007039 GAF domain; Region: GAF_2; pfam13185 882007040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882007041 metal binding site [ion binding]; metal-binding site 882007042 active site 882007043 I-site; other site 882007044 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 882007045 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 882007046 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 882007047 oligomer interface [polypeptide binding]; other site 882007048 Cl binding site [ion binding]; other site 882007049 HD domain; Region: HD_3; pfam13023 882007050 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882007051 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 882007052 FtsX-like permease family; Region: FtsX; pfam02687 882007053 macrolide transporter subunit MacA; Provisional; Region: PRK11578 882007054 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882007055 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 882007056 HlyD family secretion protein; Region: HlyD_3; pfam13437 882007057 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882007058 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 882007059 putative dimer interface [polypeptide binding]; other site 882007060 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882007061 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 882007062 putative dimer interface [polypeptide binding]; other site 882007063 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 882007064 flagellin; Reviewed; Region: PRK08869 882007065 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882007066 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882007067 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 882007068 oligomerization interface [polypeptide binding]; other site 882007069 active site 882007070 metal binding site [ion binding]; metal-binding site 882007071 Pantoate-beta-alanine ligase; Region: PanC; cd00560 882007072 active site 882007073 ATP-binding site [chemical binding]; other site 882007074 pantoate-binding site; other site 882007075 HXXH motif; other site 882007076 S-adenosylmethionine synthetase; Validated; Region: PRK05250 882007077 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 882007078 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 882007079 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 882007080 twin arginine translocase protein A; Provisional; Region: tatA; PRK14860 882007081 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 882007082 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 882007083 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882007084 NAD binding site [chemical binding]; other site 882007085 putative substrate binding site 2 [chemical binding]; other site 882007086 putative substrate binding site 1 [chemical binding]; other site 882007087 active site 882007088 Putative exonuclease, RdgC; Region: RdgC; cl01122 882007089 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882007090 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 882007091 dimer interface [polypeptide binding]; other site 882007092 conserved gate region; other site 882007093 putative PBP binding loops; other site 882007094 ABC-ATPase subunit interface; other site 882007095 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 882007096 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882007097 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 882007098 dimer interface [polypeptide binding]; other site 882007099 conserved gate region; other site 882007100 putative PBP binding loops; other site 882007101 ABC-ATPase subunit interface; other site 882007102 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 882007103 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 882007104 Walker A/P-loop; other site 882007105 ATP binding site [chemical binding]; other site 882007106 Q-loop/lid; other site 882007107 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 882007108 ABC transporter signature motif; other site 882007109 Walker B; other site 882007110 D-loop; other site 882007111 H-loop/switch region; other site 882007112 ribonuclease R; Region: RNase_R; TIGR02063 882007113 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 882007114 RNB domain; Region: RNB; pfam00773 882007115 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 882007116 RNA binding site [nucleotide binding]; other site 882007117 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 882007118 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 882007119 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882007120 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882007121 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 882007122 active site 882007123 catalytic site [active] 882007124 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 882007125 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 882007126 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 882007127 FAD binding pocket [chemical binding]; other site 882007128 FAD binding motif [chemical binding]; other site 882007129 phosphate binding motif [ion binding]; other site 882007130 beta-alpha-beta structure motif; other site 882007131 NAD binding pocket [chemical binding]; other site 882007132 Iron coordination center [ion binding]; other site 882007133 putative oxidoreductase; Provisional; Region: PRK12831 882007134 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 882007135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882007136 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 882007137 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 882007138 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 882007139 dimer interface [polypeptide binding]; other site 882007140 conserved gate region; other site 882007141 putative PBP binding loops; other site 882007142 ABC-ATPase subunit interface; other site 882007143 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 882007144 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 882007145 dimer interface [polypeptide binding]; other site 882007146 conserved gate region; other site 882007147 putative PBP binding loops; other site 882007148 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; cl00427 882007149 ABC-ATPase subunit interface; other site 882007150 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882007151 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882007152 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 882007153 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 882007154 [4Fe-4S] binding site [ion binding]; other site 882007155 molybdopterin cofactor binding site; other site 882007156 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 882007157 molybdopterin cofactor binding site; other site 882007158 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 882007159 Cytochrome c7; Region: Cytochrome_C7; pfam14522 882007160 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007161 heme-binding residues [chemical binding]; other site 882007162 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 882007163 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 882007164 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 882007165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882007166 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 882007167 GAF domain; Region: GAF_2; pfam13185 882007168 Late competence development protein ComFB; Region: ComFB; pfam10719 882007169 histidinol-phosphatase; Provisional; Region: PRK07328 882007170 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 882007171 active site 882007172 dimer interface [polypeptide binding]; other site 882007173 proposed F420-0 ABC transporter, ATP-binding protein; Region: F420-0_ABC_ATP; TIGR03873 882007174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882007175 Walker A/P-loop; other site 882007176 ATP binding site [chemical binding]; other site 882007177 Q-loop/lid; other site 882007178 ABC transporter signature motif; other site 882007179 Walker B; other site 882007180 D-loop; other site 882007181 H-loop/switch region; other site 882007182 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 882007183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882007184 Walker A/P-loop; other site 882007185 ATP binding site [chemical binding]; other site 882007186 Q-loop/lid; other site 882007187 ABC transporter signature motif; other site 882007188 Walker B; other site 882007189 D-loop; other site 882007190 H-loop/switch region; other site 882007191 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 882007192 active site 882007193 4Fe-4S binding domain; Region: Fer4_5; pfam12801 882007194 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882007195 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882007196 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882007197 Peptidase family M48; Region: Peptidase_M48; cl12018 882007198 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 882007199 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 882007200 CoenzymeA binding site [chemical binding]; other site 882007201 subunit interaction site [polypeptide binding]; other site 882007202 PHB binding site; other site 882007203 cell division protein FtsZ; Validated; Region: PRK09330 882007204 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 882007205 nucleotide binding site [chemical binding]; other site 882007206 SulA interaction site; other site 882007207 cell division protein FtsA; Region: ftsA; TIGR01174 882007208 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 882007209 nucleotide binding site [chemical binding]; other site 882007210 Cell division protein FtsA; Region: FtsA; pfam14450 882007211 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 882007212 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 882007213 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 882007214 FAD binding domain; Region: FAD_binding_4; cl19922 882007215 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 882007216 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 882007217 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882007218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882007219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882007220 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 882007221 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 882007222 active site 882007223 homodimer interface [polypeptide binding]; other site 882007224 cell division protein FtsW; Region: ftsW; TIGR02614 882007225 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; cl19125 882007226 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 882007227 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882007228 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882007229 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 882007230 Mg++ binding site [ion binding]; other site 882007231 putative catalytic motif [active] 882007232 putative substrate binding site [chemical binding]; other site 882007233 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 882007234 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882007235 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882007236 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 882007237 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882007238 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882007239 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882007240 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 882007241 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 882007242 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 882007243 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 882007244 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 882007245 MraZ protein; Region: MraZ; pfam02381 882007246 cell division protein MraZ; Reviewed; Region: PRK00326 882007247 MraZ protein; Region: MraZ; pfam02381 882007248 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 882007249 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 882007250 domain interfaces; other site 882007251 active site 882007252 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882007253 Zn2+ binding site [ion binding]; other site 882007254 Mg2+ binding site [ion binding]; other site 882007255 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 882007256 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 882007257 HD domain; Region: HD_3; pfam13023 882007258 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 882007259 23S rRNA interface [nucleotide binding]; other site 882007260 L3 interface [polypeptide binding]; other site 882007261 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 882007262 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 882007263 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 882007264 ADP binding site [chemical binding]; other site 882007265 magnesium binding site [ion binding]; other site 882007266 putative shikimate binding site; other site 882007267 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007268 heme-binding residues [chemical binding]; other site 882007269 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 882007270 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 882007271 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 882007272 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 882007273 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl19880 882007274 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 882007275 substrate binding site [chemical binding]; other site 882007276 hinge regions; other site 882007277 ADP binding site [chemical binding]; other site 882007278 catalytic site [active] 882007279 transketolase; Reviewed; Region: PRK12753 882007280 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 882007281 TPP-binding site [chemical binding]; other site 882007282 dimer interface [polypeptide binding]; other site 882007283 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 882007284 PYR/PP interface [polypeptide binding]; other site 882007285 dimer interface [polypeptide binding]; other site 882007286 TPP binding site [chemical binding]; other site 882007287 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882007288 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 882007289 substrate binding site [chemical binding]; other site 882007290 hexamer interface [polypeptide binding]; other site 882007291 metal binding site [ion binding]; metal-binding site 882007292 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 882007293 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 882007294 DNA binding residues [nucleotide binding] 882007295 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 882007296 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 882007297 putative tRNA-binding site [nucleotide binding]; other site 882007298 B3/4 domain; Region: B3_4; pfam03483 882007299 tRNA synthetase B5 domain; Region: B5; smart00874 882007300 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 882007301 dimer interface [polypeptide binding]; other site 882007302 motif 1; other site 882007303 motif 3; other site 882007304 motif 2; other site 882007305 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 882007306 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 882007307 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 882007308 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 882007309 dimer interface [polypeptide binding]; other site 882007310 motif 1; other site 882007311 active site 882007312 motif 2; other site 882007313 motif 3; other site 882007314 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 882007315 23S rRNA binding site [nucleotide binding]; other site 882007316 L21 binding site [polypeptide binding]; other site 882007317 L13 binding site [polypeptide binding]; other site 882007318 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 882007319 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 882007320 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 882007321 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 882007322 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 882007323 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 882007324 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 882007325 active site 882007326 dimer interface [polypeptide binding]; other site 882007327 motif 1; other site 882007328 motif 2; other site 882007329 motif 3; other site 882007330 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 882007331 anticodon binding site; other site 882007332 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 882007333 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 882007334 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 882007335 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 882007336 cubane metal cluster [ion binding]; other site 882007337 hybrid metal cluster; other site 882007338 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 882007339 Ferredoxin [Energy production and conversion]; Region: COG1146 882007340 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 882007341 putative active site [active] 882007342 metal binding site [ion binding]; metal-binding site 882007343 PAS domain S-box; Region: sensory_box; TIGR00229 882007344 PAS domain; Region: PAS_8; pfam13188 882007345 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882007346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007347 putative active site [active] 882007348 heme pocket [chemical binding]; other site 882007349 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 882007350 dimer interface [polypeptide binding]; other site 882007351 phosphorylation site [posttranslational modification] 882007352 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007353 ATP binding site [chemical binding]; other site 882007354 Mg2+ binding site [ion binding]; other site 882007355 G-X-G motif; other site 882007356 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882007357 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 882007358 ligand binding site [chemical binding]; other site 882007359 flexible hinge region; other site 882007360 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882007361 putative switch regulator; other site 882007362 non-specific DNA interactions [nucleotide binding]; other site 882007363 DNA binding site [nucleotide binding] 882007364 sequence specific DNA binding site [nucleotide binding]; other site 882007365 putative cAMP binding site [chemical binding]; other site 882007366 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882007367 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882007368 Zn2+ binding site [ion binding]; other site 882007369 Mg2+ binding site [ion binding]; other site 882007370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882007371 Zn2+ binding site [ion binding]; other site 882007372 Mg2+ binding site [ion binding]; other site 882007373 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 882007374 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 882007375 active site 882007376 HIGH motif; other site 882007377 KMSKS motif; other site 882007378 NifU-like domain; Region: NifU; cl00484 882007379 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 882007380 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 882007381 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 882007382 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882007383 putative DNA binding site [nucleotide binding]; other site 882007384 putative Zn2+ binding site [ion binding]; other site 882007385 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 882007386 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882007387 biotin synthase; Region: bioB; TIGR00433 882007388 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 882007389 FeS/SAM binding site; other site 882007390 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 882007391 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 882007392 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 882007393 inhibitor-cofactor binding pocket; inhibition site 882007394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882007395 catalytic residue [active] 882007396 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 882007397 active site 2 [active] 882007398 active site 1 [active] 882007399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882007400 active site 882007401 Phosphopantetheine attachment site; Region: PP-binding; cl09936 882007402 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 882007403 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 882007404 dimer interface [polypeptide binding]; other site 882007405 active site 882007406 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 882007407 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 882007408 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882007409 catalytic residue [active] 882007410 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 882007411 AAA domain; Region: AAA_26; pfam13500 882007412 diaminopimelate decarboxylase; Region: lysA; TIGR01048 882007413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 882007414 active site 882007415 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882007416 substrate binding site [chemical binding]; other site 882007417 catalytic residues [active] 882007418 dimer interface [polypeptide binding]; other site 882007419 Predicted transcriptional regulators [Transcription]; Region: COG1378 882007420 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 882007421 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 882007422 C-terminal domain interface [polypeptide binding]; other site 882007423 sugar binding site [chemical binding]; other site 882007424 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 882007425 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 882007426 metal binding site [ion binding]; metal-binding site 882007427 dimer interface [polypeptide binding]; other site 882007428 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 882007429 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 882007430 HAMP domain; Region: HAMP; pfam00672 882007431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882007432 metal binding site [ion binding]; metal-binding site 882007433 active site 882007434 I-site; other site 882007435 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 882007436 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 882007437 G1 box; other site 882007438 GTP/Mg2+ binding site [chemical binding]; other site 882007439 Switch I region; other site 882007440 G2 box; other site 882007441 G3 box; other site 882007442 Switch II region; other site 882007443 G4 box; other site 882007444 G5 box; other site 882007445 Nucleoside recognition; Region: Gate; pfam07670 882007446 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 882007447 Nucleoside recognition; Region: Gate; pfam07670 882007448 FeoA domain; Region: FeoA; pfam04023 882007449 FeoA domain; Region: FeoA; pfam04023 882007450 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 882007451 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 882007452 metal binding site [ion binding]; metal-binding site 882007453 dimer interface [polypeptide binding]; other site 882007454 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 882007455 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 882007456 Walker A/P-loop; other site 882007457 ATP binding site [chemical binding]; other site 882007458 Q-loop/lid; other site 882007459 ABC transporter signature motif; other site 882007460 Walker B; other site 882007461 D-loop; other site 882007462 H-loop/switch region; other site 882007463 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882007464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882007465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007466 active site 882007467 phosphorylation site [posttranslational modification] 882007468 intermolecular recognition site; other site 882007469 dimerization interface [polypeptide binding]; other site 882007470 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 882007471 DNA binding residues [nucleotide binding] 882007472 dimerization interface [polypeptide binding]; other site 882007473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007474 active site 882007475 phosphorylation site [posttranslational modification] 882007476 intermolecular recognition site; other site 882007477 dimerization interface [polypeptide binding]; other site 882007478 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 882007479 TPR repeat; Region: TPR_11; pfam13414 882007480 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 882007481 binding surface 882007482 TPR motif; other site 882007483 TPR repeat; Region: TPR_11; pfam13414 882007484 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 882007485 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 882007486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007487 ATP binding site [chemical binding]; other site 882007488 Mg2+ binding site [ion binding]; other site 882007489 G-X-G motif; other site 882007490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007491 active site 882007492 phosphorylation site [posttranslational modification] 882007493 intermolecular recognition site; other site 882007494 dimerization interface [polypeptide binding]; other site 882007495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007496 active site 882007497 phosphorylation site [posttranslational modification] 882007498 intermolecular recognition site; other site 882007499 dimerization interface [polypeptide binding]; other site 882007500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882007501 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882007502 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 882007503 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 882007504 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 882007505 Cl binding site [ion binding]; other site 882007506 oligomer interface [polypeptide binding]; other site 882007507 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 882007508 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 882007509 dimerization interface [polypeptide binding]; other site 882007510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882007511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882007512 dimer interface [polypeptide binding]; other site 882007513 putative CheW interface [polypeptide binding]; other site 882007514 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 882007515 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882007516 ABC transporter; Region: ABC_tran_2; pfam12848 882007517 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882007518 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 882007519 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 882007520 dimerization interface [polypeptide binding]; other site 882007521 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 882007522 dimer interface [polypeptide binding]; other site 882007523 phosphorylation site [posttranslational modification] 882007524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007525 ATP binding site [chemical binding]; other site 882007526 Mg2+ binding site [ion binding]; other site 882007527 G-X-G motif; other site 882007528 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882007529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007530 active site 882007531 phosphorylation site [posttranslational modification] 882007532 intermolecular recognition site; other site 882007533 dimerization interface [polypeptide binding]; other site 882007534 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 882007535 DNA binding site [nucleotide binding] 882007536 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 882007537 Uncharacterized conserved protein [Function unknown]; Region: COG2461 882007538 Family of unknown function (DUF438); Region: DUF438; pfam04282 882007539 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 882007540 hypothetical protein; Region: PHA00661 882007541 hypothetical protein; Region: PHA00662 882007542 putative protease; Region: PHA00666 882007543 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 882007544 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 882007545 flagellar motor protein MotA; Validated; Region: PRK09110 882007546 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 882007547 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 882007548 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882007549 ligand binding site [chemical binding]; other site 882007550 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 882007551 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39A; cd02549 882007552 putative active site [active] 882007553 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882007554 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 882007555 binding surface 882007556 TPR motif; other site 882007557 TPR repeat; Region: TPR_11; pfam13414 882007558 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 882007559 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 882007560 substrate binding pocket [chemical binding]; other site 882007561 membrane-bound complex binding site; other site 882007562 hinge residues; other site 882007563 Protein of unknown function, DUF607; Region: DUF607; pfam04678 882007564 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007565 PAS fold; Region: PAS_3; pfam08447 882007566 putative active site [active] 882007567 heme pocket [chemical binding]; other site 882007568 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007569 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 882007570 putative active site [active] 882007571 heme pocket [chemical binding]; other site 882007572 PAS domain; Region: PAS; smart00091 882007573 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 882007574 dimer interface [polypeptide binding]; other site 882007575 phosphorylation site [posttranslational modification] 882007576 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007577 ATP binding site [chemical binding]; other site 882007578 Mg2+ binding site [ion binding]; other site 882007579 G-X-G motif; other site 882007580 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882007581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007582 active site 882007583 phosphorylation site [posttranslational modification] 882007584 intermolecular recognition site; other site 882007585 dimerization interface [polypeptide binding]; other site 882007586 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 882007587 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 882007588 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 882007589 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 882007590 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 882007591 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 882007592 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 882007593 Terminase small subunit; Region: Terminase_2; cl01513 882007594 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 882007595 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 882007596 binding surface 882007597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 882007598 TPR motif; other site 882007599 TPR repeat; Region: TPR_11; pfam13414 882007600 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 882007601 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 882007602 sequence-specific DNA binding site [nucleotide binding]; other site 882007603 salt bridge; other site 882007604 Predicted transcriptional regulator [Transcription]; Region: COG2932 882007605 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 882007606 Catalytic site [active] 882007607 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882007608 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882007609 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 882007610 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 882007611 HlyD family secretion protein; Region: HlyD_3; pfam13437 882007612 Cache domain; Region: Cache_2; pfam08269 882007613 Cache domain; Region: Cache_1; pfam02743 882007614 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 882007615 dimerization interface [polypeptide binding]; other site 882007616 PAS fold; Region: PAS; pfam00989 882007617 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007618 putative active site [active] 882007619 heme pocket [chemical binding]; other site 882007620 TSCPD domain; Region: TSCPD; cl14834 882007621 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 882007622 heat shock protein 90; Provisional; Region: PRK05218 882007623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007624 ATP binding site [chemical binding]; other site 882007625 Mg2+ binding site [ion binding]; other site 882007626 G-X-G motif; other site 882007627 Hsp90 protein; Region: HSP90; pfam00183 882007628 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882007629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882007630 DNA-binding site [nucleotide binding]; DNA binding site 882007631 FCD domain; Region: FCD; pfam07729 882007632 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 882007633 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882007634 D-cysteine desulfhydrase; Validated; Region: PRK03910 882007635 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882007636 catalytic residue [active] 882007637 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 882007638 homotrimer interaction site [polypeptide binding]; other site 882007639 putative active site [active] 882007640 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 882007641 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 882007642 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 882007643 active site 882007644 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 882007645 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 882007646 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 882007647 Ligand Binding Site [chemical binding]; other site 882007648 FtsI repressor; Provisional; Region: PRK10883 882007649 Cupredoxin superfamily; Region: Cupredoxin; cl19115 882007650 Cupredoxin superfamily; Region: Cupredoxin; cl19115 882007651 Cupredoxin superfamily; Region: Cupredoxin; cl19115 882007652 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 882007653 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882007654 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14248 882007655 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 882007656 Walker A/P-loop; other site 882007657 ATP binding site [chemical binding]; other site 882007658 Q-loop/lid; other site 882007659 ABC transporter signature motif; other site 882007660 Walker B; other site 882007661 D-loop; other site 882007662 H-loop/switch region; other site 882007663 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 882007664 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 882007665 dimer interface [polypeptide binding]; other site 882007666 conserved gate region; other site 882007667 putative PBP binding loops; other site 882007668 ABC-ATPase subunit interface; other site 882007669 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 882007670 dimer interface [polypeptide binding]; other site 882007671 conserved gate region; other site 882007672 putative PBP binding loops; other site 882007673 ABC-ATPase subunit interface; other site 882007674 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 882007675 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 882007676 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 882007677 Substrate binding site; other site 882007678 Mg++ binding site; other site 882007679 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 882007680 active site 882007681 substrate binding site [chemical binding]; other site 882007682 CoA binding site [chemical binding]; other site 882007683 rod shape-determining protein MreC; Region: MreC; cl19252 882007684 Cell division protein ZapA; Region: ZapA; pfam05164 882007685 ribonuclease Y; Region: RNase_Y; TIGR03319 882007686 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 882007687 KH domain; Region: KH_1; pfam00013 882007688 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882007689 Zn2+ binding site [ion binding]; other site 882007690 Mg2+ binding site [ion binding]; other site 882007691 Predicted membrane protein [Function unknown]; Region: COG2860 882007692 UPF0126 domain; Region: UPF0126; pfam03458 882007693 UPF0126 domain; Region: UPF0126; pfam03458 882007694 FAD dependent oxidoreductase; Region: DAO; pfam01266 882007695 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882007696 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 882007697 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 882007698 catalytic loop [active] 882007699 iron binding site [ion binding]; other site 882007700 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882007701 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882007702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 882007703 active site 882007704 phosphorylation site [posttranslational modification] 882007705 intermolecular recognition site; other site 882007706 dimerization interface [polypeptide binding]; other site 882007707 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 882007708 DNA binding residues [nucleotide binding] 882007709 dimerization interface [polypeptide binding]; other site 882007710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007711 active site 882007712 phosphorylation site [posttranslational modification] 882007713 intermolecular recognition site; other site 882007714 dimerization interface [polypeptide binding]; other site 882007715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007716 active site 882007717 phosphorylation site [posttranslational modification] 882007718 intermolecular recognition site; other site 882007719 dimerization interface [polypeptide binding]; other site 882007720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882007721 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 882007722 dimer interface [polypeptide binding]; other site 882007723 phosphorylation site [posttranslational modification] 882007724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007725 ATP binding site [chemical binding]; other site 882007726 Mg2+ binding site [ion binding]; other site 882007727 G-X-G motif; other site 882007728 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 882007729 RNA binding surface [nucleotide binding]; other site 882007730 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882007731 active site 882007732 PAS fold; Region: PAS_4; pfam08448 882007733 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007734 putative active site [active] 882007735 heme pocket [chemical binding]; other site 882007736 PAS domain S-box; Region: sensory_box; TIGR00229 882007737 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007738 putative active site [active] 882007739 heme pocket [chemical binding]; other site 882007740 GAF domain; Region: GAF_2; pfam13185 882007741 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 882007742 dimer interface [polypeptide binding]; other site 882007743 phosphorylation site [posttranslational modification] 882007744 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882007745 ATP binding site [chemical binding]; other site 882007746 Mg2+ binding site [ion binding]; other site 882007747 G-X-G motif; other site 882007748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007749 active site 882007750 phosphorylation site [posttranslational modification] 882007751 intermolecular recognition site; other site 882007752 dimerization interface [polypeptide binding]; other site 882007753 flavodoxin, short chain; Region: flav_short; TIGR01753 882007754 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882007755 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 882007756 Flagellar protein YcgR; Region: YcgR_2; pfam12945 882007757 PilZ domain; Region: PilZ; pfam07238 882007758 Mu-like bacteriophage. target-site duplication = AAGGC; PHAGE06 882007759 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 882007760 Predicted transcriptional regulator [Transcription]; Region: COG2932 882007761 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 882007762 Catalytic site [active] 882007763 Integrase core domain; Region: rve; pfam00665 882007764 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 882007765 AAA domain; Region: AAA_22; pfam13401 882007766 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 882007767 putative DNA binding site [nucleotide binding]; other site 882007768 putative Zn2+ binding site [ion binding]; other site 882007769 Protein of unknown function DUF111; Region: DUF111; cl03398 882007770 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882007771 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 882007772 Mor transcription activator family; Region: Mor; cl02360 882007773 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 882007774 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 882007775 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882007776 catalytic residue [active] 882007777 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 882007778 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 882007779 Protein of unknown function (DUF935); Region: DUF935; pfam06074 882007780 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 882007781 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 882007782 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 882007783 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 882007784 Predicted membrane protein [Function unknown]; Region: COG5373 882007785 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 882007786 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 882007787 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 882007788 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 882007789 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 882007790 argininosuccinate lyase; Provisional; Region: PRK02186 882007791 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 882007792 DNA circularisation protein N-terminus; Region: DNA_circ_N; cl19561 882007793 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 882007794 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 882007795 Phage protein GP46; Region: GP46; pfam07409 882007796 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 882007797 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 882007798 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 882007799 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 882007800 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 882007801 Mu-like prophage protein Com; Region: Mu-like_Com; pfam10122 882007802 DNA methylase; Region: N6_N4_Mtase; cl17433 882007803 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; pfam08735 882007804 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 882007805 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882007806 acyl-activating enzyme (AAE) consensus motif; other site 882007807 AMP binding site [chemical binding]; other site 882007808 active site 882007809 CoA binding site [chemical binding]; other site 882007810 Protein of unknown function (DUF456); Region: DUF456; pfam04306 882007811 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 882007812 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 882007813 Cache domain; Region: Cache_1; pfam02743 882007814 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 882007815 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 882007816 dimerization interface [polypeptide binding]; other site 882007817 PAS fold; Region: PAS_4; pfam08448 882007818 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007819 putative active site [active] 882007820 heme pocket [chemical binding]; other site 882007821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882007822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882007823 dimer interface [polypeptide binding]; other site 882007824 putative CheW interface [polypeptide binding]; other site 882007825 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882007826 pyruvate phosphate dikinase; Provisional; Region: PRK05878 882007827 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882007828 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 882007829 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 882007830 Walker A/P-loop; other site 882007831 ATP binding site [chemical binding]; other site 882007832 Q-loop/lid; other site 882007833 ABC transporter signature motif; other site 882007834 Walker B; other site 882007835 D-loop; other site 882007836 H-loop/switch region; other site 882007837 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 882007838 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 882007839 Walker A/P-loop; other site 882007840 ATP binding site [chemical binding]; other site 882007841 Q-loop/lid; other site 882007842 ABC transporter signature motif; other site 882007843 Walker B; other site 882007844 D-loop; other site 882007845 H-loop/switch region; other site 882007846 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 882007847 TM-ABC transporter signature motif; other site 882007848 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 882007849 TM-ABC transporter signature motif; other site 882007850 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 882007851 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 882007852 putative ligand binding site [chemical binding]; other site 882007853 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 882007854 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 882007855 active site 882007856 SAM binding site [chemical binding]; other site 882007857 homodimer interface [polypeptide binding]; other site 882007858 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 882007859 active site 882007860 putative homodimer interface [polypeptide binding]; other site 882007861 SAM binding site [chemical binding]; other site 882007862 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 882007863 S-adenosylmethionine binding site [chemical binding]; other site 882007864 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 882007865 Methylamine utilisation protein MauE; Region: MauE; pfam07291 882007866 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 882007867 active site residue [active] 882007868 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 882007869 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 882007870 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 882007871 NADP binding site [chemical binding]; other site 882007872 dimer interface [polypeptide binding]; other site 882007873 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 882007874 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 882007875 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 882007876 FeS/SAM binding site; other site 882007877 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 882007878 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 882007879 FeS/SAM binding site; other site 882007880 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 882007881 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 882007882 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 882007883 metal binding site [ion binding]; metal-binding site 882007884 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882007885 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 882007886 nucleotidyl binding site; other site 882007887 metal binding site [ion binding]; metal-binding site 882007888 TPR repeat; Region: TPR_11; pfam13414 882007889 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 882007890 binding surface 882007891 TPR repeat; Region: TPR_11; pfam13414 882007892 TPR motif; other site 882007893 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 882007894 binding surface 882007895 TPR repeat; Region: TPR_11; pfam13414 882007896 TPR motif; other site 882007897 TPR repeat; Region: TPR_11; pfam13414 882007898 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 882007899 putative FMN binding site [chemical binding]; other site 882007900 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 882007901 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 882007902 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882007903 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 882007904 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882007905 active site 882007906 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 882007907 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 882007908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882007909 active site 882007910 phosphorylation site [posttranslational modification] 882007911 intermolecular recognition site; other site 882007912 dimerization interface [polypeptide binding]; other site 882007913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 882007914 Tim44-like domain; Region: Tim44; pfam04280 882007915 hypothetical protein; Provisional; Region: PRK04194 882007916 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882007917 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882007918 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882007919 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882007920 FOG: CBS domain [General function prediction only]; Region: COG0517 882007921 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 882007922 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 882007923 DsrC like protein; Region: DsrC; pfam04358 882007924 hypothetical protein; Provisional; Region: PRK11622 882007925 Uncharacterized conserved protein [Function unknown]; Region: COG1284 882007926 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882007927 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 882007928 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 882007929 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882007930 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 882007931 active site 882007932 substrate binding site [chemical binding]; other site 882007933 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 882007934 FMN binding site [chemical binding]; other site 882007935 putative catalytic residues [active] 882007936 Transcriptional regulators [Transcription]; Region: FadR; COG2186 882007937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882007938 DNA-binding site [nucleotide binding]; DNA binding site 882007939 FCD domain; Region: FCD; pfam07729 882007940 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 882007941 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 882007942 dimerization interface [polypeptide binding]; other site 882007943 putative DNA binding site [nucleotide binding]; other site 882007944 putative Zn2+ binding site [ion binding]; other site 882007945 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 882007946 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007947 heme-binding residues [chemical binding]; other site 882007948 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007949 heme-binding residues [chemical binding]; other site 882007950 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007951 heme-binding residues [chemical binding]; other site 882007952 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 882007953 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 882007954 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 882007955 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 882007956 FMN-binding domain; Region: FMN_bind; cl01081 882007957 electron transport complex RsxE subunit; Provisional; Region: PRK12405 882007958 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 882007959 ferredoxin; Validated; Region: PRK07118 882007960 Putative Fe-S cluster; Region: FeS; cl17515 882007961 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882007962 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882007963 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882007964 ApbE family; Region: ApbE; pfam02424 882007965 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882007966 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882007967 putative Zn2+ binding site [ion binding]; other site 882007968 putative DNA binding site [nucleotide binding]; other site 882007969 dimerization interface [polypeptide binding]; other site 882007970 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 882007971 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882007972 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882007973 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882007974 putative active site [active] 882007975 heme pocket [chemical binding]; other site 882007976 Transcriptional regulators [Transcription]; Region: FadR; COG2186 882007977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882007978 DNA-binding site [nucleotide binding]; DNA binding site 882007979 FCD domain; Region: FCD; pfam07729 882007980 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 882007981 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 882007982 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 882007983 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 882007984 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 882007985 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 882007986 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 882007987 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; cl10048 882007988 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882007989 heme-binding residues [chemical binding]; other site 882007990 Protein involved in formate dehydrogenase formation; Region: FdhE; cl19312 882007991 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882007992 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 882007993 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 882007994 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 882007995 [4Fe-4S] binding site [ion binding]; other site 882007996 molybdopterin cofactor binding site; other site 882007997 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 882007998 molybdopterin cofactor binding site; other site 882007999 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 882008000 Outer membrane efflux protein; Region: OEP; pfam02321 882008001 Outer membrane efflux protein; Region: OEP; pfam02321 882008002 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 882008003 MMPL family; Region: MMPL; cl14618 882008004 MMPL family; Region: MMPL; cl14618 882008005 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 882008006 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882008007 HlyD family secretion protein; Region: HlyD_3; pfam13437 882008008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882008009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882008010 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 882008011 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 882008012 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 882008013 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 882008014 DctM-like transporters; Region: DctM; pfam06808 882008015 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 882008016 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 882008017 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 882008018 dimer interface [polypeptide binding]; other site 882008019 active site 882008020 glycine loop; other site 882008021 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 882008022 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 882008023 FeS/SAM binding site; other site 882008024 Nif-specific regulatory protein; Region: nifA; TIGR01817 882008025 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008026 putative active site [active] 882008027 heme pocket [chemical binding]; other site 882008028 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 882008029 Walker A motif; other site 882008030 ATP binding site [chemical binding]; other site 882008031 Walker B motif; other site 882008032 arginine finger; other site 882008033 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882008034 lysogenic bacteriophage with hits to lambdoid phages. insertion into tRNA-Gly-3. attL/R=TGGCGCGCCCGGGAGGATTCGAACCCCCGGCCAAGAGCTTAGAAG; PHAGE07 882008035 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 882008036 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 882008037 active site 882008038 catalytic residues [active] 882008039 DNA binding site [nucleotide binding] 882008040 Int/Topo IB signature motif; other site 882008041 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 882008042 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 882008043 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 882008044 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 882008045 non-specific DNA binding site [nucleotide binding]; other site 882008046 salt bridge; other site 882008047 sequence-specific DNA binding site [nucleotide binding]; other site 882008048 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 882008049 non-specific DNA binding site [nucleotide binding]; other site 882008050 salt bridge; other site 882008051 sequence-specific DNA binding site [nucleotide binding]; other site 882008052 Uncharacterized conserved protein [Function unknown]; Region: COG4748 882008053 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 882008054 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 882008055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882008056 Zn2+ binding site [ion binding]; other site 882008057 Mg2+ binding site [ion binding]; other site 882008058 Uncharacterized conserved protein [Function unknown]; Region: COG3465 882008059 EcoRII C terminal; Region: EcoRII-C; pfam09019 882008060 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 882008061 cofactor binding site; other site 882008062 DNA binding site [nucleotide binding] 882008063 substrate interaction site [chemical binding]; other site 882008064 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 882008065 additional DNA contacts [nucleotide binding]; other site 882008066 mismatch recognition site; other site 882008067 active site 882008068 zinc binding site [ion binding]; other site 882008069 DNA intercalation site [nucleotide binding]; other site 882008070 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 882008071 nucleotide binding site/active site [active] 882008072 HIT family signature motif; other site 882008073 catalytic residue [active] 882008074 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 882008075 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 882008076 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 882008077 Phage protein GP46; Region: GP46; pfam07409 882008078 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 882008079 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 882008080 DNA circularisation protein N-terminus; Region: DNA_circ_N; cl19561 882008081 Mu-like prophage protein [General function prediction only]; Region: COG3941 882008082 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 882008083 Phage tail tube protein; Region: Tail_tube; pfam10618 882008084 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 882008085 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 882008086 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 882008087 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 882008088 aminoacyl-tRNA ligase; Region: PLN02959 882008089 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 882008090 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 882008091 Holin family; Region: Phage_holin_4; pfam05105 882008092 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 882008093 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 882008094 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 882008095 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 882008096 tandem repeat interface [polypeptide binding]; other site 882008097 oligomer interface [polypeptide binding]; other site 882008098 active site residues [active] 882008099 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 882008100 Helix-turn-helix domain; Region: HTH_17; pfam12728 882008101 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 882008102 ParB-like nuclease domain; Region: ParB; smart00470 882008103 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 882008104 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 882008105 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 882008106 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 882008107 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; cd00188 882008108 active site 882008109 metal binding site [ion binding]; metal-binding site 882008110 hypothetical protein; Provisional; Region: PRK14709 882008111 D5 N terminal like; Region: D5_N; pfam08706 882008112 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 882008113 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 882008114 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882008115 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 882008116 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 882008117 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 882008118 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882008119 catalytic residue [active] 882008120 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 882008121 oligomer interface [polypeptide binding]; other site 882008122 putative active site [active] 882008123 metal binding site [ion binding]; metal-binding site 882008124 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 882008125 putative active site [active] 882008126 metal binding site [ion binding]; metal-binding site 882008127 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 882008128 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 882008129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882008130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882008131 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882008132 EamA-like transporter family; Region: EamA; pfam00892 882008133 EamA-like transporter family; Region: EamA; pfam00892 882008134 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882008135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882008136 Q-loop/lid; other site 882008137 ABC transporter signature motif; other site 882008138 Walker B; other site 882008139 D-loop; other site 882008140 H-loop/switch region; other site 882008141 BioY family; Region: BioY; pfam02632 882008142 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 882008143 S-adenosylmethionine binding site [chemical binding]; other site 882008144 nickel responsive regulator; Provisional; Region: PRK04460 882008145 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 882008146 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 882008147 putative GTP cyclohydrolase; Provisional; Region: PRK13674 882008148 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 882008149 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 882008150 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 882008151 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882008152 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 882008153 Walker A motif; other site 882008154 ATP binding site [chemical binding]; other site 882008155 Walker B motif; other site 882008156 arginine finger; other site 882008157 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882008158 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 882008159 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 882008160 putative ligand binding pocket/active site [active] 882008161 putative metal binding site [ion binding]; other site 882008162 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl19151 882008163 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 882008164 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 882008165 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 882008166 active site 882008167 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 882008168 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882008169 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882008170 dihydroorotase; Validated; Region: pyrC; PRK09357 882008171 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 882008172 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 882008173 active site 882008174 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 882008175 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882008176 HD domain; Region: HD; pfam01966 882008177 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 882008178 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 882008179 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 882008180 FeS/SAM binding site; other site 882008181 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 882008182 active site 882008183 NAD binding site [chemical binding]; other site 882008184 metal binding site [ion binding]; metal-binding site 882008185 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 882008186 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 882008187 active site 882008188 DNA binding site [nucleotide binding] 882008189 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 882008190 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 882008191 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 882008192 Catalytic site [active] 882008193 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882008194 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 882008195 Predicted membrane protein [Function unknown]; Region: COG1971 882008196 Domain of unknown function DUF; Region: DUF204; pfam02659 882008197 Domain of unknown function DUF; Region: DUF204; pfam02659 882008198 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 882008199 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 882008200 RNA binding surface [nucleotide binding]; other site 882008201 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 882008202 S-adenosylmethionine binding site [chemical binding]; other site 882008203 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 882008204 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 882008205 peptide chain release factor 1; Validated; Region: prfA; PRK00591 882008206 This domain is found in peptide chain release factors; Region: PCRF; smart00937 882008207 RF-1 domain; Region: RF-1; pfam00472 882008208 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 882008209 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 882008210 S-adenosylmethionine binding site [chemical binding]; other site 882008211 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 882008212 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 882008213 elongation factor Tu; Reviewed; Region: PRK00049 882008214 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 882008215 G1 box; other site 882008216 GEF interaction site [polypeptide binding]; other site 882008217 GTP/Mg2+ binding site [chemical binding]; other site 882008218 Switch I region; other site 882008219 G2 box; other site 882008220 G3 box; other site 882008221 Switch II region; other site 882008222 G4 box; other site 882008223 G5 box; other site 882008224 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 882008225 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 882008226 Antibiotic Binding Site [chemical binding]; other site 882008227 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 882008228 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 882008229 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 882008230 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 882008231 putative homodimer interface [polypeptide binding]; other site 882008232 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 882008233 heterodimer interface [polypeptide binding]; other site 882008234 homodimer interface [polypeptide binding]; other site 882008235 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 882008236 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 882008237 23S rRNA interface [nucleotide binding]; other site 882008238 L7/L12 interface [polypeptide binding]; other site 882008239 putative thiostrepton binding site; other site 882008240 L25 interface [polypeptide binding]; other site 882008241 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 882008242 mRNA/rRNA interface [nucleotide binding]; other site 882008243 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 882008244 23S rRNA interface [nucleotide binding]; other site 882008245 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 882008246 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 882008247 core dimer interface [polypeptide binding]; other site 882008248 peripheral dimer interface [polypeptide binding]; other site 882008249 L10 interface [polypeptide binding]; other site 882008250 L11 interface [polypeptide binding]; other site 882008251 putative EF-Tu interaction site [polypeptide binding]; other site 882008252 putative EF-G interaction site [polypeptide binding]; other site 882008253 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 882008254 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 882008255 RPB12 interaction site [polypeptide binding]; other site 882008256 RPB1 interaction site [polypeptide binding]; other site 882008257 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 882008258 RPB10 interaction site [polypeptide binding]; other site 882008259 RPB11 interaction site [polypeptide binding]; other site 882008260 RPB3 interaction site [polypeptide binding]; other site 882008261 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 882008262 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 882008263 beta and beta' interface [polypeptide binding]; other site 882008264 beta' and sigma factor interface [polypeptide binding]; other site 882008265 Zn-binding [ion binding]; other site 882008266 active site region [active] 882008267 catalytic site [active] 882008268 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 882008269 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 882008270 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 882008271 G-loop; other site 882008272 DNA binding site [nucleotide binding] 882008273 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 882008274 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 882008275 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 882008276 dimerization interface [polypeptide binding]; other site 882008277 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008278 putative active site [active] 882008279 heme pocket [chemical binding]; other site 882008280 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 882008281 dimer interface [polypeptide binding]; other site 882008282 phosphorylation site [posttranslational modification] 882008283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008284 ATP binding site [chemical binding]; other site 882008285 Mg2+ binding site [ion binding]; other site 882008286 G-X-G motif; other site 882008287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882008288 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 882008289 NAD(P) binding site [chemical binding]; other site 882008290 active site 882008291 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 882008292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008293 active site 882008294 phosphorylation site [posttranslational modification] 882008295 intermolecular recognition site; other site 882008296 dimerization interface [polypeptide binding]; other site 882008297 PAS fold; Region: PAS_4; pfam08448 882008298 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008299 putative active site [active] 882008300 heme pocket [chemical binding]; other site 882008301 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882008302 Zn2+ binding site [ion binding]; other site 882008303 Mg2+ binding site [ion binding]; other site 882008304 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882008305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008306 active site 882008307 phosphorylation site [posttranslational modification] 882008308 intermolecular recognition site; other site 882008309 dimerization interface [polypeptide binding]; other site 882008310 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 882008311 Walker A motif; other site 882008312 ATP binding site [chemical binding]; other site 882008313 Walker B motif; other site 882008314 arginine finger; other site 882008315 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882008316 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 882008317 catalytic core [active] 882008318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008319 active site 882008320 phosphorylation site [posttranslational modification] 882008321 intermolecular recognition site; other site 882008322 dimerization interface [polypeptide binding]; other site 882008323 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 882008324 TPR repeat; Region: TPR_11; pfam13414 882008325 binding surface 882008326 TPR motif; other site 882008327 TPR repeat; Region: TPR_11; pfam13414 882008328 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 882008329 TPR motif; other site 882008330 TPR repeat; Region: TPR_11; pfam13414 882008331 binding surface 882008332 TPR repeat; Region: TPR_11; pfam13414 882008333 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 882008334 binding surface 882008335 TPR motif; other site 882008336 Domain of unknown function DUF39; Region: DUF39; pfam01837 882008337 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 882008338 Ligand Binding Site [chemical binding]; other site 882008339 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 882008340 Gammaherpesvirus capsid protein; Region: Herpes_capsid; pfam06112 882008341 adenylosuccinate lyase; Provisional; Region: PRK07492 882008342 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 882008343 tetramer interface [polypeptide binding]; other site 882008344 active site 882008345 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 882008346 active site 882008347 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882008348 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 882008349 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 882008350 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 882008351 ATP cone domain; Region: ATP-cone; pfam03477 882008352 Class III ribonucleotide reductase; Region: RNR_III; cd01675 882008353 effector binding site; other site 882008354 active site 882008355 Zn binding site [ion binding]; other site 882008356 glycine loop; other site 882008357 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882008358 Protein of unknown function, DUF486; Region: DUF486; cl01236 882008359 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 882008360 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 882008361 active site 882008362 HIGH motif; other site 882008363 KMSKS motif; other site 882008364 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 882008365 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882008366 EamA-like transporter family; Region: EamA; pfam00892 882008367 EamA-like transporter family; Region: EamA; pfam00892 882008368 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 882008369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882008370 DNA-binding site [nucleotide binding]; DNA binding site 882008371 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 882008372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882008373 homodimer interface [polypeptide binding]; other site 882008374 catalytic residue [active] 882008375 Cache domain; Region: Cache_1; pfam02743 882008376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882008377 metal binding site [ion binding]; metal-binding site 882008378 active site 882008379 I-site; other site 882008380 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 882008381 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882008382 Walker A motif; other site 882008383 ATP binding site [chemical binding]; other site 882008384 Walker B motif; other site 882008385 arginine finger; other site 882008386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882008387 Predicted permeases [General function prediction only]; Region: COG0730 882008388 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008389 PAS domain; Region: PAS_9; pfam13426 882008390 putative active site [active] 882008391 heme pocket [chemical binding]; other site 882008392 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882008393 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 882008394 Walker A motif; other site 882008395 ATP binding site [chemical binding]; other site 882008396 Walker B motif; other site 882008397 arginine finger; other site 882008398 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882008399 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 882008400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882008401 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 882008402 dimer interface [polypeptide binding]; other site 882008403 phosphorylation site [posttranslational modification] 882008404 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008405 ATP binding site [chemical binding]; other site 882008406 Mg2+ binding site [ion binding]; other site 882008407 G-X-G motif; other site 882008408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008409 active site 882008410 phosphorylation site [posttranslational modification] 882008411 intermolecular recognition site; other site 882008412 dimerization interface [polypeptide binding]; other site 882008413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008414 active site 882008415 phosphorylation site [posttranslational modification] 882008416 intermolecular recognition site; other site 882008417 dimerization interface [polypeptide binding]; other site 882008418 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882008419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008420 active site 882008421 phosphorylation site [posttranslational modification] 882008422 intermolecular recognition site; other site 882008423 dimerization interface [polypeptide binding]; other site 882008424 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 882008425 dimer interface [polypeptide binding]; other site 882008426 phosphorylation site [posttranslational modification] 882008427 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008428 ATP binding site [chemical binding]; other site 882008429 Mg2+ binding site [ion binding]; other site 882008430 G-X-G motif; other site 882008431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008432 active site 882008433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882008434 phosphorylation site [posttranslational modification] 882008435 intermolecular recognition site; other site 882008436 dimerization interface [polypeptide binding]; other site 882008437 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 882008438 dimer interface [polypeptide binding]; other site 882008439 phosphorylation site [posttranslational modification] 882008440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008441 ATP binding site [chemical binding]; other site 882008442 Mg2+ binding site [ion binding]; other site 882008443 G-X-G motif; other site 882008444 acetyl-CoA synthetase; Provisional; Region: PRK00174 882008445 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 882008446 active site 882008447 CoA binding site [chemical binding]; other site 882008448 acyl-activating enzyme (AAE) consensus motif; other site 882008449 AMP binding site [chemical binding]; other site 882008450 acetate binding site [chemical binding]; other site 882008451 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 882008452 CoA binding domain; Region: CoA_binding_2; pfam13380 882008453 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 882008454 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 882008455 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 882008456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882008457 Coenzyme A binding pocket [chemical binding]; other site 882008458 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 882008459 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 882008460 active site 882008461 CheD chemotactic sensory transduction; Region: CheD; pfam03975 882008462 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 882008463 dimer interface [polypeptide binding]; other site 882008464 DNA binding site [nucleotide binding] 882008465 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 882008466 Protein of unknown function (DUF523); Region: DUF523; pfam04463 882008467 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 882008468 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 882008469 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 882008470 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 882008471 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 882008472 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 882008473 2-isopropylmalate synthase; Validated; Region: PRK00915 882008474 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 882008475 active site 882008476 catalytic residues [active] 882008477 metal binding site [ion binding]; metal-binding site 882008478 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 882008479 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 882008480 substrate binding site [chemical binding]; other site 882008481 ligand binding site [chemical binding]; other site 882008482 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 882008483 substrate binding site [chemical binding]; other site 882008484 Protein of unknown function DUF89; Region: DUF89; cl15397 882008485 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 882008486 phage shock protein C; Region: phageshock_pspC; TIGR02978 882008487 PspC domain; Region: PspC; pfam04024 882008488 phage shock protein B; Region: phageshock_pspB; TIGR02976 882008489 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 882008490 phage shock protein A; Region: phageshock_pspA; TIGR02977 882008491 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 882008492 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 882008493 Walker A motif; other site 882008494 ATP binding site [chemical binding]; other site 882008495 Walker B motif; other site 882008496 arginine finger; other site 882008497 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882008498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 882008499 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 882008500 dimer interface [polypeptide binding]; other site 882008501 putative functional site; other site 882008502 putative MPT binding site; other site 882008503 PBP superfamily domain; Region: PBP_like; pfam12727 882008504 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 882008505 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 882008506 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882008507 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 882008508 active site 882008509 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 882008510 active site 882008511 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 882008512 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882008513 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 882008514 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882008515 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 882008516 active site 882008517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882008518 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 882008519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882008520 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882008521 NAD(P) binding site [chemical binding]; other site 882008522 active site 882008523 Methyltransferase domain; Region: Methyltransf_24; pfam13578 882008524 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 882008525 S-adenosylmethionine binding site [chemical binding]; other site 882008526 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 882008527 putative active site [active] 882008528 substrate binding site [chemical binding]; other site 882008529 putative cosubstrate binding site; other site 882008530 catalytic site [active] 882008531 Protein of unknown function (DUF692); Region: DUF692; cl01263 882008532 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 882008533 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 882008534 S-adenosylmethionine binding site [chemical binding]; other site 882008535 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 882008536 FeS/SAM binding site; other site 882008537 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 882008538 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 882008539 active site 882008540 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 882008541 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882008542 FeS/SAM binding site; other site 882008543 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 882008544 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 882008545 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882008546 catalytic residue [active] 882008547 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 882008548 ligand binding site; other site 882008549 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 882008550 S-adenosylmethionine binding site [chemical binding]; other site 882008551 Tetratricopeptide repeat; Region: TPR_19; pfam14559 882008552 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 882008553 NeuB family; Region: NeuB; pfam03102 882008554 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 882008555 NeuB binding interface [polypeptide binding]; other site 882008556 putative substrate binding site [chemical binding]; other site 882008557 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 882008558 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882008559 FeS/SAM binding site; other site 882008560 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 882008561 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 882008562 inhibitor-cofactor binding pocket; inhibition site 882008563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882008564 catalytic residue [active] 882008565 WbqC-like protein family; Region: WbqC; pfam08889 882008566 Tetratricopeptide repeat; Region: TPR_19; pfam14559 882008567 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 882008568 TPR motif; other site 882008569 binding surface 882008570 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 882008571 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 882008572 Ligand binding site; other site 882008573 Putative Catalytic site; other site 882008574 DXD motif; other site 882008575 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 882008576 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 882008577 active site 882008578 dimer interface [polypeptide binding]; other site 882008579 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 882008580 Ligand Binding Site [chemical binding]; other site 882008581 Molecular Tunnel; other site 882008582 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 882008583 S-adenosylmethionine binding site [chemical binding]; other site 882008584 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 882008585 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 882008586 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882008587 FeS/SAM binding site; other site 882008588 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 882008589 S-adenosylmethionine binding site [chemical binding]; other site 882008590 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 882008591 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 882008592 FeS/SAM binding site; other site 882008593 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 882008594 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 882008595 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 882008596 FeS/SAM binding site; other site 882008597 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 882008598 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882008599 Zn2+ binding site [ion binding]; other site 882008600 Mg2+ binding site [ion binding]; other site 882008601 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882008602 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008603 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882008604 putative active site [active] 882008605 heme pocket [chemical binding]; other site 882008606 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008607 putative active site [active] 882008608 heme pocket [chemical binding]; other site 882008609 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882008610 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008611 putative active site [active] 882008612 heme pocket [chemical binding]; other site 882008613 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 882008614 dimer interface [polypeptide binding]; other site 882008615 phosphorylation site [posttranslational modification] 882008616 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008617 ATP binding site [chemical binding]; other site 882008618 Mg2+ binding site [ion binding]; other site 882008619 G-X-G motif; other site 882008620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008621 active site 882008622 phosphorylation site [posttranslational modification] 882008623 intermolecular recognition site; other site 882008624 dimerization interface [polypeptide binding]; other site 882008625 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882008626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008627 active site 882008628 phosphorylation site [posttranslational modification] 882008629 intermolecular recognition site; other site 882008630 dimerization interface [polypeptide binding]; other site 882008631 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 882008632 Walker A motif; other site 882008633 ATP binding site [chemical binding]; other site 882008634 Walker B motif; other site 882008635 arginine finger; other site 882008636 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 882008637 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 882008638 dimer interface [polypeptide binding]; other site 882008639 PYR/PP interface [polypeptide binding]; other site 882008640 TPP binding site [chemical binding]; other site 882008641 substrate binding site [chemical binding]; other site 882008642 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 882008643 Domain of unknown function; Region: EKR; pfam10371 882008644 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882008645 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 882008646 TPP-binding site [chemical binding]; other site 882008647 dimer interface [polypeptide binding]; other site 882008648 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 882008649 FAD binding domain; Region: FAD_binding_4; pfam01565 882008650 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 882008651 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 882008652 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882008653 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882008654 Cysteine-rich domain; Region: CCG; pfam02754 882008655 Cysteine-rich domain; Region: CCG; pfam02754 882008656 phosphate acetyltransferase; Reviewed; Region: PRK05632 882008657 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 882008658 DRTGG domain; Region: DRTGG; pfam07085 882008659 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 882008660 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 882008661 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 882008662 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 882008663 DRTGG domain; Region: DRTGG; pfam07085 882008664 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 882008665 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 882008666 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 882008667 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882008668 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882008669 Cysteine-rich domain; Region: CCG; pfam02754 882008670 Cysteine-rich domain; Region: CCG; pfam02754 882008671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 882008672 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 882008673 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 882008674 dimerization interface [polypeptide binding]; other site 882008675 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 882008676 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882008677 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882008678 dimer interface [polypeptide binding]; other site 882008679 putative CheW interface [polypeptide binding]; other site 882008680 Domain of unknown function (DUF362); Region: DUF362; pfam04015 882008681 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 882008682 active site residue [active] 882008683 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 882008684 diiron binding motif [ion binding]; other site 882008685 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882008686 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 882008687 substrate binding pocket [chemical binding]; other site 882008688 membrane-bound complex binding site; other site 882008689 hinge residues; other site 882008690 Cytochrome c; Region: Cytochrom_C; cl11414 882008691 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 882008692 PAS domain; Region: PAS; smart00091 882008693 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882008694 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008695 putative active site [active] 882008696 heme pocket [chemical binding]; other site 882008697 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882008698 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 882008699 dimer interface [polypeptide binding]; other site 882008700 phosphorylation site [posttranslational modification] 882008701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008702 ATP binding site [chemical binding]; other site 882008703 Mg2+ binding site [ion binding]; other site 882008704 G-X-G motif; other site 882008705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008706 active site 882008707 phosphorylation site [posttranslational modification] 882008708 intermolecular recognition site; other site 882008709 dimerization interface [polypeptide binding]; other site 882008710 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 882008711 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 882008712 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 882008713 homodimer interface [polypeptide binding]; other site 882008714 substrate-cofactor binding pocket; other site 882008715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882008716 catalytic residue [active] 882008717 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 882008718 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 882008719 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 882008720 Hemerythrin; Region: Hemerythrin; cd12107 882008721 Fe binding site [ion binding]; other site 882008722 Protein of unknown function, DUF606; Region: DUF606; pfam04657 882008723 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 882008724 active site 882008725 8-oxo-dGMP binding site [chemical binding]; other site 882008726 nudix motif; other site 882008727 metal binding site [ion binding]; metal-binding site 882008728 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 882008729 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882008730 AAA domain; Region: AAA_17; pfam13207 882008731 ABC transporter; Region: ABC_tran_2; pfam12848 882008732 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 882008733 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 882008734 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 882008735 S-adenosylmethionine binding site [chemical binding]; other site 882008736 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 882008737 FeS/SAM binding site; other site 882008738 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 882008739 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 882008740 homodimer interface [polypeptide binding]; other site 882008741 oligonucleotide binding site [chemical binding]; other site 882008742 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 882008743 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 882008744 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 882008745 Ligand Binding Site [chemical binding]; other site 882008746 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 882008747 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 882008748 HemN C-terminal domain; Region: HemN_C; pfam06969 882008749 PAS domain S-box; Region: sensory_box; TIGR00229 882008750 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 882008751 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 882008752 dimer interface [polypeptide binding]; other site 882008753 phosphorylation site [posttranslational modification] 882008754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008755 ATP binding site [chemical binding]; other site 882008756 Mg2+ binding site [ion binding]; other site 882008757 G-X-G motif; other site 882008758 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882008759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008760 active site 882008761 phosphorylation site [posttranslational modification] 882008762 intermolecular recognition site; other site 882008763 dimerization interface [polypeptide binding]; other site 882008764 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 882008765 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 882008766 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 882008767 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 882008768 P loop; other site 882008769 GTP binding site [chemical binding]; other site 882008770 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008771 PAS fold; Region: PAS_3; pfam08447 882008772 putative active site [active] 882008773 heme pocket [chemical binding]; other site 882008774 PAS domain; Region: PAS; smart00091 882008775 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882008776 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 882008777 dimer interface [polypeptide binding]; other site 882008778 phosphorylation site [posttranslational modification] 882008779 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008780 ATP binding site [chemical binding]; other site 882008781 Mg2+ binding site [ion binding]; other site 882008782 G-X-G motif; other site 882008783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882008784 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 882008785 dimerization interface [polypeptide binding]; other site 882008786 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 882008787 dimer interface [polypeptide binding]; other site 882008788 phosphorylation site [posttranslational modification] 882008789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882008790 ATP binding site [chemical binding]; other site 882008791 Mg2+ binding site [ion binding]; other site 882008792 G-X-G motif; other site 882008793 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 882008794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882008795 active site 882008796 phosphorylation site [posttranslational modification] 882008797 intermolecular recognition site; other site 882008798 dimerization interface [polypeptide binding]; other site 882008799 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 882008800 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 882008801 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 882008802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008803 PAS fold; Region: PAS_3; pfam08447 882008804 putative active site [active] 882008805 heme pocket [chemical binding]; other site 882008806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882008807 metal binding site [ion binding]; metal-binding site 882008808 active site 882008809 I-site; other site 882008810 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 882008811 AMP-binding domain protein; Validated; Region: PRK08315 882008812 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 882008813 acyl-activating enzyme (AAE) consensus motif; other site 882008814 putative AMP binding site [chemical binding]; other site 882008815 putative active site [active] 882008816 putative CoA binding site [chemical binding]; other site 882008817 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 882008818 non-specific DNA binding site [nucleotide binding]; other site 882008819 salt bridge; other site 882008820 sequence-specific DNA binding site [nucleotide binding]; other site 882008821 Cupin domain; Region: Cupin_2; pfam07883 882008822 Acylphosphatase; Region: Acylphosphatase; pfam00708 882008823 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 882008824 HypF finger; Region: zf-HYPF; pfam07503 882008825 HypF finger; Region: zf-HYPF; pfam07503 882008826 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 882008827 GAF domain; Region: GAF; pfam01590 882008828 PAS domain; Region: PAS; smart00091 882008829 PAS domain S-box; Region: sensory_box; TIGR00229 882008830 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008831 putative active site [active] 882008832 heme pocket [chemical binding]; other site 882008833 PAS domain S-box; Region: sensory_box; TIGR00229 882008834 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008835 putative active site [active] 882008836 heme pocket [chemical binding]; other site 882008837 PAS domain S-box; Region: sensory_box; TIGR00229 882008838 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882008839 putative active site [active] 882008840 heme pocket [chemical binding]; other site 882008841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882008842 metal binding site [ion binding]; metal-binding site 882008843 active site 882008844 I-site; other site 882008845 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 882008846 dimerization interface [polypeptide binding]; other site 882008847 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 882008848 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 882008849 FAD binding domain; Region: FAD_binding_4; pfam01565 882008850 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 882008851 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882008852 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882008853 Cysteine-rich domain; Region: CCG; pfam02754 882008854 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 882008855 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 882008856 dimer interface [polypeptide binding]; other site 882008857 conserved gate region; other site 882008858 putative PBP binding loops; other site 882008859 ABC-ATPase subunit interface; other site 882008860 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; cl00427 882008861 FtsJ-like methyltransferase; Region: FtsJ; cl17430 882008862 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882008863 EamA-like transporter family; Region: EamA; pfam00892 882008864 EamA-like transporter family; Region: EamA; pfam00892 882008865 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 882008866 catalytic residues [active] 882008867 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 882008868 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 882008869 dimer interface [polypeptide binding]; other site 882008870 catalytic triad [active] 882008871 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 882008872 Zn binding site [ion binding]; other site 882008873 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl19880 882008874 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 882008875 EamA-like transporter family; Region: EamA; pfam00892 882008876 EamA-like transporter family; Region: EamA; pfam00892 882008877 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 882008878 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 882008879 dimerization interface [polypeptide binding]; other site 882008880 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882008881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882008882 dimer interface [polypeptide binding]; other site 882008883 putative CheW interface [polypeptide binding]; other site 882008884 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl19880 882008885 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 882008886 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 882008887 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 882008888 catalytic triad [active] 882008889 Precorrin-8X methylmutase; Region: CbiC; pfam02570 882008890 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 882008891 DEAD-like helicases superfamily; Region: DEXDc; smart00487 882008892 ATP binding site [chemical binding]; other site 882008893 Mg++ binding site [ion binding]; other site 882008894 motif III; other site 882008895 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 882008896 nucleotide binding region [chemical binding]; other site 882008897 ATP-binding site [chemical binding]; other site 882008898 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 882008899 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 882008900 FAD binding domain; Region: FAD_binding_2; pfam00890 882008901 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 882008902 Rubredoxin [Energy production and conversion]; Region: COG1773 882008903 iron binding site [ion binding]; other site 882008904 Rubrerythrin [Energy production and conversion]; Region: COG1592 882008905 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 882008906 binuclear metal center [ion binding]; other site 882008907 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 882008908 iron binding site [ion binding]; other site 882008909 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882008910 metal binding site 2 [ion binding]; metal-binding site 882008911 putative DNA binding helix; other site 882008912 metal binding site 1 [ion binding]; metal-binding site 882008913 dimer interface [polypeptide binding]; other site 882008914 structural Zn2+ binding site [ion binding]; other site 882008915 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 882008916 Outer membrane efflux protein; Region: OEP; pfam02321 882008917 Outer membrane efflux protein; Region: OEP; pfam02321 882008918 TolQ protein; Region: tolQ; TIGR02796 882008919 TolR protein; Region: tolR; TIGR02801 882008920 TolA protein; Region: tolA_full; TIGR02794 882008921 TonB C terminal; Region: TonB_2; pfam13103 882008922 TolA protein; Region: tolA_full; TIGR02794 882008923 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; cl10048 882008924 TolA protein; Region: tolA_full; TIGR02794 882008925 TonB C terminal; Region: TonB_2; pfam13103 882008926 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 882008927 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882008928 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882008929 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882008930 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882008931 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 882008932 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882008933 ligand binding site [chemical binding]; other site 882008934 MASE1; Region: MASE1; cl17823 882008935 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882008936 metal binding site [ion binding]; metal-binding site 882008937 active site 882008938 I-site; other site 882008939 Hemerythrin; Region: Hemerythrin; cd12107 882008940 Fe binding site [ion binding]; other site 882008941 Cytochrome c; Region: Cytochrom_C; pfam00034 882008942 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 882008943 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 882008944 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 882008945 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882008946 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 882008947 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882008948 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882008949 putative oxidoreductase; Provisional; Region: PRK08275 882008950 L-aspartate oxidase; Provisional; Region: PRK06175 882008951 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 882008952 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 882008953 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882008954 ligand binding site [chemical binding]; other site 882008955 flexible hinge region; other site 882008956 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 882008957 non-specific DNA interactions [nucleotide binding]; other site 882008958 DNA binding site [nucleotide binding] 882008959 sequence specific DNA binding site [nucleotide binding]; other site 882008960 putative cAMP binding site [chemical binding]; other site 882008961 TPR repeat; Region: TPR_11; pfam13414 882008962 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 882008963 binding surface 882008964 TPR motif; other site 882008965 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 882008966 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 882008967 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 882008968 catalytic site [active] 882008969 subunit interface [polypeptide binding]; other site 882008970 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 882008971 Ligand binding site; other site 882008972 oligomer interface; other site 882008973 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 882008974 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 882008975 G1 box; other site 882008976 putative GEF interaction site [polypeptide binding]; other site 882008977 GTP/Mg2+ binding site [chemical binding]; other site 882008978 Switch I region; other site 882008979 G2 box; other site 882008980 G3 box; other site 882008981 Switch II region; other site 882008982 G4 box; other site 882008983 G5 box; other site 882008984 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 882008985 electron transport complex protein RnfC; Provisional; Region: PRK05035 882008986 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 882008987 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 882008988 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 882008989 acyl-activating enzyme (AAE) consensus motif; other site 882008990 putative AMP binding site [chemical binding]; other site 882008991 putative active site [active] 882008992 putative CoA binding site [chemical binding]; other site 882008993 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 882008994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882008995 catalytic residue [active] 882008996 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882008997 Zn2+ binding site [ion binding]; other site 882008998 Mg2+ binding site [ion binding]; other site 882008999 META domain; Region: META; pfam03724 882009000 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 882009001 mce related protein; Region: MCE; pfam02470 882009002 mce related protein; Region: MCE; pfam02470 882009003 mce related protein; Region: MCE; pfam02470 882009004 Protein of unknown function (DUF330); Region: DUF330; pfam03886 882009005 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 882009006 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 882009007 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 882009008 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 882009009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882009010 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 882009011 amphipathic channel; other site 882009012 Asn-Pro-Ala signature motifs; other site 882009013 glycerol kinase; Provisional; Region: glpK; PRK00047 882009014 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 882009015 N- and C-terminal domain interface [polypeptide binding]; other site 882009016 active site 882009017 MgATP binding site [chemical binding]; other site 882009018 catalytic site [active] 882009019 metal binding site [ion binding]; metal-binding site 882009020 glycerol binding site [chemical binding]; other site 882009021 homotetramer interface [polypeptide binding]; other site 882009022 homodimer interface [polypeptide binding]; other site 882009023 FBP binding site [chemical binding]; other site 882009024 protein IIAGlc interface [polypeptide binding]; other site 882009025 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 882009026 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 882009027 dimer interface [polypeptide binding]; other site 882009028 FMN binding site [chemical binding]; other site 882009029 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 882009030 classical (c) SDRs; Region: SDR_c; cd05233 882009031 NAD(P) binding site [chemical binding]; other site 882009032 active site 882009033 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 882009034 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 882009035 substrate binding pocket [chemical binding]; other site 882009036 membrane-bound complex binding site; other site 882009037 hinge residues; other site 882009038 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 882009039 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 882009040 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 882009041 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009042 PAS domain; Region: PAS_9; pfam13426 882009043 putative active site [active] 882009044 heme pocket [chemical binding]; other site 882009045 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 882009046 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882009047 Walker A motif; other site 882009048 ATP binding site [chemical binding]; other site 882009049 Walker B motif; other site 882009050 arginine finger; other site 882009051 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882009052 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882009053 4Fe-4S binding domain; Region: Fer4; pfam00037 882009054 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882009055 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 882009056 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 882009057 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 882009058 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 882009059 putative fatty-acid--CoA ligase; Provisional; Region: PRK12476 882009060 AAA domain; Region: AAA_17; cl19128 882009061 AAA domain; Region: AAA_33; pfam13671 882009062 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 882009063 catalytic core [active] 882009064 4-alpha-glucanotransferase; Provisional; Region: PRK14508 882009065 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 882009066 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 882009067 tandem repeat interface [polypeptide binding]; other site 882009068 oligomer interface [polypeptide binding]; other site 882009069 active site residues [active] 882009070 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 882009071 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 882009072 RNA binding site [nucleotide binding]; other site 882009073 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 882009074 RNA binding site [nucleotide binding]; other site 882009075 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 882009076 RNA binding site [nucleotide binding]; other site 882009077 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 882009078 RNA binding site [nucleotide binding]; other site 882009079 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 882009080 RNA binding site [nucleotide binding]; other site 882009081 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 882009082 RNA binding site [nucleotide binding]; other site 882009083 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 882009084 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 882009085 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 882009086 FeS/SAM binding site; other site 882009087 PAS domain; Region: PAS_9; pfam13426 882009088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009089 putative active site [active] 882009090 heme pocket [chemical binding]; other site 882009091 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 882009092 dimer interface [polypeptide binding]; other site 882009093 phosphorylation site [posttranslational modification] 882009094 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009095 ATP binding site [chemical binding]; other site 882009096 Mg2+ binding site [ion binding]; other site 882009097 G-X-G motif; other site 882009098 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 882009099 active site 882009100 dimerization interface [polypeptide binding]; other site 882009101 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 882009102 dimerization interface [polypeptide binding]; other site 882009103 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882009104 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882009105 dimer interface [polypeptide binding]; other site 882009106 putative CheW interface [polypeptide binding]; other site 882009107 Hemerythrin; Region: Hemerythrin; cd12107 882009108 Fe binding site [ion binding]; other site 882009109 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 882009110 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 882009111 glutaminase active site [active] 882009112 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 882009113 dimer interface [polypeptide binding]; other site 882009114 active site 882009115 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 882009116 dimer interface [polypeptide binding]; other site 882009117 active site 882009118 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 882009119 VacJ like lipoprotein; Region: VacJ; cl01073 882009120 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 882009121 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 882009122 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 882009123 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 882009124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882009125 Walker A/P-loop; other site 882009126 ATP binding site [chemical binding]; other site 882009127 Q-loop/lid; other site 882009128 ABC transporter signature motif; other site 882009129 Walker B; other site 882009130 D-loop; other site 882009131 H-loop/switch region; other site 882009132 TOBE domain; Region: TOBE_2; pfam08402 882009133 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 882009134 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882009135 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 882009136 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 882009137 dimer interface [polypeptide binding]; other site 882009138 conserved gate region; other site 882009139 putative PBP binding loops; other site 882009140 ABC-ATPase subunit interface; other site 882009141 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882009142 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 882009143 dimer interface [polypeptide binding]; other site 882009144 conserved gate region; other site 882009145 putative PBP binding loops; other site 882009146 ABC-ATPase subunit interface; other site 882009147 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 882009148 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 882009149 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 882009150 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 882009151 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 882009152 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 882009153 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 882009154 inhibitor-cofactor binding pocket; inhibition site 882009155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882009156 catalytic residue [active] 882009157 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 882009158 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 882009159 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 882009160 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 882009161 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 882009162 active site 882009163 SAM binding site [chemical binding]; other site 882009164 homodimer interface [polypeptide binding]; other site 882009165 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 882009166 heme-binding residues [chemical binding]; other site 882009167 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 882009168 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 882009169 S-adenosylmethionine binding site [chemical binding]; other site 882009170 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 882009171 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 882009172 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 882009173 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 882009174 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 882009175 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 882009176 futalosine nucleosidase; Region: fut_nucase; TIGR03664 882009177 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882009178 substrate binding pocket [chemical binding]; other site 882009179 chain length determination region; other site 882009180 substrate-Mg2+ binding site; other site 882009181 catalytic residues [active] 882009182 aspartate-rich region 1; other site 882009183 active site lid residues [active] 882009184 aspartate-rich region 2; other site 882009185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 882009186 PAS domain; Region: PAS_9; pfam13426 882009187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882009188 metal binding site [ion binding]; metal-binding site 882009189 active site 882009190 I-site; other site 882009191 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 882009192 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 882009193 dimerization interface [polypeptide binding]; other site 882009194 ATP binding site [chemical binding]; other site 882009195 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 882009196 dimerization interface [polypeptide binding]; other site 882009197 ATP binding site [chemical binding]; other site 882009198 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 882009199 dimerization interface [polypeptide binding]; other site 882009200 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009201 PAS domain; Region: PAS_9; pfam13426 882009202 putative active site [active] 882009203 heme pocket [chemical binding]; other site 882009204 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882009205 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 882009206 dimer interface [polypeptide binding]; other site 882009207 putative CheW interface [polypeptide binding]; other site 882009208 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 882009209 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 882009210 non-heme iron binding site [ion binding]; other site 882009211 dimer interface [polypeptide binding]; other site 882009212 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 882009213 non-heme iron binding site [ion binding]; other site 882009214 dimer interface [polypeptide binding]; other site 882009215 Rubredoxin [Energy production and conversion]; Region: COG1773 882009216 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 882009217 iron binding site [ion binding]; other site 882009218 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 882009219 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882009220 Flavodoxin; Region: Flavodoxin_1; pfam00258 882009221 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 882009222 DNA binding residues [nucleotide binding] 882009223 Guanylate-kinase-associated protein (GKAP) protein; Region: GKAP; pfam03359 882009224 DNA sequence specific (IHF) and non-specific (HU) domains; Region: HU_IHF; cd00591 882009225 DNA binding site [nucleotide binding] 882009226 dimer interface [polypeptide binding]; other site 882009227 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 882009228 NlpC/P60 family; Region: NLPC_P60; pfam00877 882009229 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 882009230 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 882009231 Repeat domain in Vibrio, Colwellia, Bradyrhizobium and Shewanella; Region: VCBS; pfam13517 882009232 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882009233 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 882009234 RNA binding surface [nucleotide binding]; other site 882009235 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 882009236 active site 882009237 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 882009238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882009239 putative ADP-binding pocket [chemical binding]; other site 882009240 Helix-turn-helix domain; Region: HTH_17; pfam12728 882009241 PBP superfamily domain; Region: PBP_like; pfam12727 882009242 GTP-binding protein Der; Reviewed; Region: PRK00093 882009243 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 882009244 G1 box; other site 882009245 GTP/Mg2+ binding site [chemical binding]; other site 882009246 Switch I region; other site 882009247 G2 box; other site 882009248 Switch II region; other site 882009249 G3 box; other site 882009250 G4 box; other site 882009251 G5 box; other site 882009252 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 882009253 G1 box; other site 882009254 GTP/Mg2+ binding site [chemical binding]; other site 882009255 Switch I region; other site 882009256 G2 box; other site 882009257 G3 box; other site 882009258 Switch II region; other site 882009259 G4 box; other site 882009260 G5 box; other site 882009261 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 882009262 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 882009263 active site 882009264 Zn binding site [ion binding]; other site 882009265 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 882009266 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 882009267 homodimer interface [polypeptide binding]; other site 882009268 substrate-cofactor binding pocket; other site 882009269 catalytic residue [active] 882009270 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 882009271 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 882009272 Walker A motif; other site 882009273 ATP binding site [chemical binding]; other site 882009274 Walker B motif; other site 882009275 arginine finger; other site 882009276 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 882009277 hypothetical protein; Validated; Region: PRK00153 882009278 recombination protein RecR; Reviewed; Region: recR; PRK00076 882009279 RecR protein; Region: RecR; pfam02132 882009280 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 882009281 putative active site [active] 882009282 putative metal-binding site [ion binding]; other site 882009283 tetramer interface [polypeptide binding]; other site 882009284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882009285 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 882009286 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 882009287 active site 882009288 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 882009289 DNA polymerase III subunit delta'; Validated; Region: PRK08485 882009290 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 882009291 GDP-binding site [chemical binding]; other site 882009292 ACT binding site; other site 882009293 IMP binding site; other site 882009294 Protein of unknown function (DUF1800); Region: DUF1800; cl19889 882009295 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 882009296 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882009297 catalytic residue [active] 882009298 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 882009299 RNB domain; Region: RNB; pfam00773 882009300 membrane protein; Provisional; Region: PRK14397 882009301 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 882009302 threonine synthase; Validated; Region: PRK06260 882009303 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 882009304 homodimer interface [polypeptide binding]; other site 882009305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882009306 catalytic residue [active] 882009307 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 882009308 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882009309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882009310 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 882009311 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 882009312 active site residue [active] 882009313 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882009314 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882009315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009316 active site 882009317 phosphorylation site [posttranslational modification] 882009318 intermolecular recognition site; other site 882009319 dimerization interface [polypeptide binding]; other site 882009320 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 882009321 dimer interface [polypeptide binding]; other site 882009322 phosphorylation site [posttranslational modification] 882009323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009324 ATP binding site [chemical binding]; other site 882009325 Mg2+ binding site [ion binding]; other site 882009326 G-X-G motif; other site 882009327 amphi-Trp domain; Region: amphi-Trp; TIGR04354 882009328 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 882009329 catalytic triad [active] 882009330 conserved cis-peptide bond; other site 882009331 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882009332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009333 active site 882009334 phosphorylation site [posttranslational modification] 882009335 intermolecular recognition site; other site 882009336 dimerization interface [polypeptide binding]; other site 882009337 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 882009338 Walker A motif; other site 882009339 ATP binding site [chemical binding]; other site 882009340 Walker B motif; other site 882009341 arginine finger; other site 882009342 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882009343 sensor protein ZraS; Provisional; Region: PRK10364 882009344 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 882009345 dimer interface [polypeptide binding]; other site 882009346 phosphorylation site [posttranslational modification] 882009347 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009348 ATP binding site [chemical binding]; other site 882009349 Mg2+ binding site [ion binding]; other site 882009350 G-X-G motif; other site 882009351 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 882009352 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 882009353 active site 882009354 dimer interface [polypeptide binding]; other site 882009355 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 882009356 dimer interface [polypeptide binding]; other site 882009357 active site 882009358 aspartate aminotransferase; Provisional; Region: PRK05764 882009359 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 882009360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882009361 homodimer interface [polypeptide binding]; other site 882009362 catalytic residue [active] 882009363 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 882009364 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 882009365 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 882009366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009367 active site 882009368 phosphorylation site [posttranslational modification] 882009369 intermolecular recognition site; other site 882009370 dimerization interface [polypeptide binding]; other site 882009371 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 882009372 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882009373 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882009374 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 882009375 DNA binding residues [nucleotide binding] 882009376 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 882009377 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 882009378 P-loop; other site 882009379 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 882009380 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 882009381 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 882009382 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 882009383 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 882009384 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 882009385 purine monophosphate binding site [chemical binding]; other site 882009386 dimer interface [polypeptide binding]; other site 882009387 putative catalytic residues [active] 882009388 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 882009389 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 882009390 HflX GTPase family; Region: HflX; cd01878 882009391 G1 box; other site 882009392 GTP/Mg2+ binding site [chemical binding]; other site 882009393 Switch I region; other site 882009394 G2 box; other site 882009395 G3 box; other site 882009396 Switch II region; other site 882009397 G4 box; other site 882009398 G5 box; other site 882009399 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882009400 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 882009401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009402 active site 882009403 phosphorylation site [posttranslational modification] 882009404 intermolecular recognition site; other site 882009405 dimerization interface [polypeptide binding]; other site 882009406 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 882009407 active site 882009408 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 882009409 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882009410 Peptidase family M23; Region: Peptidase_M23; pfam01551 882009411 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 882009412 Ligand Binding Site [chemical binding]; other site 882009413 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 882009414 chaperone protein DnaJ; Provisional; Region: PRK14301 882009415 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 882009416 HSP70 interaction site [polypeptide binding]; other site 882009417 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 882009418 substrate binding site [polypeptide binding]; other site 882009419 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 882009420 Zn binding sites [ion binding]; other site 882009421 dimer interface [polypeptide binding]; other site 882009422 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 882009423 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 882009424 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 882009425 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 882009426 Outer membrane efflux protein; Region: OEP; pfam02321 882009427 Outer membrane efflux protein; Region: OEP; pfam02321 882009428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 882009429 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 882009430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 882009431 HlyD family secretion protein; Region: HlyD_3; pfam13437 882009432 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 882009433 MMPL family; Region: MMPL; cl14618 882009434 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 882009435 HPP family; Region: HPP; pfam04982 882009436 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 882009437 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882009438 acyl-activating enzyme (AAE) consensus motif; other site 882009439 AMP binding site [chemical binding]; other site 882009440 active site 882009441 CoA binding site [chemical binding]; other site 882009442 Protein of unknown function, DUF399; Region: DUF399; pfam04187 882009443 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 882009444 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 882009445 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 882009446 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 882009447 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 882009448 DNA binding site [nucleotide binding] 882009449 catalytic residue [active] 882009450 H2TH interface [polypeptide binding]; other site 882009451 putative catalytic residues [active] 882009452 turnover-facilitating residue; other site 882009453 intercalation triad [nucleotide binding]; other site 882009454 8OG recognition residue [nucleotide binding]; other site 882009455 putative reading head residues; other site 882009456 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 882009457 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882009458 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 882009459 Competence protein; Region: Competence; pfam03772 882009460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 882009461 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 882009462 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 882009463 hinge; other site 882009464 active site 882009465 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 882009466 putative catalytic site [active] 882009467 putative metal binding site [ion binding]; other site 882009468 putative phosphate binding site [ion binding]; other site 882009469 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 882009470 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 882009471 Iron-sulfur protein interface; other site 882009472 proximal heme binding site [chemical binding]; other site 882009473 distal heme binding site [chemical binding]; other site 882009474 dimer interface [polypeptide binding]; other site 882009475 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 882009476 L-aspartate oxidase; Provisional; Region: PRK06175 882009477 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 882009478 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 882009479 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 882009480 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882009481 fumarate hydratase; Provisional; Region: PRK06246 882009482 Fumarase C-terminus; Region: Fumerase_C; cl00795 882009483 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 882009484 substrate binding pocket [chemical binding]; other site 882009485 membrane-bound complex binding site; other site 882009486 hinge residues; other site 882009487 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl19054 882009488 PAS domain; Region: PAS; smart00091 882009489 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882009490 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009491 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882009492 putative active site [active] 882009493 heme pocket [chemical binding]; other site 882009494 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 882009495 dimer interface [polypeptide binding]; other site 882009496 phosphorylation site [posttranslational modification] 882009497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009498 ATP binding site [chemical binding]; other site 882009499 Mg2+ binding site [ion binding]; other site 882009500 G-X-G motif; other site 882009501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009502 active site 882009503 phosphorylation site [posttranslational modification] 882009504 intermolecular recognition site; other site 882009505 dimerization interface [polypeptide binding]; other site 882009506 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 882009507 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 882009508 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 882009509 TPR repeat; Region: TPR_11; pfam13414 882009510 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 882009511 binding surface 882009512 TPR motif; other site 882009513 TPR repeat; Region: TPR_11; pfam13414 882009514 TPR repeat; Region: TPR_11; pfam13414 882009515 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 882009516 binding surface 882009517 TPR motif; other site 882009518 TPR repeat; Region: TPR_11; pfam13414 882009519 NIMA-related protein kinase; Provisional; Region: PTZ00267 882009520 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; cl00497 882009521 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 882009522 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 882009523 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 882009524 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 882009525 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 882009526 protein binding site [polypeptide binding]; other site 882009527 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 882009528 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 882009529 putative dimer interface [polypeptide binding]; other site 882009530 active site pocket [active] 882009531 putative cataytic base [active] 882009532 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 882009533 L-lactate permease; Region: Lactate_perm; cl00701 882009534 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 882009535 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 882009536 active site 882009537 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 882009538 active site 882009539 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882009540 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 882009541 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 882009542 active site 882009543 FMN binding site [chemical binding]; other site 882009544 substrate binding site [chemical binding]; other site 882009545 3Fe-4S cluster binding site [ion binding]; other site 882009546 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 882009547 domain_subunit interface; other site 882009548 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882009549 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 882009550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 882009551 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 882009552 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 882009553 ATP binding site [chemical binding]; other site 882009554 substrate interface [chemical binding]; other site 882009555 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 882009556 acetolactate synthase; Reviewed; Region: PRK08322 882009557 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882009558 PYR/PP interface [polypeptide binding]; other site 882009559 dimer interface [polypeptide binding]; other site 882009560 TPP binding site [chemical binding]; other site 882009561 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882009562 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 882009563 TPP-binding site [chemical binding]; other site 882009564 dimer interface [polypeptide binding]; other site 882009565 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 882009566 NAD(P) binding site [chemical binding]; other site 882009567 catalytic residues [active] 882009568 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 882009569 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882009570 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 882009571 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 882009572 Ligand Binding Site [chemical binding]; other site 882009573 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882009574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009575 active site 882009576 phosphorylation site [posttranslational modification] 882009577 intermolecular recognition site; other site 882009578 dimerization interface [polypeptide binding]; other site 882009579 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 882009580 Walker A motif; other site 882009581 ATP binding site [chemical binding]; other site 882009582 Walker B motif; other site 882009583 arginine finger; other site 882009584 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882009585 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882009586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009587 active site 882009588 phosphorylation site [posttranslational modification] 882009589 intermolecular recognition site; other site 882009590 dimerization interface [polypeptide binding]; other site 882009591 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 882009592 Walker A motif; other site 882009593 ATP binding site [chemical binding]; other site 882009594 Walker B motif; other site 882009595 arginine finger; other site 882009596 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882009597 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 882009598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882009599 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 882009600 GIY-YIG motif/motif A; other site 882009601 putative active site [active] 882009602 putative metal binding site [ion binding]; other site 882009603 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 882009604 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 882009605 ATP binding site [chemical binding]; other site 882009606 Mg++ binding site [ion binding]; other site 882009607 motif III; other site 882009608 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 882009609 nucleotide binding region [chemical binding]; other site 882009610 ATP-binding site [chemical binding]; other site 882009611 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 882009612 RNA binding site [nucleotide binding]; other site 882009613 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 882009614 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 882009615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 882009616 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 882009617 dimerization interface [polypeptide binding]; other site 882009618 substrate binding pocket [chemical binding]; other site 882009619 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 882009620 Peptidase family U32; Region: Peptidase_U32; cl03113 882009621 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 882009622 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 882009623 FAD binding pocket [chemical binding]; other site 882009624 FAD binding motif [chemical binding]; other site 882009625 phosphate binding motif [ion binding]; other site 882009626 beta-alpha-beta structure motif; other site 882009627 NAD binding pocket [chemical binding]; other site 882009628 Iron coordination center [ion binding]; other site 882009629 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 882009630 heterodimer interface [polypeptide binding]; other site 882009631 active site 882009632 FMN binding site [chemical binding]; other site 882009633 homodimer interface [polypeptide binding]; other site 882009634 substrate binding site [chemical binding]; other site 882009635 Proline dehydrogenase; Region: Pro_dh; pfam01619 882009636 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 882009637 Glutamate binding site [chemical binding]; other site 882009638 homodimer interface [polypeptide binding]; other site 882009639 NAD binding site [chemical binding]; other site 882009640 catalytic residues [active] 882009641 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 882009642 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 882009643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882009644 FtsX-like permease family; Region: FtsX; pfam02687 882009645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882009646 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882009647 Walker A/P-loop; other site 882009648 ATP binding site [chemical binding]; other site 882009649 Q-loop/lid; other site 882009650 ABC transporter signature motif; other site 882009651 Walker B; other site 882009652 D-loop; other site 882009653 H-loop/switch region; other site 882009654 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882009655 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 882009656 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 882009657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882009658 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882009659 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 882009660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009661 active site 882009662 phosphorylation site [posttranslational modification] 882009663 intermolecular recognition site; other site 882009664 dimerization interface [polypeptide binding]; other site 882009665 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 882009666 Walker A motif; other site 882009667 ATP binding site [chemical binding]; other site 882009668 Walker B motif; other site 882009669 arginine finger; other site 882009670 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 882009671 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 882009672 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009673 putative active site [active] 882009674 heme pocket [chemical binding]; other site 882009675 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 882009676 dimer interface [polypeptide binding]; other site 882009677 phosphorylation site [posttranslational modification] 882009678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009679 ATP binding site [chemical binding]; other site 882009680 Mg2+ binding site [ion binding]; other site 882009681 G-X-G motif; other site 882009682 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 882009683 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 882009684 Ligand Binding Site [chemical binding]; other site 882009685 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 882009686 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 882009687 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882009688 Soluble P-type ATPase [General function prediction only]; Region: COG4087 882009689 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 882009690 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 882009691 TadE-like protein; Region: TadE; pfam07811 882009692 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 882009693 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 882009694 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 882009695 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 882009696 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; cl01629 882009697 TPP-binding site [chemical binding]; other site 882009698 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 882009699 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 882009700 dimer interface [polypeptide binding]; other site 882009701 PYR/PP interface [polypeptide binding]; other site 882009702 TPP binding site [chemical binding]; other site 882009703 substrate binding site [chemical binding]; other site 882009704 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882009705 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 882009706 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 882009707 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 882009708 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 882009709 Flavoprotein; Region: Flavoprotein; cl19190 882009710 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 882009711 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 882009712 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 882009713 trimer interface [polypeptide binding]; other site 882009714 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882009715 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 882009716 putative NAD(P) binding site [chemical binding]; other site 882009717 active site 882009718 putative substrate binding site [chemical binding]; other site 882009719 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882009720 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 882009721 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 882009722 P-loop; other site 882009723 Magnesium ion binding site [ion binding]; other site 882009724 ParB-like nuclease domain; Region: ParB; smart00470 882009725 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 882009726 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 882009727 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 882009728 putative ribose interaction site [chemical binding]; other site 882009729 putative ADP binding site [chemical binding]; other site 882009730 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 882009731 NusB family; Region: NusB; pfam01029 882009732 putative RNA binding site [nucleotide binding]; other site 882009733 16S rRNA methyltransferase B; Provisional; Region: PRK14902 882009734 Protein of unknown function DUF116; Region: DUF116; pfam01976 882009735 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 882009736 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 882009737 putative active site [active] 882009738 substrate binding site [chemical binding]; other site 882009739 putative cosubstrate binding site; other site 882009740 catalytic site [active] 882009741 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 882009742 substrate binding site [chemical binding]; other site 882009743 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 882009744 active site 882009745 catalytic residues [active] 882009746 metal binding site [ion binding]; metal-binding site 882009747 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 882009748 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 882009749 dimer interface [polypeptide binding]; other site 882009750 anticodon binding site; other site 882009751 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 882009752 homodimer interface [polypeptide binding]; other site 882009753 motif 1; other site 882009754 active site 882009755 motif 2; other site 882009756 GAD domain; Region: GAD; pfam02938 882009757 motif 3; other site 882009758 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 882009759 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 882009760 dimer interface [polypeptide binding]; other site 882009761 motif 1; other site 882009762 active site 882009763 motif 2; other site 882009764 motif 3; other site 882009765 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 882009766 anticodon binding site; other site 882009767 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 882009768 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 882009769 S-adenosylmethionine binding site [chemical binding]; other site 882009770 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 882009771 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 882009772 THF binding site; other site 882009773 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 882009774 substrate binding site [chemical binding]; other site 882009775 THF binding site; other site 882009776 zinc-binding site [ion binding]; other site 882009777 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 882009778 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 882009779 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 882009780 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 882009781 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882009782 Walker A/P-loop; other site 882009783 ATP binding site [chemical binding]; other site 882009784 Q-loop/lid; other site 882009785 ABC transporter signature motif; other site 882009786 Walker B; other site 882009787 D-loop; other site 882009788 H-loop/switch region; other site 882009789 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 882009790 Sulfatase; Region: Sulfatase; pfam00884 882009791 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 882009792 putative active site [active] 882009793 trimer interface [polypeptide binding]; other site 882009794 putative active site [active] 882009795 Zn binding site [ion binding]; other site 882009796 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 882009797 putative deacylase active site [active] 882009798 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 882009799 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 882009800 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 882009801 active site 882009802 dimer interface [polypeptide binding]; other site 882009803 effector binding site; other site 882009804 TSCPD domain; Region: TSCPD; pfam12637 882009805 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 882009806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009807 active site 882009808 phosphorylation site [posttranslational modification] 882009809 intermolecular recognition site; other site 882009810 dimerization interface [polypeptide binding]; other site 882009811 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 882009812 Walker A motif; other site 882009813 ATP binding site [chemical binding]; other site 882009814 Walker B motif; other site 882009815 arginine finger; other site 882009816 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882009817 sensor protein ZraS; Provisional; Region: PRK10364 882009818 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882009819 PAS domain; Region: PAS_9; pfam13426 882009820 putative active site [active] 882009821 heme pocket [chemical binding]; other site 882009822 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 882009823 dimer interface [polypeptide binding]; other site 882009824 phosphorylation site [posttranslational modification] 882009825 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882009826 ATP binding site [chemical binding]; other site 882009827 Mg2+ binding site [ion binding]; other site 882009828 G-X-G motif; other site 882009829 Heavy-metal resistance; Region: Metal_resist; pfam13801 882009830 dimer interface [polypeptide binding]; other site 882009831 Predicted permeases [General function prediction only]; Region: COG0701 882009832 C-type lysozyme (1, 4-beta-N-acetylmuramidase, LYZ) and alpha-lactalbumin (lactose synthase B protein, LA). They have a close evolutionary relationship and similar tertiary structure, however, functionally they are quite different. Lysozymes have...; Region: LYZ1; cl17441 882009833 lysozyme catalytic cleft [active] 882009834 lysozyme catalytic site [active] 882009835 Peptidase family M48; Region: Peptidase_M48; pfam01435 882009836 DNA topoisomerase I; Validated; Region: PRK06599 882009837 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 882009838 active site 882009839 interdomain interaction site; other site 882009840 putative metal-binding site [ion binding]; other site 882009841 nucleotide binding site [chemical binding]; other site 882009842 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 882009843 domain I; other site 882009844 DNA binding groove [nucleotide binding] 882009845 phosphate binding site [ion binding]; other site 882009846 domain II; other site 882009847 domain III; other site 882009848 nucleotide binding site [chemical binding]; other site 882009849 catalytic site [active] 882009850 domain IV; other site 882009851 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 882009852 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 882009853 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 882009854 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 882009855 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 882009856 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 882009857 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 882009858 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882009859 Peptidase family M23; Region: Peptidase_M23; pfam01551 882009860 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 882009861 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 882009862 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 882009863 P-loop; other site 882009864 Magnesium ion binding site [ion binding]; other site 882009865 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 882009866 Zein-binding; Region: Zein-binding; pfam04576 882009867 DNA sequence specific (IHF) and non-specific (HU) domains; Region: HU_IHF; cd00591 882009868 DNA binding site [nucleotide binding] 882009869 dimer interface [polypeptide binding]; other site 882009870 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 882009871 Ligand Binding Site [chemical binding]; other site 882009872 FOG: CBS domain [General function prediction only]; Region: COG0517 882009873 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 882009874 Divalent cation transporter; Region: MgtE; cl00786 882009875 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 882009876 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882009877 FeS/SAM binding site; other site 882009878 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 882009879 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 882009880 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 882009881 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 882009882 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 882009883 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 882009884 dimer interface [polypeptide binding]; other site 882009885 [2Fe-2S] cluster binding site [ion binding]; other site 882009886 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 882009887 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 882009888 MoFe protein beta/alpha subunit interactions; other site 882009889 Beta subunit P cluster binding residues; other site 882009890 MoFe protein beta subunit/Fe protein contacts; other site 882009891 MoFe protein dimer/ dimer interactions; other site 882009892 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 882009893 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 882009894 MoFe protein alpha/beta subunit interactions; other site 882009895 Alpha subunit P cluster binding residues; other site 882009896 FeMoco binding residues [chemical binding]; other site 882009897 MoFe protein alpha subunit/Fe protein contacts; other site 882009898 MoFe protein dimer/ dimer interactions; other site 882009899 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 882009900 Nitrogen regulatory protein P-II; Region: P-II; smart00938 882009901 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 882009902 nitrogenase iron protein; Region: nifH; TIGR01287 882009903 Nucleotide-binding sites [chemical binding]; other site 882009904 Walker A motif; other site 882009905 Switch I region of nucleotide binding site; other site 882009906 Fe4S4 binding sites [ion binding]; other site 882009907 Switch II region of nucleotide binding site; other site 882009908 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 882009909 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 882009910 active site 882009911 catalytic residues [active] 882009912 metal binding site [ion binding]; metal-binding site 882009913 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 882009914 Methyltransferase domain; Region: Methyltransf_26; pfam13659 882009915 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 882009916 Restriction endonuclease XhoI; Region: XhoI; pfam04555 882009917 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 882009918 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 882009919 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 882009920 HlyD family secretion protein; Region: HlyD_3; pfam13437 882009921 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882009922 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 882009923 Walker A/P-loop; other site 882009924 ATP binding site [chemical binding]; other site 882009925 Q-loop/lid; other site 882009926 ABC transporter signature motif; other site 882009927 Walker B; other site 882009928 D-loop; other site 882009929 H-loop/switch region; other site 882009930 DevC protein; Region: devC; TIGR01185 882009931 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882009932 FtsX-like permease family; Region: FtsX; pfam02687 882009933 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 882009934 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882009935 Walker A motif; other site 882009936 ATP binding site [chemical binding]; other site 882009937 Walker B motif; other site 882009938 arginine finger; other site 882009939 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882009940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882009941 active site 882009942 phosphorylation site [posttranslational modification] 882009943 intermolecular recognition site; other site 882009944 dimerization interface [polypeptide binding]; other site 882009945 PilZ domain; Region: PilZ; pfam07238 882009946 hypothetical protein; Provisional; Region: PRK14852 882009947 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; cd01483 882009948 ATP binding site [chemical binding]; other site 882009949 substrate interface [chemical binding]; other site 882009950 Nitroreductase family; Region: Nitroreductase; pfam00881 882009951 FMN binding site [chemical binding]; other site 882009952 dimer interface [polypeptide binding]; other site 882009953 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 882009954 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 882009955 binding surface 882009956 TPR motif; other site 882009957 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 882009958 TPR motif; other site 882009959 binding surface 882009960 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 882009961 binding surface 882009962 TPR motif; other site 882009963 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 882009964 binding surface 882009965 TPR motif; other site 882009966 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 882009967 binding surface 882009968 TPR motif; other site 882009969 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 882009970 binding surface 882009971 TPR motif; other site 882009972 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 882009973 binding surface 882009974 TPR motif; other site 882009975 Bacterial sugar transferase; Region: Bac_transf; pfam02397 882009976 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 882009977 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 882009978 SLBB domain; Region: SLBB; pfam10531 882009979 Chain length determinant protein; Region: Wzz; pfam02706 882009980 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 882009981 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 882009982 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 882009983 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 882009984 AAA domain; Region: AAA_31; pfam13614 882009985 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 882009986 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 882009987 Walker A motif; other site 882009988 ATP binding site [chemical binding]; other site 882009989 Walker B motif; other site 882009990 arginine finger; other site 882009991 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 882009992 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 882009993 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 882009994 putative active site [active] 882009995 putative catalytic site [active] 882009996 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 882009997 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 882009998 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882009999 catalytic residue [active] 882010000 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 882010001 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 882010002 DXD motif; other site 882010003 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; cl19204 882010004 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 882010005 O-Antigen ligase; Region: Wzy_C; pfam04932 882010006 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 882010007 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 882010008 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 882010009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882010010 putative homodimer interface [polypeptide binding]; other site 882010011 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 882010012 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882010013 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882010014 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 882010015 putative trimer interface [polypeptide binding]; other site 882010016 putative CoA binding site [chemical binding]; other site 882010017 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 882010018 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 882010019 trimer interface [polypeptide binding]; other site 882010020 active site 882010021 substrate binding site [chemical binding]; other site 882010022 CoA binding site [chemical binding]; other site 882010023 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 882010024 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 882010025 exosortase; Region: 8TM_EpsH; TIGR02602 882010026 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 882010027 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 882010028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882010029 active site 882010030 phosphorylation site [posttranslational modification] 882010031 intermolecular recognition site; other site 882010032 dimerization interface [polypeptide binding]; other site 882010033 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 882010034 Walker A motif; other site 882010035 ATP binding site [chemical binding]; other site 882010036 Walker B motif; other site 882010037 arginine finger; other site 882010038 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882010039 Photosynthesis system II assembly factor YCF48; Region: PSII_BNR; pfam14870 882010040 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 882010041 ATP-grasp domain; Region: ATP-grasp_4; cl17255 882010042 Acyltransferase family; Region: Acyl_transf_3; pfam01757 882010043 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 882010044 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 882010045 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 882010046 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 882010047 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882010048 catalytic residue [active] 882010049 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 882010050 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 882010051 acyl-activating enzyme (AAE) consensus motif; other site 882010052 active site 882010053 AMP binding site [chemical binding]; other site 882010054 CoA binding site [chemical binding]; other site 882010055 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 882010056 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 882010057 dimer interface [polypeptide binding]; other site 882010058 phosphorylation site [posttranslational modification] 882010059 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882010060 ATP binding site [chemical binding]; other site 882010061 Mg2+ binding site [ion binding]; other site 882010062 G-X-G motif; other site 882010063 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 882010064 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 882010065 active site 882010066 nucleophile elbow; other site 882010067 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 882010068 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 882010069 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 882010070 Ligand binding site; other site 882010071 Putative Catalytic site; other site 882010072 DXD motif; other site 882010073 GtrA-like protein; Region: GtrA; pfam04138 882010074 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 882010075 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 882010076 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882010077 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 882010078 metal-binding site 882010079 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 882010080 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882010081 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 882010082 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 882010083 active site 882010084 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 882010085 dimer interface [polypeptide binding]; other site 882010086 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 882010087 Ligand Binding Site [chemical binding]; other site 882010088 Molecular Tunnel; other site 882010089 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 882010090 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 882010091 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 882010092 Radical SAM superfamily; Region: Radical_SAM; pfam04055 882010093 FeS/SAM binding site; other site 882010094 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 882010095 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 882010096 Walker A/P-loop; other site 882010097 ATP binding site [chemical binding]; other site 882010098 Q-loop/lid; other site 882010099 ABC transporter signature motif; other site 882010100 Walker B; other site 882010101 D-loop; other site 882010102 H-loop/switch region; other site 882010103 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 882010104 putative carbohydrate binding site [chemical binding]; other site 882010105 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 882010106 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 882010107 ligand-binding site [chemical binding]; other site 882010108 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882010109 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 882010110 metal-binding site 882010111 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882010112 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 882010113 active site 882010114 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882010115 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 882010116 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 882010117 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 882010118 active site 882010119 DNA binding site [nucleotide binding] 882010120 Int/Topo IB signature motif; other site 882010121 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 882010122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 882010123 Walker A/P-loop; other site 882010124 ATP binding site [chemical binding]; other site 882010125 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 882010126 AAA domain; Region: AAA_12; pfam13087 882010127 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 882010128 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 882010129 putative active site [active] 882010130 catalytic site [active] 882010131 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 882010132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882010133 active site 882010134 phosphorylation site [posttranslational modification] 882010135 intermolecular recognition site; other site 882010136 dimerization interface [polypeptide binding]; other site 882010137 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 882010138 Zn2+ binding site [ion binding]; other site 882010139 Mg2+ binding site [ion binding]; other site 882010140 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882010141 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882010142 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 882010143 putative active site [active] 882010144 heme pocket [chemical binding]; other site 882010145 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882010146 putative active site [active] 882010147 heme pocket [chemical binding]; other site 882010148 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 882010149 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 882010150 putative active site [active] 882010151 heme pocket [chemical binding]; other site 882010152 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 882010153 dimer interface [polypeptide binding]; other site 882010154 phosphorylation site [posttranslational modification] 882010155 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882010156 ATP binding site [chemical binding]; other site 882010157 Mg2+ binding site [ion binding]; other site 882010158 G-X-G motif; other site 882010159 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882010160 PEP-CTERM motif; Region: VPEP; pfam07589 882010161 Protein of unknown function (DUF554); Region: DUF554; pfam04474 882010162 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 882010163 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 882010164 tetramer interface [polypeptide binding]; other site 882010165 heme binding pocket [chemical binding]; other site 882010166 NADPH binding site [chemical binding]; other site 882010167 hypothetical protein; Provisional; Region: PRK11281 882010168 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 882010169 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 882010170 Chromate transporter; Region: Chromate_transp; pfam02417 882010171 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 882010172 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 882010173 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 882010174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882010175 putative substrate translocation pore; other site 882010176 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 882010177 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 882010178 FeS/SAM binding site; other site 882010179 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 882010180 Glycerol-1-phosphate dehydrogenase-like; Region: G1PDH-like; cd08174 882010181 active site 882010182 metal binding site [ion binding]; metal-binding site 882010183 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 882010184 dimerization interface [polypeptide binding]; other site 882010185 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 882010186 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 882010187 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 882010188 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 882010189 Walker A motif; other site 882010190 ATP binding site [chemical binding]; other site 882010191 Walker B motif; other site 882010192 arginine finger; other site 882010193 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882010194 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 882010195 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 882010196 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 882010197 FHIPEP family; Region: FHIPEP; pfam00771 882010198 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 882010199 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 882010200 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 882010201 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 882010202 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 882010203 binding surface 882010204 TPR motif; other site 882010205 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 882010206 Uncharacterized conserved protein [Function unknown]; Region: COG5613; cl19899 882010207 YopD protein; Region: YopD; pfam05844 882010208 Tir chaperone protein (CesT) family; Region: CesT; cl08444 882010209 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 882010210 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 882010211 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 882010212 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 882010213 Type III secretion needle MxiH like; Region: MxiH; cl09641 882010214 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 882010215 binding surface 882010216 Tetratricopeptide repeat; Region: TPR_16; pfam13432 882010217 TPR motif; other site 882010218 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 882010219 type III secretion system protein; Reviewed; Region: PRK06937 882010220 Flagellar assembly protein FliH; Region: FliH; cl19405 882010221 type III secretion system ATPase; Provisional; Region: PRK06936 882010222 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882010223 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 882010224 Walker A motif/ATP binding site; other site 882010225 Walker B motif; other site 882010226 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 882010227 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 882010228 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882010229 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 882010230 type III secretion system protein YscR; Provisional; Region: PRK12797 882010231 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 882010232 anti sigma factor interaction site; other site 882010233 regulatory phosphorylation site [posttranslational modification]; other site 882010234 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 882010235 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 882010236 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 882010237 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882010238 catalytic residue [active] 882010239 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 882010240 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 882010241 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 882010242 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 882010243 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 882010244 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 882010245 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 882010246 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 882010247 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 882010248 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 882010249 zinc transporter ZupT; Provisional; Region: PRK04201 882010250 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882010251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 882010252 active site 882010253 intermolecular recognition site; other site 882010254 dimerization interface [polypeptide binding]; other site 882010255 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 882010256 DNA binding residues [nucleotide binding] 882010257 dimerization interface [polypeptide binding]; other site 882010258 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 882010259 Histidine kinase; Region: HisKA_3; pfam07730 882010260 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882010261 ATP binding site [chemical binding]; other site 882010262 Mg2+ binding site [ion binding]; other site 882010263 G-X-G motif; other site 882010264 Autotransporter beta-domain; Region: Autotransporter; pfam03797 882010265 Nif-specific regulatory protein; Region: nifA; TIGR01817 882010266 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 882010267 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 882010268 Walker A motif; other site 882010269 ATP binding site [chemical binding]; other site 882010270 Walker B motif; other site 882010271 arginine finger; other site 882010272 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 882010273 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 882010274 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 882010275 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882010276 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 882010277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882010278 putative substrate translocation pore; other site 882010279 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882010280 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 882010281 substrate binding pocket [chemical binding]; other site 882010282 membrane-bound complex binding site; other site 882010283 hinge residues; other site 882010284 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 882010285 non-specific DNA binding site [nucleotide binding]; other site 882010286 salt bridge; other site 882010287 sequence-specific DNA binding site [nucleotide binding]; other site 882010288 HipA N-terminal domain; Region: Couple_hipA; cl11853 882010289 HipA-like N-terminal domain; Region: HipA_N; pfam07805 882010290 HipA-like C-terminal domain; Region: HipA_C; pfam07804