-- dump date 20140619_224206 -- class Genbank::misc_feature -- table misc_feature_note -- id note 504832000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 504832000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 504832000003 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 504832000004 Walker A motif; other site 504832000005 ATP binding site [chemical binding]; other site 504832000006 Walker B motif; other site 504832000007 arginine finger; other site 504832000008 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 504832000009 DnaA box-binding interface [nucleotide binding]; other site 504832000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 504832000011 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 504832000012 putative DNA binding surface [nucleotide binding]; other site 504832000013 dimer interface [polypeptide binding]; other site 504832000014 beta-clamp/clamp loader binding surface; other site 504832000015 beta-clamp/translesion DNA polymerase binding surface; other site 504832000016 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 504832000017 putative active site [active] 504832000018 recombination protein F; Reviewed; Region: recF; PRK00064 504832000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832000020 Walker A/P-loop; other site 504832000021 ATP binding site [chemical binding]; other site 504832000022 Q-loop/lid; other site 504832000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832000024 ABC transporter signature motif; other site 504832000025 Walker B; other site 504832000026 D-loop; other site 504832000027 H-loop/switch region; other site 504832000028 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 504832000029 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832000030 Mg2+ binding site [ion binding]; other site 504832000031 G-X-G motif; other site 504832000032 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 504832000033 anchoring element; other site 504832000034 dimer interface [polypeptide binding]; other site 504832000035 ATP binding site [chemical binding]; other site 504832000036 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 504832000037 active site 504832000038 putative metal-binding site [ion binding]; other site 504832000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 504832000040 Pirin-related protein [General function prediction only]; Region: COG1741 504832000041 Pirin; Region: Pirin; pfam02678 504832000042 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 504832000043 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 504832000044 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 504832000045 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504832000046 substrate binding site [chemical binding]; other site 504832000047 ATP binding site [chemical binding]; other site 504832000048 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 504832000049 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 504832000050 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 504832000051 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 504832000052 active site 504832000053 HIGH motif; other site 504832000054 dimer interface [polypeptide binding]; other site 504832000055 KMSKS motif; other site 504832000056 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 504832000057 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 504832000058 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 504832000059 Glycoprotease family; Region: Peptidase_M22; pfam00814 504832000060 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 504832000061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832000062 Coenzyme A binding pocket [chemical binding]; other site 504832000063 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504832000064 metal binding site 2 [ion binding]; metal-binding site 504832000065 putative DNA binding helix; other site 504832000066 metal binding site 1 [ion binding]; metal-binding site 504832000067 dimer interface [polypeptide binding]; other site 504832000068 structural Zn2+ binding site [ion binding]; other site 504832000069 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 504832000070 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504832000071 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 504832000072 FeS/SAM binding site; other site 504832000073 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 504832000074 KH domain; Region: KH_1; pfam00013 504832000075 PhoH-like protein; Region: PhoH; pfam02562 504832000076 metal-binding heat shock protein; Provisional; Region: PRK00016 504832000077 FOG: CBS domain [General function prediction only]; Region: COG0517 504832000078 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 504832000079 Transporter associated domain; Region: CorC_HlyC; smart01091 504832000080 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 504832000081 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 504832000082 putative active site [active] 504832000083 catalytic triad [active] 504832000084 putative dimer interface [polypeptide binding]; other site 504832000085 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504832000086 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 504832000087 non-specific DNA binding site [nucleotide binding]; other site 504832000088 salt bridge; other site 504832000089 sequence-specific DNA binding site [nucleotide binding]; other site 504832000090 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 504832000091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 504832000092 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 504832000093 ribosome maturation protein RimP; Reviewed; Region: PRK00092 504832000094 Sm and related proteins; Region: Sm_like; cl00259 504832000095 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 504832000096 putative oligomer interface [polypeptide binding]; other site 504832000097 putative RNA binding site [nucleotide binding]; other site 504832000098 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 504832000099 NusA N-terminal domain; Region: NusA_N; pfam08529 504832000100 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 504832000101 RNA binding site [nucleotide binding]; other site 504832000102 homodimer interface [polypeptide binding]; other site 504832000103 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 504832000104 G-X-X-G motif; other site 504832000105 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 504832000106 G-X-X-G motif; other site 504832000107 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 504832000108 hypothetical protein; Provisional; Region: PRK09190 504832000109 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 504832000110 putative RNA binding cleft [nucleotide binding]; other site 504832000111 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 504832000112 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 504832000113 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 504832000114 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 504832000115 G1 box; other site 504832000116 putative GEF interaction site [polypeptide binding]; other site 504832000117 GTP/Mg2+ binding site [chemical binding]; other site 504832000118 Switch I region; other site 504832000119 G2 box; other site 504832000120 G3 box; other site 504832000121 Switch II region; other site 504832000122 G4 box; other site 504832000123 G5 box; other site 504832000124 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 504832000125 Translation-initiation factor 2; Region: IF-2; pfam11987 504832000126 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 504832000127 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 504832000128 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 504832000129 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 504832000130 RNA binding site [nucleotide binding]; other site 504832000131 active site 504832000132 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 504832000133 16S/18S rRNA binding site [nucleotide binding]; other site 504832000134 S13e-L30e interaction site [polypeptide binding]; other site 504832000135 25S rRNA binding site [nucleotide binding]; other site 504832000136 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 504832000137 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 504832000138 RNase E interface [polypeptide binding]; other site 504832000139 trimer interface [polypeptide binding]; other site 504832000140 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 504832000141 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 504832000142 RNase E interface [polypeptide binding]; other site 504832000143 trimer interface [polypeptide binding]; other site 504832000144 active site 504832000145 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 504832000146 putative nucleic acid binding region [nucleotide binding]; other site 504832000147 G-X-X-G motif; other site 504832000148 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 504832000149 RNA binding site [nucleotide binding]; other site 504832000150 domain interface; other site 504832000151 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 504832000152 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 504832000153 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 504832000154 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 504832000155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832000156 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 504832000157 dimerization interface [polypeptide binding]; other site 504832000158 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 504832000159 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 504832000160 tetramer interface [polypeptide binding]; other site 504832000161 heme binding pocket [chemical binding]; other site 504832000162 NADPH binding site [chemical binding]; other site 504832000163 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 504832000164 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 504832000165 NAD binding site [chemical binding]; other site 504832000166 homotetramer interface [polypeptide binding]; other site 504832000167 homodimer interface [polypeptide binding]; other site 504832000168 substrate binding site [chemical binding]; other site 504832000169 active site 504832000170 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 504832000171 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 504832000172 dimer interface [polypeptide binding]; other site 504832000173 active site 504832000174 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 504832000175 active site 2 [active] 504832000176 active site 1 [active] 504832000177 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504832000178 metal binding site 2 [ion binding]; metal-binding site 504832000179 putative DNA binding helix; other site 504832000180 metal binding site 1 [ion binding]; metal-binding site 504832000181 dimer interface [polypeptide binding]; other site 504832000182 structural Zn2+ binding site [ion binding]; other site 504832000183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 504832000184 Bacterial SH3 domain; Region: SH3_4; pfam06347 504832000185 Bacterial SH3 domain; Region: SH3_4; pfam06347 504832000186 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 504832000187 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 504832000188 dimerization interface [polypeptide binding]; other site 504832000189 ligand binding site [chemical binding]; other site 504832000190 NADP binding site [chemical binding]; other site 504832000191 catalytic site [active] 504832000192 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 504832000193 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 504832000194 ATP binding site [chemical binding]; other site 504832000195 substrate interface [chemical binding]; other site 504832000196 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 504832000197 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 504832000198 DNA binding site [nucleotide binding] 504832000199 catalytic residue [active] 504832000200 H2TH interface [polypeptide binding]; other site 504832000201 putative catalytic residues [active] 504832000202 turnover-facilitating residue; other site 504832000203 intercalation triad [nucleotide binding]; other site 504832000204 8OG recognition residue [nucleotide binding]; other site 504832000205 putative reading head residues; other site 504832000206 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 504832000207 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 504832000208 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 504832000209 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 504832000210 S-adenosylmethionine binding site [chemical binding]; other site 504832000211 ABC1 family; Region: ABC1; cl17513 504832000212 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 504832000213 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 504832000214 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 504832000215 Flavoprotein; Region: Flavoprotein; pfam02441 504832000216 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 504832000217 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 504832000218 trimer interface [polypeptide binding]; other site 504832000219 active site 504832000220 PAS fold; Region: PAS_7; pfam12860 504832000221 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 504832000222 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832000223 dimer interface [polypeptide binding]; other site 504832000224 phosphorylation site [posttranslational modification] 504832000225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832000226 ATP binding site [chemical binding]; other site 504832000227 Mg2+ binding site [ion binding]; other site 504832000228 G-X-G motif; other site 504832000229 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 504832000230 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 504832000231 Phosphotransferase enzyme family; Region: APH; pfam01636 504832000232 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 504832000233 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 504832000234 Substrate binding site; other site 504832000235 metal-binding site 504832000236 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 504832000237 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 504832000238 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 504832000239 Family description; Region: UvrD_C_2; pfam13538 504832000240 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 504832000241 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 504832000242 catalytic residues [active] 504832000243 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 504832000244 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 504832000245 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504832000246 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 504832000247 substrate binding site [chemical binding]; other site 504832000248 active site 504832000249 catalytic residues [active] 504832000250 heterodimer interface [polypeptide binding]; other site 504832000251 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 504832000252 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 504832000253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832000254 catalytic residue [active] 504832000255 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 504832000256 active site 504832000257 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 504832000258 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 504832000259 IHF dimer interface [polypeptide binding]; other site 504832000260 IHF - DNA interface [nucleotide binding]; other site 504832000261 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 504832000262 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 504832000263 tandem repeat interface [polypeptide binding]; other site 504832000264 oligomer interface [polypeptide binding]; other site 504832000265 active site residues [active] 504832000266 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 504832000267 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 504832000268 RNA binding site [nucleotide binding]; other site 504832000269 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 504832000270 RNA binding site [nucleotide binding]; other site 504832000271 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 504832000272 RNA binding site [nucleotide binding]; other site 504832000273 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 504832000274 RNA binding site [nucleotide binding]; other site 504832000275 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 504832000276 RNA binding site [nucleotide binding]; other site 504832000277 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 504832000278 RNA binding site [nucleotide binding]; other site 504832000279 cytidylate kinase; Provisional; Region: cmk; PRK00023 504832000280 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 504832000281 CMP-binding site; other site 504832000282 The sites determining sugar specificity; other site 504832000283 Zeta toxin; Region: Zeta_toxin; pfam06414 504832000284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 504832000285 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 504832000286 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 504832000287 hinge; other site 504832000288 active site 504832000289 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 504832000290 TIGR02300 family protein; Region: FYDLN_acid 504832000291 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832000292 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 504832000293 putative dimer interface [polypeptide binding]; other site 504832000294 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 504832000295 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 504832000296 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 504832000297 active site 504832000298 phosphorylation site [posttranslational modification] 504832000299 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 504832000300 30S subunit binding site; other site 504832000301 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 504832000302 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 504832000303 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 504832000304 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 504832000305 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 504832000306 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 504832000307 Walker A/P-loop; other site 504832000308 ATP binding site [chemical binding]; other site 504832000309 Q-loop/lid; other site 504832000310 ABC transporter signature motif; other site 504832000311 Walker B; other site 504832000312 D-loop; other site 504832000313 H-loop/switch region; other site 504832000314 OstA-like protein; Region: OstA; pfam03968 504832000315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 504832000316 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 504832000317 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 504832000318 catalytic site [active] 504832000319 putative active site [active] 504832000320 putative substrate binding site [chemical binding]; other site 504832000321 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 504832000322 homodimer interface [polypeptide binding]; other site 504832000323 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 504832000324 active site pocket [active] 504832000325 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 504832000326 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 504832000327 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 504832000328 Chromate transporter; Region: Chromate_transp; pfam02417 504832000329 PAS domain; Region: PAS_9; pfam13426 504832000330 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 504832000331 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832000332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832000333 metal binding site [ion binding]; metal-binding site 504832000334 active site 504832000335 I-site; other site 504832000336 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 504832000337 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 504832000338 putative NAD(P) binding site [chemical binding]; other site 504832000339 active site 504832000340 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 504832000341 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832000342 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 504832000343 C-terminal domain interface [polypeptide binding]; other site 504832000344 GSH binding site (G-site) [chemical binding]; other site 504832000345 dimer interface [polypeptide binding]; other site 504832000346 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 504832000347 N-terminal domain interface [polypeptide binding]; other site 504832000348 dimer interface [polypeptide binding]; other site 504832000349 substrate binding pocket (H-site) [chemical binding]; other site 504832000350 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504832000351 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832000352 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 504832000353 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 504832000354 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 504832000355 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 504832000356 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 504832000357 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 504832000358 23S rRNA binding site [nucleotide binding]; other site 504832000359 L21 binding site [polypeptide binding]; other site 504832000360 L13 binding site [polypeptide binding]; other site 504832000361 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 504832000362 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 504832000363 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 504832000364 dimer interface [polypeptide binding]; other site 504832000365 motif 1; other site 504832000366 active site 504832000367 motif 2; other site 504832000368 motif 3; other site 504832000369 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 504832000370 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 504832000371 putative tRNA-binding site [nucleotide binding]; other site 504832000372 B3/4 domain; Region: B3_4; pfam03483 504832000373 tRNA synthetase B5 domain; Region: B5; smart00874 504832000374 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 504832000375 dimer interface [polypeptide binding]; other site 504832000376 motif 1; other site 504832000377 motif 3; other site 504832000378 motif 2; other site 504832000379 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 504832000380 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 504832000381 Protein of unknown function (DUF1551); Region: DUF1551; pfam07585 504832000382 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832000383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832000384 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 504832000385 dimerization interface [polypeptide binding]; other site 504832000386 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504832000387 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_10; cd08515 504832000388 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504832000389 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 504832000390 dimer interface [polypeptide binding]; other site 504832000391 conserved gate region; other site 504832000392 putative PBP binding loops; other site 504832000393 ABC-ATPase subunit interface; other site 504832000394 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504832000395 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 504832000396 dimer interface [polypeptide binding]; other site 504832000397 conserved gate region; other site 504832000398 putative PBP binding loops; other site 504832000399 ABC-ATPase subunit interface; other site 504832000400 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 504832000401 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832000402 Walker A/P-loop; other site 504832000403 ATP binding site [chemical binding]; other site 504832000404 Q-loop/lid; other site 504832000405 ABC transporter signature motif; other site 504832000406 Walker B; other site 504832000407 D-loop; other site 504832000408 H-loop/switch region; other site 504832000409 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 504832000410 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832000411 Walker A/P-loop; other site 504832000412 ATP binding site [chemical binding]; other site 504832000413 Q-loop/lid; other site 504832000414 ABC transporter signature motif; other site 504832000415 Walker B; other site 504832000416 D-loop; other site 504832000417 H-loop/switch region; other site 504832000418 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832000419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504832000420 TAP-like protein; Region: Abhydrolase_4; pfam08386 504832000421 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 504832000422 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 504832000423 CysZ-like protein; Reviewed; Region: PRK12768 504832000424 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 504832000425 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504832000426 minor groove reading motif; other site 504832000427 helix-hairpin-helix signature motif; other site 504832000428 substrate binding pocket [chemical binding]; other site 504832000429 active site 504832000430 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504832000431 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 504832000432 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 504832000433 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 504832000434 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 504832000435 DNA binding site [nucleotide binding] 504832000436 active site 504832000437 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 504832000438 catalytic core [active] 504832000439 dihydrodipicolinate reductase; Provisional; Region: PRK00048 504832000440 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 504832000441 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 504832000442 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 504832000443 active site 504832000444 dimer interface [polypeptide binding]; other site 504832000445 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 504832000446 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832000447 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 504832000448 S-adenosylmethionine binding site [chemical binding]; other site 504832000449 chaperone protein DnaJ; Provisional; Region: PRK10767 504832000450 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 504832000451 HSP70 interaction site [polypeptide binding]; other site 504832000452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 504832000453 substrate binding site [polypeptide binding]; other site 504832000454 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 504832000455 Zn binding sites [ion binding]; other site 504832000456 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504832000457 dimer interface [polypeptide binding]; other site 504832000458 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 504832000459 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 504832000460 nucleotide binding site [chemical binding]; other site 504832000461 NEF interaction site [polypeptide binding]; other site 504832000462 SBD interface [polypeptide binding]; other site 504832000463 heat shock protein GrpE; Provisional; Region: PRK14141 504832000464 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 504832000465 dimer interface [polypeptide binding]; other site 504832000466 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 504832000467 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 504832000468 ribonuclease PH; Reviewed; Region: rph; PRK00173 504832000469 Ribonuclease PH; Region: RNase_PH_bact; cd11362 504832000470 hexamer interface [polypeptide binding]; other site 504832000471 active site 504832000472 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 504832000473 active site 504832000474 dimerization interface [polypeptide binding]; other site 504832000475 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 504832000476 HemN C-terminal domain; Region: HemN_C; pfam06969 504832000477 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832000478 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 504832000479 putative ligand binding site [chemical binding]; other site 504832000480 Predicted methyltransferases [General function prediction only]; Region: COG0313 504832000481 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 504832000482 putative SAM binding site [chemical binding]; other site 504832000483 putative homodimer interface [polypeptide binding]; other site 504832000484 hypothetical protein; Reviewed; Region: PRK12497 504832000485 glutathione synthetase; Provisional; Region: PRK05246 504832000486 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 504832000487 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 504832000488 Recombination, repair and ssDNA binding protein UvsY; Region: UvsY; pfam11056 504832000489 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 504832000490 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 504832000491 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 504832000492 Walker A motif; other site 504832000493 ATP binding site [chemical binding]; other site 504832000494 Walker B motif; other site 504832000495 arginine finger; other site 504832000496 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 504832000497 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 504832000498 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832000499 putative active site [active] 504832000500 heme pocket [chemical binding]; other site 504832000501 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832000502 dimer interface [polypeptide binding]; other site 504832000503 phosphorylation site [posttranslational modification] 504832000504 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832000505 ATP binding site [chemical binding]; other site 504832000506 Mg2+ binding site [ion binding]; other site 504832000507 G-X-G motif; other site 504832000508 Response regulator receiver domain; Region: Response_reg; pfam00072 504832000509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832000510 active site 504832000511 phosphorylation site [posttranslational modification] 504832000512 intermolecular recognition site; other site 504832000513 dimerization interface [polypeptide binding]; other site 504832000514 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 504832000515 pantothenate kinase; Provisional; Region: PRK05439 504832000516 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 504832000517 ATP-binding site [chemical binding]; other site 504832000518 CoA-binding site [chemical binding]; other site 504832000519 Mg2+-binding site [ion binding]; other site 504832000520 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 504832000521 metal binding site [ion binding]; metal-binding site 504832000522 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 504832000523 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 504832000524 substrate binding site [chemical binding]; other site 504832000525 glutamase interaction surface [polypeptide binding]; other site 504832000526 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 504832000527 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 504832000528 catalytic residues [active] 504832000529 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 504832000530 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 504832000531 putative active site [active] 504832000532 oxyanion strand; other site 504832000533 catalytic triad [active] 504832000534 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 504832000535 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 504832000536 putative active site pocket [active] 504832000537 4-fold oligomerization interface [polypeptide binding]; other site 504832000538 metal binding residues [ion binding]; metal-binding site 504832000539 3-fold/trimer interface [polypeptide binding]; other site 504832000540 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 504832000541 active site 504832000542 HslU subunit interaction site [polypeptide binding]; other site 504832000543 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 504832000544 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 504832000545 Walker A motif; other site 504832000546 ATP binding site [chemical binding]; other site 504832000547 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 504832000548 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504832000549 Smr domain; Region: Smr; pfam01713 504832000550 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 504832000551 MltA specific insert domain; Region: MltA; smart00925 504832000552 3D domain; Region: 3D; pfam06725 504832000553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 504832000554 preprotein translocase subunit SecB; Validated; Region: PRK05751 504832000555 SecA binding site; other site 504832000556 Preprotein binding site; other site 504832000557 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 504832000558 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 504832000559 active site 504832000560 catalytic site [active] 504832000561 substrate binding site [chemical binding]; other site 504832000562 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 504832000563 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 504832000564 CoA-binding site [chemical binding]; other site 504832000565 ATP-binding [chemical binding]; other site 504832000566 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 504832000567 active site 504832000568 dimer interface [polypeptide binding]; other site 504832000569 PEP synthetase regulatory protein; Provisional; Region: PRK05339 504832000570 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 504832000571 transcription termination factor Rho; Provisional; Region: rho; PRK09376 504832000572 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 504832000573 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 504832000574 RNA binding site [nucleotide binding]; other site 504832000575 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 504832000576 multimer interface [polypeptide binding]; other site 504832000577 Walker A motif; other site 504832000578 ATP binding site [chemical binding]; other site 504832000579 Walker B motif; other site 504832000580 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 504832000581 non-specific DNA binding site [nucleotide binding]; other site 504832000582 salt bridge; other site 504832000583 sequence-specific DNA binding site [nucleotide binding]; other site 504832000584 Cupin domain; Region: Cupin_2; pfam07883 504832000585 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832000586 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 504832000587 putative C-terminal domain interface [polypeptide binding]; other site 504832000588 putative GSH binding site (G-site) [chemical binding]; other site 504832000589 putative dimer interface [polypeptide binding]; other site 504832000590 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 504832000591 dimer interface [polypeptide binding]; other site 504832000592 N-terminal domain interface [polypeptide binding]; other site 504832000593 putative substrate binding pocket (H-site) [chemical binding]; other site 504832000594 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 504832000595 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 504832000596 putative ligand binding site [chemical binding]; other site 504832000597 NAD binding site [chemical binding]; other site 504832000598 catalytic site [active] 504832000599 Cupin domain; Region: Cupin_2; pfam07883 504832000600 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504832000601 tartrate dehydrogenase; Region: TTC; TIGR02089 504832000602 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 504832000603 NMT1-like family; Region: NMT1_2; pfam13379 504832000604 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832000605 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832000606 Walker A/P-loop; other site 504832000607 ATP binding site [chemical binding]; other site 504832000608 Q-loop/lid; other site 504832000609 ABC transporter signature motif; other site 504832000610 Walker B; other site 504832000611 D-loop; other site 504832000612 H-loop/switch region; other site 504832000613 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832000614 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 504832000615 ABC-ATPase subunit interface; other site 504832000616 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 504832000617 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 504832000618 catalytic residues [active] 504832000619 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 504832000620 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 504832000621 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 504832000622 trmE is a tRNA modification GTPase; Region: trmE; cd04164 504832000623 G1 box; other site 504832000624 GTP/Mg2+ binding site [chemical binding]; other site 504832000625 Switch I region; other site 504832000626 G2 box; other site 504832000627 Switch II region; other site 504832000628 G3 box; other site 504832000629 G4 box; other site 504832000630 G5 box; other site 504832000631 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 504832000632 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 504832000633 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504832000634 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 504832000635 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 504832000636 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 504832000637 S-adenosylmethionine binding site [chemical binding]; other site 504832000638 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504832000639 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 504832000640 P-loop; other site 504832000641 Magnesium ion binding site [ion binding]; other site 504832000642 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 504832000643 Magnesium ion binding site [ion binding]; other site 504832000644 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 504832000645 ParB-like nuclease domain; Region: ParBc; pfam02195 504832000646 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 504832000647 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 504832000648 Lipopolysaccharide-assembly; Region: LptE; cl01125 504832000649 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 504832000650 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 504832000651 HIGH motif; other site 504832000652 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 504832000653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504832000654 active site 504832000655 KMSKS motif; other site 504832000656 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 504832000657 tRNA binding surface [nucleotide binding]; other site 504832000658 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 504832000659 dimerization interface [polypeptide binding]; other site 504832000660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832000661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832000662 metal binding site [ion binding]; metal-binding site 504832000663 active site 504832000664 I-site; other site 504832000665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 504832000666 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504832000667 catalytic residue [active] 504832000668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 504832000669 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832000670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832000671 active site 504832000672 phosphorylation site [posttranslational modification] 504832000673 intermolecular recognition site; other site 504832000674 dimerization interface [polypeptide binding]; other site 504832000675 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 504832000676 DNA binding site [nucleotide binding] 504832000677 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504832000678 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 504832000679 ligand binding site [chemical binding]; other site 504832000680 flexible hinge region; other site 504832000681 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 504832000682 putative catalytic site [active] 504832000683 putative phosphate binding site [ion binding]; other site 504832000684 active site 504832000685 metal binding site A [ion binding]; metal-binding site 504832000686 DNA binding site [nucleotide binding] 504832000687 putative AP binding site [nucleotide binding]; other site 504832000688 putative metal binding site B [ion binding]; other site 504832000689 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 504832000690 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 504832000691 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 504832000692 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 504832000693 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 504832000694 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 504832000695 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 504832000696 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 504832000697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832000698 homodimer interface [polypeptide binding]; other site 504832000699 catalytic residue [active] 504832000700 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 504832000701 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 504832000702 Nitrogen regulatory protein P-II; Region: P-II; smart00938 504832000703 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 504832000704 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 504832000705 active site 504832000706 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 504832000707 catalytic triad [active] 504832000708 dimer interface [polypeptide binding]; other site 504832000709 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 504832000710 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504832000711 Uncharacterized conserved protein [Function unknown]; Region: COG2835 504832000712 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 504832000713 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 504832000714 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 504832000715 catalytic residues [active] 504832000716 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 504832000717 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 504832000718 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 504832000719 short chain dehydrogenase; Provisional; Region: PRK08278 504832000720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832000721 NAD(P) binding site [chemical binding]; other site 504832000722 active site 504832000723 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504832000724 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504832000725 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 504832000726 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 504832000727 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 504832000728 purine monophosphate binding site [chemical binding]; other site 504832000729 dimer interface [polypeptide binding]; other site 504832000730 putative catalytic residues [active] 504832000731 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 504832000732 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 504832000733 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 504832000734 NusB family; Region: NusB; pfam01029 504832000735 16S rRNA methyltransferase B; Provisional; Region: PRK10901 504832000736 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 504832000737 S-adenosylmethionine binding site [chemical binding]; other site 504832000738 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504832000739 Catalytic site; other site 504832000740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832000741 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832000742 acetyl-CoA synthetase; Provisional; Region: PRK00174 504832000743 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 504832000744 active site 504832000745 CoA binding site [chemical binding]; other site 504832000746 acyl-activating enzyme (AAE) consensus motif; other site 504832000747 AMP binding site [chemical binding]; other site 504832000748 acetate binding site [chemical binding]; other site 504832000749 EVE domain; Region: EVE; pfam01878 504832000750 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 504832000751 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 504832000752 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 504832000753 UGMP family protein; Validated; Region: PRK09604 504832000754 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 504832000755 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 504832000756 active site 504832000757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 504832000758 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 504832000759 HemY protein N-terminus; Region: HemY_N; pfam07219 504832000760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832000761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832000762 metal binding site [ion binding]; metal-binding site 504832000763 active site 504832000764 I-site; other site 504832000765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832000766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832000767 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 504832000768 substrate binding pocket [chemical binding]; other site 504832000769 dimerization interface [polypeptide binding]; other site 504832000770 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 504832000771 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832000772 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832000773 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 504832000774 Fusaric acid resistance protein family; Region: FUSC; pfam04632 504832000775 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 504832000776 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 504832000777 putative metal binding site [ion binding]; other site 504832000778 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 504832000779 classical (c) SDRs; Region: SDR_c; cd05233 504832000780 NAD(P) binding site [chemical binding]; other site 504832000781 active site 504832000782 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504832000783 Serine hydrolase; Region: Ser_hydrolase; cl17834 504832000784 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 504832000785 YGGT family; Region: YGGT; pfam02325 504832000786 hypothetical protein; Validated; Region: PRK01310 504832000787 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 504832000788 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 504832000789 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 504832000790 homodimer interface [polypeptide binding]; other site 504832000791 NADP binding site [chemical binding]; other site 504832000792 substrate binding site [chemical binding]; other site 504832000793 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 504832000794 dimer interface [polypeptide binding]; other site 504832000795 substrate binding site [chemical binding]; other site 504832000796 metal binding sites [ion binding]; metal-binding site 504832000797 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504832000798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832000799 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 504832000800 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 504832000801 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 504832000802 G1 box; other site 504832000803 putative GEF interaction site [polypeptide binding]; other site 504832000804 GTP/Mg2+ binding site [chemical binding]; other site 504832000805 Switch I region; other site 504832000806 G2 box; other site 504832000807 G3 box; other site 504832000808 Switch II region; other site 504832000809 G4 box; other site 504832000810 G5 box; other site 504832000811 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 504832000812 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 504832000813 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504832000814 pterin-4-alpha-carbinolamine dehydratase; Validated; Region: phhB; PRK00823 504832000815 aromatic arch; other site 504832000816 DCoH dimer interaction site [polypeptide binding]; other site 504832000817 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 504832000818 DCoH tetramer interaction site [polypeptide binding]; other site 504832000819 substrate binding site [chemical binding]; other site 504832000820 Uncharacterized conserved protein [Function unknown]; Region: COG3339 504832000821 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 504832000822 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 504832000823 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 504832000824 FeS/SAM binding site; other site 504832000825 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 504832000826 active site 504832000827 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 504832000828 argininosuccinate synthase; Provisional; Region: PRK13820 504832000829 ANP binding site [chemical binding]; other site 504832000830 Substrate Binding Site II [chemical binding]; other site 504832000831 Substrate Binding Site I [chemical binding]; other site 504832000832 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 504832000833 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 504832000834 ligand binding site [chemical binding]; other site 504832000835 MAPEG family; Region: MAPEG; cl09190 504832000836 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 504832000837 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 504832000838 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 504832000839 L-aspartate oxidase; Provisional; Region: PRK06175 504832000840 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 504832000841 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 504832000842 putative SdhC subunit interface [polypeptide binding]; other site 504832000843 putative proximal heme binding site [chemical binding]; other site 504832000844 putative Iron-sulfur protein interface [polypeptide binding]; other site 504832000845 putative proximal quinone binding site; other site 504832000846 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 504832000847 Iron-sulfur protein interface; other site 504832000848 proximal quinone binding site [chemical binding]; other site 504832000849 SdhD (CybS) interface [polypeptide binding]; other site 504832000850 proximal heme binding site [chemical binding]; other site 504832000851 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832000852 malonyl-CoA synthase; Validated; Region: PRK07514 504832000853 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 504832000854 acyl-activating enzyme (AAE) consensus motif; other site 504832000855 active site 504832000856 AMP binding site [chemical binding]; other site 504832000857 CoA binding site [chemical binding]; other site 504832000858 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 504832000859 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 504832000860 putative substrate translocation pore; other site 504832000861 tartrate dehydrogenase; Region: TTC; TIGR02089 504832000862 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 504832000863 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 504832000864 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504832000865 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 504832000866 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 504832000867 active site clefts [active] 504832000868 zinc binding site [ion binding]; other site 504832000869 dimer interface [polypeptide binding]; other site 504832000870 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 504832000871 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 504832000872 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 504832000873 substrate binding site [chemical binding]; other site 504832000874 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 504832000875 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 504832000876 substrate binding site [chemical binding]; other site 504832000877 ligand binding site [chemical binding]; other site 504832000878 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_8; cd07246 504832000879 putative dimer interface [polypeptide binding]; other site 504832000880 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 504832000881 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 504832000882 RimM N-terminal domain; Region: RimM; pfam01782 504832000883 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 504832000884 PRC-barrel domain; Region: PRC; pfam05239 504832000885 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 504832000886 signal recognition particle protein; Provisional; Region: PRK10867 504832000887 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 504832000888 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 504832000889 P loop; other site 504832000890 GTP binding site [chemical binding]; other site 504832000891 Signal peptide binding domain; Region: SRP_SPB; pfam02978 504832000892 Uncharacterized conserved protein [Function unknown]; Region: COG2968 504832000893 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 504832000894 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 504832000895 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 504832000896 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 504832000897 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 504832000898 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 504832000899 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504832000900 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 504832000901 FeS/SAM binding site; other site 504832000902 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 504832000903 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 504832000904 active site 504832000905 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 504832000906 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 504832000907 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 504832000908 P loop; other site 504832000909 GTP binding site [chemical binding]; other site 504832000910 intracellular septation protein A; Reviewed; Region: PRK00259 504832000911 MarR family; Region: MarR_2; pfam12802 504832000912 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832000913 PAS domain; Region: PAS_9; pfam13426 504832000914 putative active site [active] 504832000915 heme pocket [chemical binding]; other site 504832000916 RNA polymerase sigma factor; Provisional; Region: PRK11922 504832000917 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832000918 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 504832000919 DNA binding residues [nucleotide binding] 504832000920 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 504832000921 GTP cyclohydrolase I; Provisional; Region: PLN03044 504832000922 active site 504832000923 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 504832000924 [2Fe-2S] cluster binding site [ion binding]; other site 504832000925 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 504832000926 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832000927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832000928 Predicted outer membrane protein [Function unknown]; Region: COG3652 504832000929 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 504832000930 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 504832000931 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 504832000932 apolar tunnel; other site 504832000933 heme binding site [chemical binding]; other site 504832000934 dimerization interface [polypeptide binding]; other site 504832000935 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504832000936 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832000937 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 504832000938 Predicted membrane protein [Function unknown]; Region: COG3212 504832000939 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 504832000940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832000941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832000942 active site 504832000943 phosphorylation site [posttranslational modification] 504832000944 intermolecular recognition site; other site 504832000945 dimerization interface [polypeptide binding]; other site 504832000946 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 504832000947 DNA binding site [nucleotide binding] 504832000948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832000949 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832000950 dimer interface [polypeptide binding]; other site 504832000951 phosphorylation site [posttranslational modification] 504832000952 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832000953 ATP binding site [chemical binding]; other site 504832000954 Mg2+ binding site [ion binding]; other site 504832000955 G-X-G motif; other site 504832000956 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 504832000957 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 504832000958 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 504832000959 CPxP motif; other site 504832000960 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 504832000961 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 504832000962 Putative phosphatase (DUF442); Region: DUF442; cl17385 504832000963 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504832000964 Protein of unknown function (DUF2464); Region: DUF2464; pfam10240 504832000965 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 504832000966 active site 504832000967 DNA binding site [nucleotide binding] 504832000968 Int/Topo IB signature motif; other site 504832000969 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 504832000970 putative DNA binding site [nucleotide binding]; other site 504832000971 putative Zn2+ binding site [ion binding]; other site 504832000972 Low molecular weight phosphatase family; Region: LMWPc; cl00105 504832000973 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504832000974 active site 504832000975 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 504832000976 ArsC family; Region: ArsC; pfam03960 504832000977 catalytic residues [active] 504832000978 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 504832000979 arsenical-resistance protein; Region: acr3; TIGR00832 504832000980 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 504832000981 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832000982 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 504832000983 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 504832000984 Chromate transporter; Region: Chromate_transp; pfam02417 504832000985 Competence protein CoiA-like family; Region: CoiA; cl11541 504832000986 Superfamily II helicase [General function prediction only]; Region: COG1204 504832000987 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 504832000988 ATP binding site [chemical binding]; other site 504832000989 putative Mg++ binding site [ion binding]; other site 504832000990 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 504832000991 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 504832000992 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 504832000993 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 504832000994 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 504832000995 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 504832000996 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 504832000997 ParB-like nuclease domain; Region: ParBc; pfam02195 504832000998 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 504832000999 S-adenosylmethionine binding site [chemical binding]; other site 504832001000 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 504832001001 Helicase_C-like; Region: Helicase_C_4; pfam13871 504832001002 Toprim domain; Region: Toprim_3; pfam13362 504832001003 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 504832001004 Uncharacterized conserved protein [Function unknown]; Region: COG5489 504832001005 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 504832001006 non-specific DNA binding site [nucleotide binding]; other site 504832001007 salt bridge; other site 504832001008 sequence-specific DNA binding site [nucleotide binding]; other site 504832001009 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 504832001010 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 504832001011 Helix-turn-helix domain; Region: HTH_17; pfam12728 504832001012 Replication initiator protein A; Region: RPA; pfam10134 504832001013 ParA-like protein; Provisional; Region: PHA02518 504832001014 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 504832001015 P-loop; other site 504832001016 Magnesium ion binding site [ion binding]; other site 504832001017 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 504832001018 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 504832001019 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 504832001020 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832001021 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832001022 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 504832001023 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832001024 catalytic residue [active] 504832001025 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 504832001026 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 504832001027 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 504832001028 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 504832001029 Walker A motif; other site 504832001030 ATP binding site [chemical binding]; other site 504832001031 Walker B motif; other site 504832001032 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 504832001033 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 504832001034 Walker A motif; other site 504832001035 ATP binding site [chemical binding]; other site 504832001036 Walker B motif; other site 504832001037 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 504832001038 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 504832001039 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 504832001040 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 504832001041 Walker A motif; other site 504832001042 ATP binding site [chemical binding]; other site 504832001043 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 504832001044 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 504832001045 conjugal transfer protein TrbL; Provisional; Region: PRK13875 504832001046 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 504832001047 conjugal transfer protein TrbF; Provisional; Region: PRK13872 504832001048 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 504832001049 VirB7 interaction site; other site 504832001050 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 504832001051 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 504832001052 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 504832001053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832001054 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 504832001055 dimerization interface [polypeptide binding]; other site 504832001056 substrate binding pocket [chemical binding]; other site 504832001057 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832001058 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 504832001059 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 504832001060 active site 504832001061 phosphorylation site [posttranslational modification] 504832001062 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832001063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832001064 active site 504832001065 phosphorylation site [posttranslational modification] 504832001066 intermolecular recognition site; other site 504832001067 dimerization interface [polypeptide binding]; other site 504832001068 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 504832001069 DNA binding site [nucleotide binding] 504832001070 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 504832001071 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 504832001072 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 504832001073 Ligand Binding Site [chemical binding]; other site 504832001074 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 504832001075 GAF domain; Region: GAF_3; pfam13492 504832001076 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832001077 dimer interface [polypeptide binding]; other site 504832001078 phosphorylation site [posttranslational modification] 504832001079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832001080 ATP binding site [chemical binding]; other site 504832001081 Mg2+ binding site [ion binding]; other site 504832001082 G-X-G motif; other site 504832001083 K+-transporting ATPase, c chain; Region: KdpC; cl00944 504832001084 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 504832001085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832001086 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504832001087 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 504832001088 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 504832001089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 504832001090 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 504832001091 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832001092 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 504832001093 putative dimer interface [polypeptide binding]; other site 504832001094 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832001095 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 504832001096 putative dimer interface [polypeptide binding]; other site 504832001097 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 504832001098 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 504832001099 non-specific DNA binding site [nucleotide binding]; other site 504832001100 salt bridge; other site 504832001101 sequence-specific DNA binding site [nucleotide binding]; other site 504832001102 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 504832001103 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 504832001104 S-adenosylmethionine binding site [chemical binding]; other site 504832001105 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 504832001106 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 504832001107 AAA domain; Region: AAA_23; pfam13476 504832001108 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 504832001109 active site 504832001110 metal binding site [ion binding]; metal-binding site 504832001111 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 504832001112 Part of AAA domain; Region: AAA_19; pfam13245 504832001113 Family description; Region: UvrD_C_2; pfam13538 504832001114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832001115 AAA domain; Region: AAA_23; pfam13476 504832001116 Walker A/P-loop; other site 504832001117 ATP binding site [chemical binding]; other site 504832001118 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 504832001119 Nuclease-related domain; Region: NERD; pfam08378 504832001120 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 504832001121 ATP binding site [chemical binding]; other site 504832001122 putative Mg++ binding site [ion binding]; other site 504832001123 helicase superfamily c-terminal domain; Region: HELICc; smart00490 504832001124 ATP-binding site [chemical binding]; other site 504832001125 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 504832001126 DNA binding site [nucleotide binding] 504832001127 substrate interaction site [chemical binding]; other site 504832001128 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504832001129 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 504832001130 ATP binding site [chemical binding]; other site 504832001131 integrase; Provisional; Region: int; PHA02601 504832001132 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 504832001133 active site 504832001134 DNA binding site [nucleotide binding] 504832001135 Int/Topo IB signature motif; other site 504832001136 hypothetical protein; Provisional; Region: PRK11770 504832001137 Domain of unknown function (DUF307); Region: DUF307; pfam03733 504832001138 Domain of unknown function (DUF307); Region: DUF307; pfam03733 504832001139 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 504832001140 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 504832001141 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 504832001142 active site 504832001143 FMN binding site [chemical binding]; other site 504832001144 substrate binding site [chemical binding]; other site 504832001145 homotetramer interface [polypeptide binding]; other site 504832001146 catalytic residue [active] 504832001147 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504832001148 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 504832001149 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 504832001150 heme binding pocket [chemical binding]; other site 504832001151 heme ligand [chemical binding]; other site 504832001152 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 504832001153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832001154 active site 504832001155 phosphorylation site [posttranslational modification] 504832001156 intermolecular recognition site; other site 504832001157 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 504832001158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832001159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832001160 dimer interface [polypeptide binding]; other site 504832001161 phosphorylation site [posttranslational modification] 504832001162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832001163 ATP binding site [chemical binding]; other site 504832001164 Mg2+ binding site [ion binding]; other site 504832001165 G-X-G motif; other site 504832001166 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 504832001167 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 504832001168 Protein of unknown function DUF45; Region: DUF45; pfam01863 504832001169 Transglycosylase; Region: Transgly; pfam00912 504832001170 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 504832001171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504832001172 PII uridylyl-transferase; Provisional; Region: PRK05092 504832001173 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504832001174 metal binding triad; other site 504832001175 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 504832001176 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 504832001177 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 504832001178 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 504832001179 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 504832001180 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 504832001181 substrate binding pocket [chemical binding]; other site 504832001182 membrane-bound complex binding site; other site 504832001183 hinge residues; other site 504832001184 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832001185 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 504832001186 dimer interface [polypeptide binding]; other site 504832001187 conserved gate region; other site 504832001188 putative PBP binding loops; other site 504832001189 ABC-ATPase subunit interface; other site 504832001190 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832001191 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832001192 Walker A/P-loop; other site 504832001193 ATP binding site [chemical binding]; other site 504832001194 Q-loop/lid; other site 504832001195 ABC transporter signature motif; other site 504832001196 Walker B; other site 504832001197 D-loop; other site 504832001198 H-loop/switch region; other site 504832001199 OsmC-like protein; Region: OsmC; pfam02566 504832001200 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 504832001201 MutS domain I; Region: MutS_I; pfam01624 504832001202 MutS domain II; Region: MutS_II; pfam05188 504832001203 MutS domain III; Region: MutS_III; pfam05192 504832001204 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 504832001205 Walker A/P-loop; other site 504832001206 ATP binding site [chemical binding]; other site 504832001207 Q-loop/lid; other site 504832001208 ABC transporter signature motif; other site 504832001209 Walker B; other site 504832001210 D-loop; other site 504832001211 H-loop/switch region; other site 504832001212 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 504832001213 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 504832001214 active site 504832001215 nucleophile elbow; other site 504832001216 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504832001217 metal binding site 2 [ion binding]; metal-binding site 504832001218 putative DNA binding helix; other site 504832001219 metal binding site 1 [ion binding]; metal-binding site 504832001220 dimer interface [polypeptide binding]; other site 504832001221 structural Zn2+ binding site [ion binding]; other site 504832001222 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 504832001223 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504832001224 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504832001225 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 504832001226 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 504832001227 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504832001228 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504832001229 substrate binding pocket [chemical binding]; other site 504832001230 chain length determination region; other site 504832001231 substrate-Mg2+ binding site; other site 504832001232 catalytic residues [active] 504832001233 aspartate-rich region 1; other site 504832001234 active site lid residues [active] 504832001235 aspartate-rich region 2; other site 504832001236 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 504832001237 Transglycosylase; Region: Transgly; cl17702 504832001238 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 504832001239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832001240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832001241 metal binding site [ion binding]; metal-binding site 504832001242 active site 504832001243 I-site; other site 504832001244 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 504832001245 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 504832001246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 504832001247 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 504832001248 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 504832001249 putative acyltransferase; Provisional; Region: PRK05790 504832001250 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 504832001251 dimer interface [polypeptide binding]; other site 504832001252 active site 504832001253 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 504832001254 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 504832001255 NAD(P) binding site [chemical binding]; other site 504832001256 homotetramer interface [polypeptide binding]; other site 504832001257 homodimer interface [polypeptide binding]; other site 504832001258 active site 504832001259 EamA-like transporter family; Region: EamA; pfam00892 504832001260 aromatic amino acid exporter; Provisional; Region: PRK11689 504832001261 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 504832001262 Amidase; Region: Amidase; pfam01425 504832001263 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 504832001264 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 504832001265 Methyltransferase domain; Region: Methyltransf_23; pfam13489 504832001266 Methyltransferase domain; Region: Methyltransf_11; pfam08241 504832001267 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 504832001268 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 504832001269 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 504832001270 peptide chain release factor 1; Validated; Region: prfA; PRK00591 504832001271 This domain is found in peptide chain release factors; Region: PCRF; smart00937 504832001272 RF-1 domain; Region: RF-1; pfam00472 504832001273 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 504832001274 GAF domain; Region: GAF; pfam01590 504832001275 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 504832001276 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 504832001277 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 504832001278 MarC family integral membrane protein; Region: MarC; cl00919 504832001279 aspartate kinase; Reviewed; Region: PRK06635 504832001280 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 504832001281 putative nucleotide binding site [chemical binding]; other site 504832001282 putative catalytic residues [active] 504832001283 putative Mg ion binding site [ion binding]; other site 504832001284 putative aspartate binding site [chemical binding]; other site 504832001285 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 504832001286 putative allosteric regulatory site; other site 504832001287 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 504832001288 putative allosteric regulatory residue; other site 504832001289 Bacterial PH domain; Region: DUF304; pfam03703 504832001290 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 504832001291 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 504832001292 S-adenosylmethionine binding site [chemical binding]; other site 504832001293 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 504832001294 nitrilase; Region: PLN02798 504832001295 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 504832001296 putative active site [active] 504832001297 catalytic triad [active] 504832001298 dimer interface [polypeptide binding]; other site 504832001299 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 504832001300 GSH binding site [chemical binding]; other site 504832001301 catalytic residues [active] 504832001302 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 504832001303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832001304 active site 504832001305 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 504832001306 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 504832001307 active site 504832001308 8-oxo-dGMP binding site [chemical binding]; other site 504832001309 nudix motif; other site 504832001310 metal binding site [ion binding]; metal-binding site 504832001311 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 504832001312 heterotetramer interface [polypeptide binding]; other site 504832001313 active site pocket [active] 504832001314 cleavage site 504832001315 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 504832001316 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 504832001317 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 504832001318 ATP binding site [chemical binding]; other site 504832001319 putative Mg++ binding site [ion binding]; other site 504832001320 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 504832001321 SEC-C motif; Region: SEC-C; pfam02810 504832001322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 504832001323 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 504832001324 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 504832001325 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 504832001326 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 504832001327 active site 504832001328 DNA binding site [nucleotide binding] 504832001329 Int/Topo IB signature motif; other site 504832001330 shikimate kinase; Provisional; Region: PRK13946 504832001331 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 504832001332 ADP binding site [chemical binding]; other site 504832001333 magnesium binding site [ion binding]; other site 504832001334 putative shikimate binding site; other site 504832001335 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 504832001336 active site 504832001337 dimer interface [polypeptide binding]; other site 504832001338 metal binding site [ion binding]; metal-binding site 504832001339 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 504832001340 Domain of unknown function DUF21; Region: DUF21; pfam01595 504832001341 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 504832001342 Transporter associated domain; Region: CorC_HlyC; smart01091 504832001343 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 504832001344 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 504832001345 HSP70 interaction site [polypeptide binding]; other site 504832001346 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 504832001347 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 504832001348 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 504832001349 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 504832001350 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 504832001351 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 504832001352 metal ion-dependent adhesion site (MIDAS); other site 504832001353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 504832001354 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 504832001355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504832001356 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832001357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832001358 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 504832001359 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504832001360 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504832001361 DEAD/DEAH box helicase; Region: DEAD; pfam00270 504832001362 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 504832001363 nucleotide binding region [chemical binding]; other site 504832001364 ATP-binding site [chemical binding]; other site 504832001365 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 504832001366 RNA binding surface [nucleotide binding]; other site 504832001367 Ferredoxin [Energy production and conversion]; Region: COG1146 504832001368 4Fe-4S binding domain; Region: Fer4; cl02805 504832001369 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 504832001370 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 504832001371 Peptidase family M48; Region: Peptidase_M48; pfam01435 504832001372 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504832001373 Staphylococcal nuclease homologues; Region: SNc; smart00318 504832001374 Catalytic site; other site 504832001375 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504832001376 Predicted membrane protein [Function unknown]; Region: COG2261 504832001377 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 504832001378 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 504832001379 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_2; cd07253 504832001380 dimer interface [polypeptide binding]; other site 504832001381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832001382 metal binding site [ion binding]; metal-binding site 504832001383 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 504832001384 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 504832001385 active site 504832001386 FMN binding site [chemical binding]; other site 504832001387 substrate binding site [chemical binding]; other site 504832001388 3Fe-4S cluster binding site [ion binding]; other site 504832001389 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832001390 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 504832001391 Creatinine amidohydrolase; Region: Creatininase; pfam02633 504832001392 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 504832001393 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 504832001394 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832001395 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832001396 Walker A/P-loop; other site 504832001397 ATP binding site [chemical binding]; other site 504832001398 Q-loop/lid; other site 504832001399 ABC transporter signature motif; other site 504832001400 Walker B; other site 504832001401 D-loop; other site 504832001402 H-loop/switch region; other site 504832001403 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832001404 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 504832001405 dimer interface [polypeptide binding]; other site 504832001406 conserved gate region; other site 504832001407 ABC-ATPase subunit interface; other site 504832001408 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 504832001409 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 504832001410 putative ligand binding site [chemical binding]; other site 504832001411 NAD binding site [chemical binding]; other site 504832001412 catalytic site [active] 504832001413 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 504832001414 MPN+ (JAMM) motif; other site 504832001415 Zinc-binding site [ion binding]; other site 504832001416 AAA domain; Region: AAA_11; pfam13086 504832001417 Part of AAA domain; Region: AAA_19; pfam13245 504832001418 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 504832001419 AAA domain; Region: AAA_12; pfam13087 504832001420 MarR family; Region: MarR_2; pfam12802 504832001421 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar5; cd09133 504832001422 PLD-like domain; Region: PLDc_2; pfam13091 504832001423 putative active site [active] 504832001424 putative catalytic site [active] 504832001425 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar5; cd09133 504832001426 PLD-like domain; Region: PLDc_2; pfam13091 504832001427 putative active site [active] 504832001428 putative catalytic site [active] 504832001429 Helix-turn-helix domain; Region: HTH_17; pfam12728 504832001430 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 504832001431 oligomeric interface; other site 504832001432 putative active site [active] 504832001433 homodimer interface [polypeptide binding]; other site 504832001434 SIR2-like domain; Region: SIR2_2; pfam13289 504832001435 Domain of unknown function DUF87; Region: DUF87; pfam01935 504832001436 HerA helicase [Replication, recombination, and repair]; Region: COG0433 504832001437 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 504832001438 dimerization interface [polypeptide binding]; other site 504832001439 putative DNA binding site [nucleotide binding]; other site 504832001440 putative Zn2+ binding site [ion binding]; other site 504832001441 Low molecular weight phosphatase family; Region: LMWPc; cl00105 504832001442 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 504832001443 active site 504832001444 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 504832001445 ArsC family; Region: ArsC; pfam03960 504832001446 catalytic residues [active] 504832001447 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 504832001448 arsenical-resistance protein; Region: acr3; TIGR00832 504832001449 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 504832001450 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832001451 YtkA-like; Region: YtkA; pfam13115 504832001452 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 504832001453 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832001454 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832001455 Predicted metal-binding protein [General function prediction only]; Region: COG3019 504832001456 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 504832001457 DNA binding residues [nucleotide binding] 504832001458 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 504832001459 dimer interface [polypeptide binding]; other site 504832001460 putative metal binding site [ion binding]; other site 504832001461 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 504832001462 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 504832001463 metal-binding site [ion binding] 504832001464 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832001465 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 504832001466 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 504832001467 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 504832001468 active site triad [active] 504832001469 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832001470 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 504832001471 Helix-turn-helix domain; Region: HTH_17; pfam12728 504832001472 Replication initiator protein A; Region: RPA; pfam10134 504832001473 ParA-like protein; Provisional; Region: PHA02518 504832001474 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 504832001475 P-loop; other site 504832001476 Magnesium ion binding site [ion binding]; other site 504832001477 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 504832001478 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 504832001479 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 504832001480 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832001481 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832001482 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 504832001483 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832001484 catalytic residue [active] 504832001485 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 504832001486 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 504832001487 YHS domain; Region: YHS; pfam04945 504832001488 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832001489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832001490 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 504832001491 motif II; other site 504832001492 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504832001493 putative homodimer interface [polypeptide binding]; other site 504832001494 putative homotetramer interface [polypeptide binding]; other site 504832001495 putative allosteric switch controlling residues; other site 504832001496 putative metal binding site [ion binding]; other site 504832001497 putative homodimer-homodimer interface [polypeptide binding]; other site 504832001498 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832001499 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832001500 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832001501 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832001502 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 504832001503 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 504832001504 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 504832001505 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 504832001506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 504832001507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832001508 Coenzyme A binding pocket [chemical binding]; other site 504832001509 OpgC protein; Region: OpgC_C; pfam10129 504832001510 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 504832001511 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832001512 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832001513 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504832001514 CopC domain; Region: CopC; pfam04234 504832001515 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 504832001516 Predicted metal-binding protein [General function prediction only]; Region: COG3019 504832001517 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 504832001518 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 504832001519 HTH-like domain; Region: HTH_21; pfam13276 504832001520 Integrase core domain; Region: rve; pfam00665 504832001521 Integrase core domain; Region: rve_3; pfam13683 504832001522 Transposase; Region: HTH_Tnp_1; cl17663 504832001523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 504832001524 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 504832001525 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832001526 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 504832001527 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832001528 E3 interaction surface; other site 504832001529 lipoyl attachment site [posttranslational modification]; other site 504832001530 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832001531 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 504832001532 RNA polymerase sigma factor; Provisional; Region: PRK12539 504832001533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832001534 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 504832001535 DNA binding residues [nucleotide binding] 504832001536 Cytochrome c; Region: Cytochrom_C; cl11414 504832001537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832001538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832001539 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 504832001540 dimerization interface [polypeptide binding]; other site 504832001541 substrate binding pocket [chemical binding]; other site 504832001542 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 504832001543 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 504832001544 Walker A motif; other site 504832001545 ATP binding site [chemical binding]; other site 504832001546 Walker B motif; other site 504832001547 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 504832001548 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 504832001549 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 504832001550 Walker A motif; other site 504832001551 ATP binding site [chemical binding]; other site 504832001552 Walker B motif; other site 504832001553 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 504832001554 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 504832001555 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 504832001556 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 504832001557 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 504832001558 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 504832001559 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 504832001560 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 504832001561 conjugal transfer protein TrbL; Provisional; Region: PRK13875 504832001562 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 504832001563 conjugal transfer protein TrbF; Provisional; Region: PRK13872 504832001564 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 504832001565 VirB7 interaction site; other site 504832001566 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 504832001567 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 504832001568 Immunoglobulin domain; Region: Ig; cl11960 504832001569 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 504832001570 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 504832001571 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 504832001572 active site 504832001573 DNA binding site [nucleotide binding] 504832001574 Int/Topo IB signature motif; other site 504832001575 hypothetical protein; Reviewed; Region: PRK00024 504832001576 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 504832001577 MPN+ (JAMM) motif; other site 504832001578 Zinc-binding site [ion binding]; other site 504832001579 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 504832001580 active site 504832001581 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 504832001582 Mechanosensitive ion channel; Region: MS_channel; pfam00924 504832001583 potassium/proton antiporter; Reviewed; Region: PRK05326 504832001584 Transporter associated domain; Region: CorC_HlyC; smart01091 504832001585 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504832001586 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504832001587 Walker A/P-loop; other site 504832001588 ATP binding site [chemical binding]; other site 504832001589 Q-loop/lid; other site 504832001590 ABC transporter signature motif; other site 504832001591 Walker B; other site 504832001592 D-loop; other site 504832001593 H-loop/switch region; other site 504832001594 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 504832001595 ABC-ATPase subunit interface; other site 504832001596 dimer interface [polypeptide binding]; other site 504832001597 putative PBP binding regions; other site 504832001598 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 504832001599 intersubunit interface [polypeptide binding]; other site 504832001600 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504832001601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832001602 Walker A/P-loop; other site 504832001603 ATP binding site [chemical binding]; other site 504832001604 Q-loop/lid; other site 504832001605 ABC transporter signature motif; other site 504832001606 Walker B; other site 504832001607 D-loop; other site 504832001608 H-loop/switch region; other site 504832001609 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504832001610 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 504832001611 dimer interface [polypeptide binding]; other site 504832001612 conserved gate region; other site 504832001613 putative PBP binding loops; other site 504832001614 ABC-ATPase subunit interface; other site 504832001615 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504832001616 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504832001617 molybdenum-pterin binding domain; Region: Mop; TIGR00638 504832001618 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 504832001619 Uncharacterized conserved protein [Function unknown]; Region: COG3422 504832001620 GTP-binding protein LepA; Provisional; Region: PRK05433 504832001621 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 504832001622 G1 box; other site 504832001623 putative GEF interaction site [polypeptide binding]; other site 504832001624 GTP/Mg2+ binding site [chemical binding]; other site 504832001625 Switch I region; other site 504832001626 G2 box; other site 504832001627 G3 box; other site 504832001628 Switch II region; other site 504832001629 G4 box; other site 504832001630 G5 box; other site 504832001631 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 504832001632 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 504832001633 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 504832001634 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 504832001635 dimerization domain swap beta strand [polypeptide binding]; other site 504832001636 regulatory protein interface [polypeptide binding]; other site 504832001637 active site 504832001638 regulatory phosphorylation site [posttranslational modification]; other site 504832001639 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 504832001640 active pocket/dimerization site; other site 504832001641 active site 504832001642 phosphorylation site [posttranslational modification] 504832001643 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 504832001644 Hpr binding site; other site 504832001645 active site 504832001646 homohexamer subunit interaction site [polypeptide binding]; other site 504832001647 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 504832001648 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 504832001649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832001650 HAMP domain; Region: HAMP; pfam00672 504832001651 dimerization interface [polypeptide binding]; other site 504832001652 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832001653 dimer interface [polypeptide binding]; other site 504832001654 phosphorylation site [posttranslational modification] 504832001655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832001656 ATP binding site [chemical binding]; other site 504832001657 Mg2+ binding site [ion binding]; other site 504832001658 G-X-G motif; other site 504832001659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832001660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832001661 active site 504832001662 phosphorylation site [posttranslational modification] 504832001663 intermolecular recognition site; other site 504832001664 dimerization interface [polypeptide binding]; other site 504832001665 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 504832001666 DNA binding site [nucleotide binding] 504832001667 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 504832001668 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 504832001669 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 504832001670 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 504832001671 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 504832001672 active site 504832001673 substrate-binding site [chemical binding]; other site 504832001674 metal-binding site [ion binding] 504832001675 ATP binding site [chemical binding]; other site 504832001676 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 504832001677 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 504832001678 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 504832001679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832001680 active site 504832001681 5'-3' exonuclease; Region: 53EXOc; smart00475 504832001682 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 504832001683 active site 504832001684 metal binding site 1 [ion binding]; metal-binding site 504832001685 putative 5' ssDNA interaction site; other site 504832001686 metal binding site 3; metal-binding site 504832001687 metal binding site 2 [ion binding]; metal-binding site 504832001688 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 504832001689 putative DNA binding site [nucleotide binding]; other site 504832001690 putative metal binding site [ion binding]; other site 504832001691 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 504832001692 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 504832001693 active site 504832001694 catalytic site [active] 504832001695 substrate binding site [chemical binding]; other site 504832001696 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 504832001697 active site 504832001698 DNA binding site [nucleotide binding] 504832001699 catalytic site [active] 504832001700 Predicted membrane protein [Function unknown]; Region: COG4763 504832001701 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504832001702 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 504832001703 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 504832001704 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 504832001705 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 504832001706 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 504832001707 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 504832001708 ATP binding site [chemical binding]; other site 504832001709 putative Mg++ binding site [ion binding]; other site 504832001710 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 504832001711 nucleotide binding region [chemical binding]; other site 504832001712 ATP-binding site [chemical binding]; other site 504832001713 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 504832001714 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 504832001715 catalytic motif [active] 504832001716 Catalytic residue [active] 504832001717 Protein of unknown function (DUF938); Region: DUF938; pfam06080 504832001718 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 504832001719 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 504832001720 active site 504832001721 substrate binding site [chemical binding]; other site 504832001722 metal binding site [ion binding]; metal-binding site 504832001723 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 504832001724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832001725 DNA-binding site [nucleotide binding]; DNA binding site 504832001726 UTRA domain; Region: UTRA; pfam07702 504832001727 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 504832001728 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 504832001729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832001730 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832001731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 504832001732 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504832001733 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 504832001734 ligand binding site [chemical binding]; other site 504832001735 NAD binding site [chemical binding]; other site 504832001736 dimerization interface [polypeptide binding]; other site 504832001737 catalytic site [active] 504832001738 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 504832001739 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 504832001740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832001741 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 504832001742 putative dimerization interface [polypeptide binding]; other site 504832001743 Predicted membrane protein [Function unknown]; Region: COG2855 504832001744 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504832001745 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 504832001746 putative DNA binding site [nucleotide binding]; other site 504832001747 putative Zn2+ binding site [ion binding]; other site 504832001748 AsnC family; Region: AsnC_trans_reg; pfam01037 504832001749 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504832001750 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 504832001751 substrate binding site [chemical binding]; other site 504832001752 ATP binding site [chemical binding]; other site 504832001753 HIT domain; Region: HIT; pfam01230 504832001754 nucleotide binding site/active site [active] 504832001755 HIT family signature motif; other site 504832001756 catalytic residue [active] 504832001757 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 504832001758 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 504832001759 Walker A motif; other site 504832001760 ATP binding site [chemical binding]; other site 504832001761 Walker B motif; other site 504832001762 arginine finger; other site 504832001763 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 504832001764 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 504832001765 hypothetical protein; Validated; Region: PRK00153 504832001766 recombination protein RecR; Reviewed; Region: recR; PRK00076 504832001767 RecR protein; Region: RecR; pfam02132 504832001768 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 504832001769 putative active site [active] 504832001770 putative metal-binding site [ion binding]; other site 504832001771 tetramer interface [polypeptide binding]; other site 504832001772 muropeptide transporter; Validated; Region: ampG; cl17669 504832001773 muropeptide transporter; Reviewed; Region: ampG; PRK11902 504832001774 RmuC family; Region: RmuC; pfam02646 504832001775 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 504832001776 active site 504832001777 catalytic residues [active] 504832001778 metal binding site [ion binding]; metal-binding site 504832001779 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 504832001780 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 504832001781 putative active site [active] 504832001782 substrate binding site [chemical binding]; other site 504832001783 putative cosubstrate binding site; other site 504832001784 catalytic site [active] 504832001785 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 504832001786 substrate binding site [chemical binding]; other site 504832001787 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 504832001788 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 504832001789 dimerization interface 3.5A [polypeptide binding]; other site 504832001790 active site 504832001791 nucleosidase; Provisional; Region: PRK05634 504832001792 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 504832001793 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 504832001794 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 504832001795 metal binding site [ion binding]; metal-binding site 504832001796 dimer interface [polypeptide binding]; other site 504832001797 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 504832001798 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 504832001799 trimer interface [polypeptide binding]; other site 504832001800 active site 504832001801 substrate binding site [chemical binding]; other site 504832001802 CoA binding site [chemical binding]; other site 504832001803 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 504832001804 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 504832001805 motif II; other site 504832001806 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 504832001807 feedback inhibition sensing region; other site 504832001808 homohexameric interface [polypeptide binding]; other site 504832001809 nucleotide binding site [chemical binding]; other site 504832001810 N-acetyl-L-glutamate binding site [chemical binding]; other site 504832001811 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 504832001812 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 504832001813 G1 box; other site 504832001814 GTP/Mg2+ binding site [chemical binding]; other site 504832001815 Switch I region; other site 504832001816 G2 box; other site 504832001817 G3 box; other site 504832001818 Switch II region; other site 504832001819 G4 box; other site 504832001820 G5 box; other site 504832001821 membrane protein insertase; Provisional; Region: PRK01318 504832001822 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 504832001823 Ribonuclease P; Region: Ribonuclease_P; cl00457 504832001824 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832001825 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832001826 ATP binding site [chemical binding]; other site 504832001827 Mg2+ binding site [ion binding]; other site 504832001828 G-X-G motif; other site 504832001829 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504832001830 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504832001831 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 504832001832 dimer interface [polypeptide binding]; other site 504832001833 conserved gate region; other site 504832001834 putative PBP binding loops; other site 504832001835 ABC-ATPase subunit interface; other site 504832001836 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504832001837 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 504832001838 dimer interface [polypeptide binding]; other site 504832001839 conserved gate region; other site 504832001840 putative PBP binding loops; other site 504832001841 ABC-ATPase subunit interface; other site 504832001842 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504832001843 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_17; cd08503 504832001844 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 504832001845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832001846 Walker A/P-loop; other site 504832001847 ATP binding site [chemical binding]; other site 504832001848 Q-loop/lid; other site 504832001849 ABC transporter signature motif; other site 504832001850 Walker B; other site 504832001851 D-loop; other site 504832001852 H-loop/switch region; other site 504832001853 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 504832001854 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832001855 Walker A/P-loop; other site 504832001856 ATP binding site [chemical binding]; other site 504832001857 Q-loop/lid; other site 504832001858 ABC transporter signature motif; other site 504832001859 Walker B; other site 504832001860 D-loop; other site 504832001861 H-loop/switch region; other site 504832001862 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832001863 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 504832001864 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 504832001865 DNA binding residues [nucleotide binding] 504832001866 dimer interface [polypeptide binding]; other site 504832001867 copper binding site [ion binding]; other site 504832001868 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832001869 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 504832001870 metal-binding site [ion binding] 504832001871 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832001872 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 504832001873 metal-binding site [ion binding] 504832001874 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832001875 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 504832001876 motif II; other site 504832001877 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 504832001878 metal-binding site [ion binding] 504832001879 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 504832001880 Amidase; Region: Amidase; cl11426 504832001881 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504832001882 MarR family; Region: MarR_2; pfam12802 504832001883 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504832001884 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 504832001885 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504832001886 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 504832001887 dimer interface [polypeptide binding]; other site 504832001888 conserved gate region; other site 504832001889 putative PBP binding loops; other site 504832001890 ABC-ATPase subunit interface; other site 504832001891 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504832001892 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 504832001893 dimer interface [polypeptide binding]; other site 504832001894 conserved gate region; other site 504832001895 putative PBP binding loops; other site 504832001896 ABC-ATPase subunit interface; other site 504832001897 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 504832001898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832001899 Walker A/P-loop; other site 504832001900 ATP binding site [chemical binding]; other site 504832001901 Q-loop/lid; other site 504832001902 ABC transporter signature motif; other site 504832001903 Walker B; other site 504832001904 D-loop; other site 504832001905 H-loop/switch region; other site 504832001906 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832001907 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 504832001908 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832001909 Walker A/P-loop; other site 504832001910 ATP binding site [chemical binding]; other site 504832001911 Q-loop/lid; other site 504832001912 ABC transporter signature motif; other site 504832001913 Walker B; other site 504832001914 D-loop; other site 504832001915 H-loop/switch region; other site 504832001916 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 504832001917 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 504832001918 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 504832001919 Amidohydrolase; Region: Amidohydro_4; pfam13147 504832001920 active site 504832001921 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504832001922 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 504832001923 catalytic loop [active] 504832001924 iron binding site [ion binding]; other site 504832001925 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504832001926 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 504832001927 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504832001928 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504832001929 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504832001930 Uncharacterized conserved protein [Function unknown]; Region: COG3287 504832001931 FIST N domain; Region: FIST; pfam08495 504832001932 FIST C domain; Region: FIST_C; pfam10442 504832001933 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832001934 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832001935 metal binding site [ion binding]; metal-binding site 504832001936 active site 504832001937 I-site; other site 504832001938 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 504832001939 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 504832001940 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 504832001941 tetrameric interface [polypeptide binding]; other site 504832001942 NAD binding site [chemical binding]; other site 504832001943 catalytic residues [active] 504832001944 Amino acid synthesis; Region: AA_synth; pfam06684 504832001945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832001946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832001947 LysR substrate binding domain; Region: LysR_substrate; pfam03466 504832001948 dimerization interface [polypeptide binding]; other site 504832001949 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832001950 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504832001951 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832001952 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504832001953 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 504832001954 dimerization interface [polypeptide binding]; other site 504832001955 ligand binding site [chemical binding]; other site 504832001956 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832001957 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 504832001958 TM-ABC transporter signature motif; other site 504832001959 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832001960 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 504832001961 TM-ABC transporter signature motif; other site 504832001962 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832001963 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832001964 Walker A/P-loop; other site 504832001965 ATP binding site [chemical binding]; other site 504832001966 Q-loop/lid; other site 504832001967 ABC transporter signature motif; other site 504832001968 Walker B; other site 504832001969 D-loop; other site 504832001970 H-loop/switch region; other site 504832001971 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832001972 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832001973 Walker A/P-loop; other site 504832001974 ATP binding site [chemical binding]; other site 504832001975 Q-loop/lid; other site 504832001976 ABC transporter signature motif; other site 504832001977 Walker B; other site 504832001978 D-loop; other site 504832001979 H-loop/switch region; other site 504832001980 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504832001981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832001982 active site 504832001983 phosphorylation site [posttranslational modification] 504832001984 intermolecular recognition site; other site 504832001985 dimerization interface [polypeptide binding]; other site 504832001986 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 504832001987 DNA binding residues [nucleotide binding] 504832001988 dimerization interface [polypeptide binding]; other site 504832001989 Histidine kinase; Region: HisKA_3; pfam07730 504832001990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832001991 ATP binding site [chemical binding]; other site 504832001992 Mg2+ binding site [ion binding]; other site 504832001993 G-X-G motif; other site 504832001994 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 504832001995 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 504832001996 S-adenosylmethionine binding site [chemical binding]; other site 504832001997 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504832001998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832001999 Walker A/P-loop; other site 504832002000 ATP binding site [chemical binding]; other site 504832002001 Q-loop/lid; other site 504832002002 ABC transporter signature motif; other site 504832002003 Walker B; other site 504832002004 D-loop; other site 504832002005 H-loop/switch region; other site 504832002006 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 504832002007 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 504832002008 Ligand Binding Site [chemical binding]; other site 504832002009 Molecular Tunnel; other site 504832002010 PAP2 superfamily; Region: PAP2; pfam01569 504832002011 active site 504832002012 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 504832002013 short chain dehydrogenase; Provisional; Region: PRK06701 504832002014 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 504832002015 NAD binding site [chemical binding]; other site 504832002016 metal binding site [ion binding]; metal-binding site 504832002017 active site 504832002018 Isochorismatase family; Region: Isochorismatase; pfam00857 504832002019 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 504832002020 catalytic triad [active] 504832002021 conserved cis-peptide bond; other site 504832002022 Low affinity iron permease; Region: Iron_permease; pfam04120 504832002023 Protein of unknown function DUF72; Region: DUF72; pfam01904 504832002024 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 504832002025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832002026 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 504832002027 putative dimerization interface [polypeptide binding]; other site 504832002028 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 504832002029 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832002030 putative ligand binding site [chemical binding]; other site 504832002031 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832002032 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 504832002033 TM-ABC transporter signature motif; other site 504832002034 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832002035 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 504832002036 TM-ABC transporter signature motif; other site 504832002037 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832002038 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832002039 Walker A/P-loop; other site 504832002040 ATP binding site [chemical binding]; other site 504832002041 Q-loop/lid; other site 504832002042 ABC transporter signature motif; other site 504832002043 Walker B; other site 504832002044 D-loop; other site 504832002045 H-loop/switch region; other site 504832002046 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832002047 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832002048 Walker A/P-loop; other site 504832002049 ATP binding site [chemical binding]; other site 504832002050 Q-loop/lid; other site 504832002051 ABC transporter signature motif; other site 504832002052 Walker B; other site 504832002053 D-loop; other site 504832002054 H-loop/switch region; other site 504832002055 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 504832002056 putative amidase; Provisional; Region: PRK06169 504832002057 Amidase; Region: Amidase; pfam01425 504832002058 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 504832002059 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 504832002060 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 504832002061 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 504832002062 substrate binding pocket [chemical binding]; other site 504832002063 membrane-bound complex binding site; other site 504832002064 hinge residues; other site 504832002065 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 504832002066 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 504832002067 dimer interface [polypeptide binding]; other site 504832002068 conserved gate region; other site 504832002069 putative PBP binding loops; other site 504832002070 ABC-ATPase subunit interface; other site 504832002071 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 504832002072 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 504832002073 Walker A/P-loop; other site 504832002074 ATP binding site [chemical binding]; other site 504832002075 Q-loop/lid; other site 504832002076 ABC transporter signature motif; other site 504832002077 Walker B; other site 504832002078 D-loop; other site 504832002079 H-loop/switch region; other site 504832002080 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 504832002081 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 504832002082 substrate binding site [chemical binding]; other site 504832002083 THF binding site; other site 504832002084 zinc-binding site [ion binding]; other site 504832002085 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 504832002086 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 504832002087 Repair protein; Region: Repair_PSII; pfam04536 504832002088 Repair protein; Region: Repair_PSII; pfam04536 504832002089 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 504832002090 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 504832002091 Protein of unknown function, DUF488; Region: DUF488; pfam04343 504832002092 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 504832002093 EF-hand domain pair; Region: EF_hand_5; pfam13499 504832002094 Ca2+ binding site [ion binding]; other site 504832002095 CCC1-related family of proteins; Region: CCC1_like; cl00278 504832002096 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 504832002097 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832002098 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832002099 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 504832002100 DNA binding site [nucleotide binding] 504832002101 active site 504832002102 Int/Topo IB signature motif; other site 504832002103 catalytic residues [active] 504832002104 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 504832002105 DNA binding site [nucleotide binding] 504832002106 active site 504832002107 Int/Topo IB signature motif; other site 504832002108 Helix-turn-helix domain; Region: HTH_17; pfam12728 504832002109 integrase; Provisional; Region: PRK09692 504832002110 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 504832002111 active site 504832002112 Int/Topo IB signature motif; other site 504832002113 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 504832002114 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 504832002115 MOFRL family; Region: MOFRL; pfam05161 504832002116 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 504832002117 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 504832002118 dimer interface [polypeptide binding]; other site 504832002119 active site 504832002120 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 504832002121 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 504832002122 N- and C-terminal domain interface [polypeptide binding]; other site 504832002123 active site 504832002124 MgATP binding site [chemical binding]; other site 504832002125 catalytic site [active] 504832002126 metal binding site [ion binding]; metal-binding site 504832002127 glycerol binding site [chemical binding]; other site 504832002128 homotetramer interface [polypeptide binding]; other site 504832002129 homodimer interface [polypeptide binding]; other site 504832002130 FBP binding site [chemical binding]; other site 504832002131 protein IIAGlc interface [polypeptide binding]; other site 504832002132 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 504832002133 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 504832002134 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 504832002135 substrate binding pocket [chemical binding]; other site 504832002136 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 504832002137 B12 binding site [chemical binding]; other site 504832002138 cobalt ligand [ion binding]; other site 504832002139 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 504832002140 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 504832002141 FAD binding site [chemical binding]; other site 504832002142 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 504832002143 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 504832002144 prephenate dehydratase; Provisional; Region: PRK11899 504832002145 Prephenate dehydratase; Region: PDT; pfam00800 504832002146 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 504832002147 putative L-Phe binding site [chemical binding]; other site 504832002148 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 504832002149 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 504832002150 Ligand binding site; other site 504832002151 oligomer interface; other site 504832002152 Cytochrome c2 [Energy production and conversion]; Region: COG3474 504832002153 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 504832002154 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 504832002155 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 504832002156 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 504832002157 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 504832002158 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 504832002159 dimer interface [polypeptide binding]; other site 504832002160 conserved gate region; other site 504832002161 putative PBP binding loops; other site 504832002162 ABC-ATPase subunit interface; other site 504832002163 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 504832002164 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 504832002165 ABC-ATPase subunit interface; other site 504832002166 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 504832002167 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832002168 Walker A/P-loop; other site 504832002169 ATP binding site [chemical binding]; other site 504832002170 Q-loop/lid; other site 504832002171 ABC transporter signature motif; other site 504832002172 Walker B; other site 504832002173 D-loop; other site 504832002174 H-loop/switch region; other site 504832002175 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832002176 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832002177 Walker A/P-loop; other site 504832002178 ATP binding site [chemical binding]; other site 504832002179 Q-loop/lid; other site 504832002180 ABC transporter signature motif; other site 504832002181 Walker B; other site 504832002182 D-loop; other site 504832002183 H-loop/switch region; other site 504832002184 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832002185 Src Homology 3 domain superfamily; Region: SH3; cl17036 504832002186 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 504832002187 NlpC/P60 family; Region: NLPC_P60; pfam00877 504832002188 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 504832002189 interface (dimer of trimers) [polypeptide binding]; other site 504832002190 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 504832002191 Substrate-binding/catalytic site; other site 504832002192 Zn-binding sites [ion binding]; other site 504832002193 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 504832002194 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 504832002195 binding surface 504832002196 TPR motif; other site 504832002197 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 504832002198 binding surface 504832002199 TPR motif; other site 504832002200 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 504832002201 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504832002202 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 504832002203 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504832002204 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 504832002205 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 504832002206 ATP binding site [chemical binding]; other site 504832002207 Walker A motif; other site 504832002208 hexamer interface [polypeptide binding]; other site 504832002209 Walker B motif; other site 504832002210 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 504832002211 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 504832002212 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 504832002213 Type IV pili component [Cell motility and secretion]; Region: COG5461 504832002214 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 504832002215 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 504832002216 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 504832002217 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 504832002218 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 504832002219 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 504832002220 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 504832002221 TadE-like protein; Region: TadE; pfam07811 504832002222 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 504832002223 TadE-like protein; Region: TadE; pfam07811 504832002224 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 504832002225 DNA-binding site [nucleotide binding]; DNA binding site 504832002226 RNA-binding motif; other site 504832002227 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 504832002228 rRNA binding site [nucleotide binding]; other site 504832002229 predicted 30S ribosome binding site; other site 504832002230 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504832002231 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 504832002232 ATP binding site [chemical binding]; other site 504832002233 Mg++ binding site [ion binding]; other site 504832002234 motif III; other site 504832002235 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 504832002236 nucleotide binding region [chemical binding]; other site 504832002237 ATP-binding site [chemical binding]; other site 504832002238 CHASE domain; Region: CHASE; cl01369 504832002239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 504832002240 HWE histidine kinase; Region: HWE_HK; pfam07536 504832002241 RNA polymerase sigma factor; Provisional; Region: PRK12540 504832002242 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832002243 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 504832002244 DNA binding residues [nucleotide binding] 504832002245 two-component response regulator; Provisional; Region: PRK09191 504832002246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832002247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832002248 active site 504832002249 phosphorylation site [posttranslational modification] 504832002250 intermolecular recognition site; other site 504832002251 dimerization interface [polypeptide binding]; other site 504832002252 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 504832002253 Domain of unknown function DUF20; Region: UPF0118; pfam01594 504832002254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832002255 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832002256 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 504832002257 malate synthase G; Provisional; Region: PRK02999 504832002258 active site 504832002259 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 504832002260 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 504832002261 G1 box; other site 504832002262 putative GEF interaction site [polypeptide binding]; other site 504832002263 GTP/Mg2+ binding site [chemical binding]; other site 504832002264 Switch I region; other site 504832002265 G2 box; other site 504832002266 CysD dimerization site [polypeptide binding]; other site 504832002267 G3 box; other site 504832002268 Switch II region; other site 504832002269 G4 box; other site 504832002270 G5 box; other site 504832002271 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 504832002272 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 504832002273 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 504832002274 ligand-binding site [chemical binding]; other site 504832002275 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 504832002276 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 504832002277 Active Sites [active] 504832002278 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 504832002279 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 504832002280 catalytic loop [active] 504832002281 iron binding site [ion binding]; other site 504832002282 siroheme synthase; Provisional; Region: cysG; PRK10637 504832002283 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 504832002284 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 504832002285 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 504832002286 active site 504832002287 SAM binding site [chemical binding]; other site 504832002288 homodimer interface [polypeptide binding]; other site 504832002289 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 504832002290 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 504832002291 Active Sites [active] 504832002292 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 504832002293 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504832002294 substrate binding pocket [chemical binding]; other site 504832002295 membrane-bound complex binding site; other site 504832002296 hinge residues; other site 504832002297 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504832002298 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 504832002299 dimer interface [polypeptide binding]; other site 504832002300 conserved gate region; other site 504832002301 putative PBP binding loops; other site 504832002302 ABC-ATPase subunit interface; other site 504832002303 sulfate transport protein; Provisional; Region: cysT; CHL00187 504832002304 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 504832002305 dimer interface [polypeptide binding]; other site 504832002306 conserved gate region; other site 504832002307 putative PBP binding loops; other site 504832002308 ABC-ATPase subunit interface; other site 504832002309 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 504832002310 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 504832002311 Walker A/P-loop; other site 504832002312 ATP binding site [chemical binding]; other site 504832002313 Q-loop/lid; other site 504832002314 ABC transporter signature motif; other site 504832002315 Walker B; other site 504832002316 D-loop; other site 504832002317 H-loop/switch region; other site 504832002318 TOBE-like domain; Region: TOBE_3; pfam12857 504832002319 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504832002320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832002321 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 504832002322 NAD(P) binding site [chemical binding]; other site 504832002323 active site 504832002324 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 504832002325 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 504832002326 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 504832002327 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 504832002328 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 504832002329 acyl-activating enzyme (AAE) consensus motif; other site 504832002330 putative AMP binding site [chemical binding]; other site 504832002331 putative active site [active] 504832002332 putative CoA binding site [chemical binding]; other site 504832002333 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 504832002334 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 504832002335 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 504832002336 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832002337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832002338 Walker A/P-loop; other site 504832002339 ATP binding site [chemical binding]; other site 504832002340 Q-loop/lid; other site 504832002341 ABC transporter signature motif; other site 504832002342 Walker B; other site 504832002343 D-loop; other site 504832002344 H-loop/switch region; other site 504832002345 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 504832002346 metal binding site [ion binding]; metal-binding site 504832002347 Predicted membrane protein [Function unknown]; Region: COG1238 504832002348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832002349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832002350 metal binding site [ion binding]; metal-binding site 504832002351 active site 504832002352 I-site; other site 504832002353 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 504832002354 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504832002355 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 504832002356 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504832002357 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 504832002358 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504832002359 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504832002360 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 504832002361 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504832002362 FAD binding domain; Region: FAD_binding_4; pfam01565 504832002363 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504832002364 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504832002365 NMT1/THI5 like; Region: NMT1; pfam09084 504832002366 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832002367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832002368 DNA-binding site [nucleotide binding]; DNA binding site 504832002369 FCD domain; Region: FCD; pfam07729 504832002370 NMT1/THI5 like; Region: NMT1; pfam09084 504832002371 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 504832002372 membrane-bound complex binding site; other site 504832002373 hinge residues; other site 504832002374 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832002375 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832002376 Walker A/P-loop; other site 504832002377 ATP binding site [chemical binding]; other site 504832002378 Q-loop/lid; other site 504832002379 ABC transporter signature motif; other site 504832002380 Walker B; other site 504832002381 D-loop; other site 504832002382 H-loop/switch region; other site 504832002383 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832002384 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 504832002385 dimer interface [polypeptide binding]; other site 504832002386 conserved gate region; other site 504832002387 putative PBP binding loops; other site 504832002388 ABC-ATPase subunit interface; other site 504832002389 hypothetical protein; Provisional; Region: PRK05463 504832002390 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504832002391 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504832002392 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 504832002393 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; cd00640 504832002394 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832002395 catalytic residue [active] 504832002396 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 504832002397 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 504832002398 metal binding site [ion binding]; metal-binding site 504832002399 dimer interface [polypeptide binding]; other site 504832002400 Coenzyme A transferase; Region: CoA_trans; cl17247 504832002401 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 504832002402 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504832002403 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504832002404 NAD(P) binding site [chemical binding]; other site 504832002405 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 504832002406 CoA binding domain; Region: CoA_binding_2; pfam13380 504832002407 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504832002408 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832002409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832002410 DNA-binding site [nucleotide binding]; DNA binding site 504832002411 FCD domain; Region: FCD; pfam07729 504832002412 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 504832002413 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 504832002414 FixH; Region: FixH; pfam05751 504832002415 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 504832002416 4Fe-4S binding domain; Region: Fer4_5; pfam12801 504832002417 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 504832002418 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 504832002419 Cytochrome c; Region: Cytochrom_C; pfam00034 504832002420 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504832002421 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 504832002422 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 504832002423 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 504832002424 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 504832002425 Low-spin heme binding site [chemical binding]; other site 504832002426 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 504832002427 Putative water exit pathway; other site 504832002428 Binuclear center (active site) [active] 504832002429 Putative proton exit pathway; other site 504832002430 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 504832002431 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 504832002432 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504832002433 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 504832002434 DctM-like transporters; Region: DctM; pfam06808 504832002435 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 504832002436 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 504832002437 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 504832002438 acyl-activating enzyme (AAE) consensus motif; other site 504832002439 putative AMP binding site [chemical binding]; other site 504832002440 putative active site [active] 504832002441 putative CoA binding site [chemical binding]; other site 504832002442 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 504832002443 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 504832002444 catalytic residues [active] 504832002445 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 504832002446 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 504832002447 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 504832002448 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 504832002449 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 504832002450 putative active site [active] 504832002451 putative substrate binding site [chemical binding]; other site 504832002452 ATP binding site [chemical binding]; other site 504832002453 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 504832002454 RNA/DNA hybrid binding site [nucleotide binding]; other site 504832002455 active site 504832002456 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 504832002457 catalytic triad [active] 504832002458 dimer interface [polypeptide binding]; other site 504832002459 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 504832002460 hypothetical protein; Validated; Region: PRK00228 504832002461 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 504832002462 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832002463 PAS fold; Region: PAS_3; pfam08447 504832002464 putative active site [active] 504832002465 heme pocket [chemical binding]; other site 504832002466 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832002467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832002468 metal binding site [ion binding]; metal-binding site 504832002469 active site 504832002470 I-site; other site 504832002471 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 504832002472 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 504832002473 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 504832002474 NAD(P) binding site [chemical binding]; other site 504832002475 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 504832002476 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 504832002477 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 504832002478 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832002479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832002480 Walker A/P-loop; other site 504832002481 ATP binding site [chemical binding]; other site 504832002482 Q-loop/lid; other site 504832002483 ABC transporter signature motif; other site 504832002484 Walker B; other site 504832002485 D-loop; other site 504832002486 H-loop/switch region; other site 504832002487 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504832002488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832002489 Coenzyme A binding pocket [chemical binding]; other site 504832002490 hypothetical protein; Validated; Region: PRK09039 504832002491 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 504832002492 ligand binding site [chemical binding]; other site 504832002493 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504832002494 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 504832002495 active site 504832002496 dimerization interface [polypeptide binding]; other site 504832002497 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 504832002498 Sel1-like repeats; Region: SEL1; smart00671 504832002499 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 504832002500 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 504832002501 thiamine phosphate binding site [chemical binding]; other site 504832002502 active site 504832002503 pyrophosphate binding site [ion binding]; other site 504832002504 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 504832002505 active site 504832002506 intersubunit interface [polypeptide binding]; other site 504832002507 catalytic residue [active] 504832002508 Phosphoglycerate kinase; Region: PGK; pfam00162 504832002509 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 504832002510 substrate binding site [chemical binding]; other site 504832002511 hinge regions; other site 504832002512 ADP binding site [chemical binding]; other site 504832002513 catalytic site [active] 504832002514 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 504832002515 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 504832002516 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 504832002517 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 504832002518 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 504832002519 TPP-binding site [chemical binding]; other site 504832002520 dimer interface [polypeptide binding]; other site 504832002521 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 504832002522 PYR/PP interface [polypeptide binding]; other site 504832002523 dimer interface [polypeptide binding]; other site 504832002524 TPP binding site [chemical binding]; other site 504832002525 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832002526 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 504832002527 Cell division protein ZapA; Region: ZapA; pfam05164 504832002528 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 504832002529 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 504832002530 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 504832002531 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832002532 putative active site [active] 504832002533 metal binding site [ion binding]; metal-binding site 504832002534 homodimer binding site [polypeptide binding]; other site 504832002535 hypothetical protein; Validated; Region: PRK00110 504832002536 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 504832002537 MgtE intracellular N domain; Region: MgtE_N; pfam03448 504832002538 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 504832002539 Divalent cation transporter; Region: MgtE; pfam01769 504832002540 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 504832002541 active site 504832002542 putative DNA-binding cleft [nucleotide binding]; other site 504832002543 dimer interface [polypeptide binding]; other site 504832002544 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 504832002545 RuvA N terminal domain; Region: RuvA_N; pfam01330 504832002546 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 504832002547 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 504832002548 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 504832002549 Walker A motif; other site 504832002550 ATP binding site [chemical binding]; other site 504832002551 Walker B motif; other site 504832002552 arginine finger; other site 504832002553 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 504832002554 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_31; cd04690 504832002555 nudix motif; other site 504832002556 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 504832002557 active site 504832002558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832002559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832002560 WHG domain; Region: WHG; pfam13305 504832002561 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 504832002562 TolQ protein; Region: tolQ; TIGR02796 504832002563 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 504832002564 TolR protein; Region: tolR; TIGR02801 504832002565 translocation protein TolB; Provisional; Region: tolB; PRK05137 504832002566 TolB amino-terminal domain; Region: TolB_N; pfam04052 504832002567 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504832002568 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504832002569 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504832002570 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504832002571 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 504832002572 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 504832002573 ligand binding site [chemical binding]; other site 504832002574 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 504832002575 Tetratricopeptide repeat; Region: TPR_6; pfam13174 504832002576 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 504832002577 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 504832002578 Ligand Binding Site [chemical binding]; other site 504832002579 FtsH Extracellular; Region: FtsH_ext; pfam06480 504832002580 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 504832002581 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 504832002582 Walker A motif; other site 504832002583 ATP binding site [chemical binding]; other site 504832002584 Walker B motif; other site 504832002585 arginine finger; other site 504832002586 Peptidase family M41; Region: Peptidase_M41; pfam01434 504832002587 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 504832002588 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832002589 putative substrate translocation pore; other site 504832002590 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 504832002591 FAD binding domain; Region: FAD_binding_4; pfam01565 504832002592 FAD binding domain; Region: FAD_binding_4; pfam01565 504832002593 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 504832002594 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 504832002595 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 504832002596 Cysteine-rich domain; Region: CCG; pfam02754 504832002597 Cysteine-rich domain; Region: CCG; pfam02754 504832002598 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 504832002599 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 504832002600 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 504832002601 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 504832002602 L-lactate permease; Region: Lactate_perm; cl00701 504832002603 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 504832002604 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504832002605 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 504832002606 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 504832002607 ring oligomerisation interface [polypeptide binding]; other site 504832002608 ATP/Mg binding site [chemical binding]; other site 504832002609 stacking interactions; other site 504832002610 hinge regions; other site 504832002611 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 504832002612 oligomerisation interface [polypeptide binding]; other site 504832002613 mobile loop; other site 504832002614 roof hairpin; other site 504832002615 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 504832002616 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832002617 putative substrate translocation pore; other site 504832002618 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 504832002619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832002620 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832002621 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 504832002622 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 504832002623 putative active site [active] 504832002624 YdjC motif; other site 504832002625 Mg binding site [ion binding]; other site 504832002626 putative homodimer interface [polypeptide binding]; other site 504832002627 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 504832002628 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 504832002629 Ligand binding site; other site 504832002630 Putative Catalytic site; other site 504832002631 DXD motif; other site 504832002632 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 504832002633 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 504832002634 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 504832002635 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832002636 motif 1; other site 504832002637 dimer interface [polypeptide binding]; other site 504832002638 active site 504832002639 motif 2; other site 504832002640 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832002641 active site 504832002642 motif 3; other site 504832002643 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 504832002644 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 504832002645 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 504832002646 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 504832002647 UbiA prenyltransferase family; Region: UbiA; pfam01040 504832002648 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 504832002649 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504832002650 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 504832002651 active site 504832002652 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 504832002653 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 504832002654 putative acyl-acceptor binding pocket; other site 504832002655 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 504832002656 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 504832002657 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 504832002658 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 504832002659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 504832002660 Cytochrome c2 [Energy production and conversion]; Region: COG3474 504832002661 rusticyanin; Region: rusti_cyanin; TIGR03095 504832002662 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 504832002663 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832002664 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 504832002665 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 504832002666 generic binding surface II; other site 504832002667 generic binding surface I; other site 504832002668 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 504832002669 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 504832002670 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 504832002671 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 504832002672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832002673 Coenzyme A binding pocket [chemical binding]; other site 504832002674 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 504832002675 nucleoside/Zn binding site; other site 504832002676 dimer interface [polypeptide binding]; other site 504832002677 catalytic motif [active] 504832002678 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 504832002679 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 504832002680 RNA binding surface [nucleotide binding]; other site 504832002681 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 504832002682 active site 504832002683 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 504832002684 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 504832002685 S-adenosylmethionine binding site [chemical binding]; other site 504832002686 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 504832002687 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832002688 ATP binding site [chemical binding]; other site 504832002689 Mg2+ binding site [ion binding]; other site 504832002690 G-X-G motif; other site 504832002691 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 504832002692 ATP binding site [chemical binding]; other site 504832002693 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 504832002694 hypothetical protein; Provisional; Region: PRK09256 504832002695 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504832002696 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504832002697 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504832002698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504832002699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504832002700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504832002701 lipoprotein signal peptidase; Provisional; Region: PRK14796 504832002702 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832002703 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832002704 N-terminal plug; other site 504832002705 ligand-binding site [chemical binding]; other site 504832002706 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 504832002707 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504832002708 active site 504832002709 HIGH motif; other site 504832002710 nucleotide binding site [chemical binding]; other site 504832002711 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 504832002712 active site 504832002713 KMSKS motif; other site 504832002714 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 504832002715 tRNA binding surface [nucleotide binding]; other site 504832002716 anticodon binding site; other site 504832002717 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 504832002718 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 504832002719 active site 504832002720 Riboflavin kinase; Region: Flavokinase; smart00904 504832002721 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 504832002722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832002723 active site 504832002724 phosphorylation site [posttranslational modification] 504832002725 intermolecular recognition site; other site 504832002726 dimerization interface [polypeptide binding]; other site 504832002727 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 504832002728 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 504832002729 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 504832002730 active site 504832002731 motif I; other site 504832002732 motif II; other site 504832002733 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 504832002734 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 504832002735 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 504832002736 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 504832002737 inhibitor-cofactor binding pocket; inhibition site 504832002738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832002739 catalytic residue [active] 504832002740 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 504832002741 TadE-like protein; Region: TadE; pfam07811 504832002742 Predicted membrane protein [Function unknown]; Region: COG4655 504832002743 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 504832002744 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 504832002745 putative active site [active] 504832002746 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 504832002747 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 504832002748 dimer interface [polypeptide binding]; other site 504832002749 motif 1; other site 504832002750 motif 2; other site 504832002751 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832002752 active site 504832002753 motif 3; other site 504832002754 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 504832002755 anticodon binding site; other site 504832002756 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 504832002757 active site 1 [active] 504832002758 dimer interface [polypeptide binding]; other site 504832002759 hexamer interface [polypeptide binding]; other site 504832002760 active site 2 [active] 504832002761 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 504832002762 B1 nucleotide binding pocket [chemical binding]; other site 504832002763 B2 nucleotide binding pocket [chemical binding]; other site 504832002764 CAS motifs; other site 504832002765 active site 504832002766 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 504832002767 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 504832002768 DNA-binding site [nucleotide binding]; DNA binding site 504832002769 RNA-binding motif; other site 504832002770 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832002771 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 504832002772 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 504832002773 GIY-YIG motif/motif A; other site 504832002774 active site 504832002775 catalytic site [active] 504832002776 putative DNA binding site [nucleotide binding]; other site 504832002777 metal binding site [ion binding]; metal-binding site 504832002778 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 504832002779 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 504832002780 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 504832002781 MoaE interaction surface [polypeptide binding]; other site 504832002782 MoeB interaction surface [polypeptide binding]; other site 504832002783 thiocarboxylated glycine; other site 504832002784 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; cd00756 504832002785 MoaE homodimer interface [polypeptide binding]; other site 504832002786 MoaD interaction [polypeptide binding]; other site 504832002787 active site residues [active] 504832002788 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 504832002789 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 504832002790 S-adenosylmethionine binding site [chemical binding]; other site 504832002791 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 504832002792 nucleoside/Zn binding site; other site 504832002793 dimer interface [polypeptide binding]; other site 504832002794 catalytic motif [active] 504832002795 multidrug efflux protein; Reviewed; Region: PRK01766 504832002796 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 504832002797 cation binding site [ion binding]; other site 504832002798 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 504832002799 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 504832002800 homodimer interface [polypeptide binding]; other site 504832002801 substrate-cofactor binding pocket; other site 504832002802 catalytic residue [active] 504832002803 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504832002804 MarR family; Region: MarR_2; pfam12802 504832002805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832002806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832002807 active site 504832002808 phosphorylation site [posttranslational modification] 504832002809 intermolecular recognition site; other site 504832002810 dimerization interface [polypeptide binding]; other site 504832002811 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 504832002812 DNA binding site [nucleotide binding] 504832002813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832002814 HAMP domain; Region: HAMP; pfam00672 504832002815 dimerization interface [polypeptide binding]; other site 504832002816 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832002817 dimer interface [polypeptide binding]; other site 504832002818 phosphorylation site [posttranslational modification] 504832002819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832002820 ATP binding site [chemical binding]; other site 504832002821 Mg2+ binding site [ion binding]; other site 504832002822 G-X-G motif; other site 504832002823 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 504832002824 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 504832002825 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 504832002826 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 504832002827 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 504832002828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832002829 active site 504832002830 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 504832002831 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 504832002832 Uncharacterized conserved protein [Function unknown]; Region: COG1565 504832002833 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 504832002834 Membrane fusogenic activity; Region: BMFP; pfam04380 504832002835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504832002836 Zn2+ binding site [ion binding]; other site 504832002837 Mg2+ binding site [ion binding]; other site 504832002838 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 504832002839 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 504832002840 5S rRNA interface [nucleotide binding]; other site 504832002841 CTC domain interface [polypeptide binding]; other site 504832002842 L16 interface [polypeptide binding]; other site 504832002843 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 504832002844 putative active site [active] 504832002845 catalytic residue [active] 504832002846 GTP-binding protein YchF; Reviewed; Region: PRK09601 504832002847 YchF GTPase; Region: YchF; cd01900 504832002848 G1 box; other site 504832002849 GTP/Mg2+ binding site [chemical binding]; other site 504832002850 Switch I region; other site 504832002851 G2 box; other site 504832002852 Switch II region; other site 504832002853 G3 box; other site 504832002854 G4 box; other site 504832002855 G5 box; other site 504832002856 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 504832002857 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 504832002858 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504832002859 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832002860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832002861 Walker A/P-loop; other site 504832002862 ATP binding site [chemical binding]; other site 504832002863 Q-loop/lid; other site 504832002864 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832002865 ABC transporter signature motif; other site 504832002866 Walker B; other site 504832002867 D-loop; other site 504832002868 ABC transporter; Region: ABC_tran_2; pfam12848 504832002869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832002870 excinuclease ABC subunit B; Provisional; Region: PRK05298 504832002871 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 504832002872 ATP binding site [chemical binding]; other site 504832002873 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 504832002874 nucleotide binding region [chemical binding]; other site 504832002875 ATP-binding site [chemical binding]; other site 504832002876 Ultra-violet resistance protein B; Region: UvrB; pfam12344 504832002877 UvrB/uvrC motif; Region: UVR; pfam02151 504832002878 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 504832002879 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 504832002880 C-terminal domain interface [polypeptide binding]; other site 504832002881 GSH binding site (G-site) [chemical binding]; other site 504832002882 dimer interface [polypeptide binding]; other site 504832002883 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 504832002884 N-terminal domain interface [polypeptide binding]; other site 504832002885 putative dimer interface [polypeptide binding]; other site 504832002886 active site 504832002887 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 504832002888 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832002889 putative C-terminal domain interface [polypeptide binding]; other site 504832002890 putative GSH binding site (G-site) [chemical binding]; other site 504832002891 putative dimer interface [polypeptide binding]; other site 504832002892 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 504832002893 putative N-terminal domain interface [polypeptide binding]; other site 504832002894 putative dimer interface [polypeptide binding]; other site 504832002895 putative substrate binding pocket (H-site) [chemical binding]; other site 504832002896 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 504832002897 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504832002898 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 504832002899 putative acyl-acceptor binding pocket; other site 504832002900 Protein of unknown function, DUF486; Region: DUF486; cl01236 504832002901 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832002902 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 504832002903 putative C-terminal domain interface [polypeptide binding]; other site 504832002904 putative GSH binding site (G-site) [chemical binding]; other site 504832002905 putative dimer interface [polypeptide binding]; other site 504832002906 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 504832002907 N-terminal domain interface [polypeptide binding]; other site 504832002908 dimer interface [polypeptide binding]; other site 504832002909 substrate binding pocket (H-site) [chemical binding]; other site 504832002910 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 504832002911 aspartate aminotransferase; Provisional; Region: PRK05764 504832002912 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 504832002913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832002914 homodimer interface [polypeptide binding]; other site 504832002915 catalytic residue [active] 504832002916 Protein of unknown function (DUF992); Region: DUF992; pfam06186 504832002917 Protein of unknown function (DUF992); Region: DUF992; pfam06186 504832002918 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 504832002919 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 504832002920 Sulfate transporter family; Region: Sulfate_transp; pfam00916 504832002921 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 504832002922 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 504832002923 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 504832002924 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 504832002925 shikimate binding site; other site 504832002926 NAD(P) binding site [chemical binding]; other site 504832002927 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 504832002928 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 504832002929 phosphate binding site [ion binding]; other site 504832002930 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 504832002931 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 504832002932 active site 504832002933 substrate binding site [chemical binding]; other site 504832002934 metal binding site [ion binding]; metal-binding site 504832002935 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 504832002936 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832002937 putative substrate translocation pore; other site 504832002938 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832002939 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832002940 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 504832002941 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; cd01494 504832002942 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832002943 catalytic residue [active] 504832002944 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 504832002945 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504832002946 ligand binding site [chemical binding]; other site 504832002947 NAD binding site [chemical binding]; other site 504832002948 dimerization interface [polypeptide binding]; other site 504832002949 catalytic site [active] 504832002950 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 504832002951 putative L-serine binding site [chemical binding]; other site 504832002952 EamA-like transporter family; Region: EamA; pfam00892 504832002953 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504832002954 EamA-like transporter family; Region: EamA; pfam00892 504832002955 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 504832002956 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 504832002957 GDP-binding site [chemical binding]; other site 504832002958 ACT binding site; other site 504832002959 IMP binding site; other site 504832002960 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 504832002961 active site 504832002962 substrate binding site [chemical binding]; other site 504832002963 cosubstrate binding site; other site 504832002964 catalytic site [active] 504832002965 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 504832002966 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 504832002967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832002968 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 504832002969 DNA binding residues [nucleotide binding] 504832002970 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 504832002971 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 504832002972 RNA binding surface [nucleotide binding]; other site 504832002973 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 504832002974 active site 504832002975 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832002976 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 504832002977 metal-binding site [ion binding] 504832002978 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832002979 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504832002980 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 504832002981 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 504832002982 Cytochrome c; Region: Cytochrom_C; pfam00034 504832002983 Cytochrome c; Region: Cytochrom_C; pfam00034 504832002984 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 504832002985 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 504832002986 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 504832002987 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 504832002988 Low-spin heme binding site [chemical binding]; other site 504832002989 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 504832002990 Putative water exit pathway; other site 504832002991 Binuclear center (active site) [active] 504832002992 Putative proton exit pathway; other site 504832002993 NnrS protein; Region: NnrS; pfam05940 504832002994 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 504832002995 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 504832002996 ligand binding site [chemical binding]; other site 504832002997 flexible hinge region; other site 504832002998 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 504832002999 putative switch regulator; other site 504832003000 non-specific DNA interactions [nucleotide binding]; other site 504832003001 DNA binding site [nucleotide binding] 504832003002 sequence specific DNA binding site [nucleotide binding]; other site 504832003003 putative cAMP binding site [chemical binding]; other site 504832003004 Response regulator receiver domain; Region: Response_reg; pfam00072 504832003005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003006 active site 504832003007 phosphorylation site [posttranslational modification] 504832003008 intermolecular recognition site; other site 504832003009 dimerization interface [polypeptide binding]; other site 504832003010 response regulator FixJ; Provisional; Region: fixJ; PRK09390 504832003011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003012 active site 504832003013 phosphorylation site [posttranslational modification] 504832003014 intermolecular recognition site; other site 504832003015 dimerization interface [polypeptide binding]; other site 504832003016 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 504832003017 DNA binding residues [nucleotide binding] 504832003018 dimerization interface [polypeptide binding]; other site 504832003019 PAS domain S-box; Region: sensory_box; TIGR00229 504832003020 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003021 putative active site [active] 504832003022 heme pocket [chemical binding]; other site 504832003023 PAS domain S-box; Region: sensory_box; TIGR00229 504832003024 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003025 putative active site [active] 504832003026 heme pocket [chemical binding]; other site 504832003027 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832003028 dimer interface [polypeptide binding]; other site 504832003029 phosphorylation site [posttranslational modification] 504832003030 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832003031 ATP binding site [chemical binding]; other site 504832003032 Mg2+ binding site [ion binding]; other site 504832003033 G-X-G motif; other site 504832003034 Ferredoxin [Energy production and conversion]; Region: COG1146 504832003035 4Fe-4S binding domain; Region: Fer4; pfam00037 504832003036 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 504832003037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832003038 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 504832003039 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 504832003040 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 504832003041 domain interfaces; other site 504832003042 active site 504832003043 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 504832003044 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 504832003045 substrate binding site [chemical binding]; other site 504832003046 active site 504832003047 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003048 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 504832003049 putative active site [active] 504832003050 heme pocket [chemical binding]; other site 504832003051 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003052 putative active site [active] 504832003053 heme pocket [chemical binding]; other site 504832003054 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 504832003055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832003056 dimer interface [polypeptide binding]; other site 504832003057 putative CheW interface [polypeptide binding]; other site 504832003058 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 504832003059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832003060 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832003061 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 504832003062 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 504832003063 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504832003064 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 504832003065 active site 504832003066 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 504832003067 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 504832003068 putative binding surface; other site 504832003069 active site 504832003070 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 504832003071 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 504832003072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832003073 ATP binding site [chemical binding]; other site 504832003074 Mg2+ binding site [ion binding]; other site 504832003075 G-X-G motif; other site 504832003076 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 504832003077 Response regulator receiver domain; Region: Response_reg; pfam00072 504832003078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003079 active site 504832003080 phosphorylation site [posttranslational modification] 504832003081 intermolecular recognition site; other site 504832003082 dimerization interface [polypeptide binding]; other site 504832003083 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 504832003084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003085 Response regulator receiver domain; Region: Response_reg; pfam00072 504832003086 active site 504832003087 phosphorylation site [posttranslational modification] 504832003088 intermolecular recognition site; other site 504832003089 dimerization interface [polypeptide binding]; other site 504832003090 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 504832003091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003092 active site 504832003093 phosphorylation site [posttranslational modification] 504832003094 intermolecular recognition site; other site 504832003095 dimerization interface [polypeptide binding]; other site 504832003096 CheB methylesterase; Region: CheB_methylest; pfam01339 504832003097 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 504832003098 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 504832003099 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 504832003100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832003101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003102 active site 504832003103 phosphorylation site [posttranslational modification] 504832003104 intermolecular recognition site; other site 504832003105 dimerization interface [polypeptide binding]; other site 504832003106 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 504832003107 DNA binding site [nucleotide binding] 504832003108 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 504832003109 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 504832003110 Walker A motif/ATP binding site; other site 504832003111 Walker B motif; other site 504832003112 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 504832003113 RNA polymerase sigma factor; Provisional; Region: PRK12514 504832003114 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832003115 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 504832003116 DNA binding residues [nucleotide binding] 504832003117 Anti-sigma-K factor rskA; Region: RskA; pfam10099 504832003118 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 504832003119 FHIPEP family; Region: FHIPEP; pfam00771 504832003120 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504832003121 heme-binding site [chemical binding]; other site 504832003122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832003123 dimer interface [polypeptide binding]; other site 504832003124 putative CheW interface [polypeptide binding]; other site 504832003125 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 504832003126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832003127 DNA-binding site [nucleotide binding]; DNA binding site 504832003128 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832003129 FCD domain; Region: FCD; pfam07729 504832003130 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504832003131 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 504832003132 putative NAD(P) binding site [chemical binding]; other site 504832003133 putative active site [active] 504832003134 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832003135 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832003136 Walker A/P-loop; other site 504832003137 ATP binding site [chemical binding]; other site 504832003138 Q-loop/lid; other site 504832003139 ABC transporter signature motif; other site 504832003140 Walker B; other site 504832003141 D-loop; other site 504832003142 H-loop/switch region; other site 504832003143 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832003144 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 504832003145 dimer interface [polypeptide binding]; other site 504832003146 conserved gate region; other site 504832003147 putative PBP binding loops; other site 504832003148 ABC-ATPase subunit interface; other site 504832003149 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 504832003150 NMT1/THI5 like; Region: NMT1; pfam09084 504832003151 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504832003152 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 504832003153 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 504832003154 TPP-binding site [chemical binding]; other site 504832003155 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 504832003156 dimer interface [polypeptide binding]; other site 504832003157 PYR/PP interface [polypeptide binding]; other site 504832003158 TPP binding site [chemical binding]; other site 504832003159 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 504832003160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832003161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832003162 dimer interface [polypeptide binding]; other site 504832003163 phosphorylation site [posttranslational modification] 504832003164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832003165 ATP binding site [chemical binding]; other site 504832003166 Mg2+ binding site [ion binding]; other site 504832003167 G-X-G motif; other site 504832003168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003169 active site 504832003170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832003171 phosphorylation site [posttranslational modification] 504832003172 intermolecular recognition site; other site 504832003173 dimerization interface [polypeptide binding]; other site 504832003174 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832003175 dimer interface [polypeptide binding]; other site 504832003176 phosphorylation site [posttranslational modification] 504832003177 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832003178 ATP binding site [chemical binding]; other site 504832003179 G-X-G motif; other site 504832003180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003181 active site 504832003182 phosphorylation site [posttranslational modification] 504832003183 intermolecular recognition site; other site 504832003184 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832003185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832003186 active site 504832003187 phosphorylation site [posttranslational modification] 504832003188 intermolecular recognition site; other site 504832003189 dimerization interface [polypeptide binding]; other site 504832003190 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 504832003191 DNA binding site [nucleotide binding] 504832003192 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 504832003193 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 504832003194 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 504832003195 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 504832003196 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832003197 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 504832003198 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832003199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832003200 metal binding site [ion binding]; metal-binding site 504832003201 active site 504832003202 I-site; other site 504832003203 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 504832003204 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832003205 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 504832003206 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 504832003207 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 504832003208 putative substrate translocation pore; other site 504832003209 Predicted permeases [General function prediction only]; Region: COG0679 504832003210 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 504832003211 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 504832003212 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 504832003213 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 504832003214 dimer interface [polypeptide binding]; other site 504832003215 active site 504832003216 citrylCoA binding site [chemical binding]; other site 504832003217 oxalacetate/citrate binding site [chemical binding]; other site 504832003218 coenzyme A binding site [chemical binding]; other site 504832003219 catalytic triad [active] 504832003220 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 504832003221 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 504832003222 tetramer interface [polypeptide binding]; other site 504832003223 active site 504832003224 Mg2+/Mn2+ binding site [ion binding]; other site 504832003225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504832003226 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 504832003227 tetramerization interface [polypeptide binding]; other site 504832003228 NAD(P) binding site [chemical binding]; other site 504832003229 catalytic residues [active] 504832003230 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 504832003231 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 504832003232 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 504832003233 active site 504832003234 catalytic site [active] 504832003235 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 504832003236 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 504832003237 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 504832003238 catalytic site [active] 504832003239 active site 504832003240 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 504832003241 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 504832003242 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 504832003243 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 504832003244 active site 504832003245 catalytic site [active] 504832003246 glycogen branching enzyme; Provisional; Region: PRK05402 504832003247 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 504832003248 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 504832003249 active site 504832003250 catalytic site [active] 504832003251 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 504832003252 trehalose synthase; Region: treS_nterm; TIGR02456 504832003253 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 504832003254 active site 504832003255 catalytic site [active] 504832003256 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 504832003257 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 504832003258 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 504832003259 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 504832003260 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 504832003261 active site 504832003262 homodimer interface [polypeptide binding]; other site 504832003263 catalytic site [active] 504832003264 acceptor binding site [chemical binding]; other site 504832003265 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 504832003266 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 504832003267 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 504832003268 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 504832003269 GIY-YIG motif/motif A; other site 504832003270 putative active site [active] 504832003271 putative metal binding site [ion binding]; other site 504832003272 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 504832003273 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504832003274 Walker A motif; other site 504832003275 ATP binding site [chemical binding]; other site 504832003276 Walker B motif; other site 504832003277 arginine finger; other site 504832003278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 504832003279 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 504832003280 active site 504832003281 catalytic residue [active] 504832003282 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504832003283 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 504832003284 active site residue [active] 504832003285 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 504832003286 active site residue [active] 504832003287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832003288 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832003289 glutamate dehydrogenase; Provisional; Region: PRK09414 504832003290 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 504832003291 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 504832003292 NAD(P) binding site [chemical binding]; other site 504832003293 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 504832003294 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832003295 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832003296 ABC transporter; Region: ABC_tran_2; pfam12848 504832003297 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832003298 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 504832003299 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 504832003300 S-adenosylmethionine binding site [chemical binding]; other site 504832003301 hypothetical protein; Provisional; Region: PRK05208 504832003302 lytic murein transglycosylase; Region: MltB_2; TIGR02283 504832003303 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 504832003304 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832003305 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832003306 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 504832003307 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 504832003308 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 504832003309 heme binding site [chemical binding]; other site 504832003310 ferroxidase pore; other site 504832003311 ferroxidase diiron center [ion binding]; other site 504832003312 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 504832003313 hypothetical protein; Provisional; Region: PRK06489 504832003314 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 504832003315 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 504832003316 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 504832003317 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 504832003318 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 504832003319 ThiC-associated domain; Region: ThiC-associated; pfam13667 504832003320 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 504832003321 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 504832003322 thiamine phosphate binding site [chemical binding]; other site 504832003323 active site 504832003324 pyrophosphate binding site [ion binding]; other site 504832003325 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 504832003326 ThiS interaction site; other site 504832003327 putative active site [active] 504832003328 tetramer interface [polypeptide binding]; other site 504832003329 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 504832003330 thiS-thiF/thiG interaction site; other site 504832003331 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504832003332 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 504832003333 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504832003334 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 504832003335 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504832003336 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 504832003337 non-specific DNA binding site [nucleotide binding]; other site 504832003338 salt bridge; other site 504832003339 sequence-specific DNA binding site [nucleotide binding]; other site 504832003340 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 504832003341 Domain of unknown function (DUF955); Region: DUF955; pfam06114 504832003342 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 504832003343 isocitrate lyase; Provisional; Region: PRK15063 504832003344 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 504832003345 tetramer interface [polypeptide binding]; other site 504832003346 active site 504832003347 Mg2+/Mn2+ binding site [ion binding]; other site 504832003348 isocitrate lyase; Region: PLN02892 504832003349 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504832003350 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832003351 active site 504832003352 metal binding site [ion binding]; metal-binding site 504832003353 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_21; cd04680 504832003354 nudix motif; other site 504832003355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832003356 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 504832003357 Coenzyme A binding pocket [chemical binding]; other site 504832003358 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504832003359 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 504832003360 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 504832003361 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 504832003362 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 504832003363 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 504832003364 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 504832003365 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 504832003366 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 504832003367 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 504832003368 Protein of unknown function DUF58; Region: DUF58; pfam01882 504832003369 MoxR-like ATPases [General function prediction only]; Region: COG0714 504832003370 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 504832003371 Walker A motif; other site 504832003372 ATP binding site [chemical binding]; other site 504832003373 Walker B motif; other site 504832003374 arginine finger; other site 504832003375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 504832003376 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 504832003377 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 504832003378 putative active site [active] 504832003379 putative CoA binding site [chemical binding]; other site 504832003380 nudix motif; other site 504832003381 metal binding site [ion binding]; metal-binding site 504832003382 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 504832003383 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 504832003384 active site 504832003385 NTP binding site [chemical binding]; other site 504832003386 metal binding triad [ion binding]; metal-binding site 504832003387 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 504832003388 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832003389 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 504832003390 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 504832003391 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 504832003392 active site 504832003393 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 504832003394 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 504832003395 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 504832003396 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 504832003397 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 504832003398 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 504832003399 [2Fe-2S] cluster binding site [ion binding]; other site 504832003400 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; cd00284 504832003401 cytochrome b; Provisional; Region: CYTB; MTH00156 504832003402 Qi binding site; other site 504832003403 intrachain domain interface; other site 504832003404 interchain domain interface [polypeptide binding]; other site 504832003405 heme bH binding site [chemical binding]; other site 504832003406 heme bL binding site [chemical binding]; other site 504832003407 Qo binding site; other site 504832003408 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; cd00290 504832003409 interchain domain interface [polypeptide binding]; other site 504832003410 intrachain domain interface; other site 504832003411 Qi binding site; other site 504832003412 Qo binding site; other site 504832003413 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 504832003414 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 504832003415 anthranilate synthase; Provisional; Region: PRK13566 504832003416 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 504832003417 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 504832003418 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 504832003419 glutamine binding [chemical binding]; other site 504832003420 catalytic triad [active] 504832003421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832003422 active site 504832003423 AAA domain; Region: AAA_31; pfam13614 504832003424 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 504832003425 Peptidase family M48; Region: Peptidase_M48; cl12018 504832003426 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 504832003427 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 504832003428 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 504832003429 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 504832003430 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504832003431 AAA domain; Region: AAA_23; pfam13476 504832003432 Walker A/P-loop; other site 504832003433 ATP binding site [chemical binding]; other site 504832003434 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504832003435 ABC transporter signature motif; other site 504832003436 Walker B; other site 504832003437 D-loop; other site 504832003438 H-loop/switch region; other site 504832003439 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 504832003440 Thioredoxin; Region: Thioredoxin_4; pfam13462 504832003441 Protein of unknown function (DUF721); Region: DUF721; cl02324 504832003442 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 504832003443 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504832003444 minor groove reading motif; other site 504832003445 helix-hairpin-helix signature motif; other site 504832003446 substrate binding pocket [chemical binding]; other site 504832003447 active site 504832003448 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504832003449 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 504832003450 DNA binding and oxoG recognition site [nucleotide binding] 504832003451 glutathionine S-transferase; Provisional; Region: PRK10542 504832003452 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 504832003453 C-terminal domain interface [polypeptide binding]; other site 504832003454 GSH binding site (G-site) [chemical binding]; other site 504832003455 dimer interface [polypeptide binding]; other site 504832003456 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 504832003457 dimer interface [polypeptide binding]; other site 504832003458 N-terminal domain interface [polypeptide binding]; other site 504832003459 substrate binding pocket (H-site) [chemical binding]; other site 504832003460 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504832003461 DNA methylase; Region: N6_N4_Mtase; pfam01555 504832003462 Predicted metalloprotease [General function prediction only]; Region: COG2321 504832003463 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 504832003464 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 504832003465 MPT binding site; other site 504832003466 trimer interface [polypeptide binding]; other site 504832003467 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 504832003468 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 504832003469 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 504832003470 FeS/SAM binding site; other site 504832003471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504832003472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 504832003473 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 504832003474 RNA/DNA hybrid binding site [nucleotide binding]; other site 504832003475 active site 504832003476 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 504832003477 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504832003478 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504832003479 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 504832003480 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 504832003481 putative substrate translocation pore; other site 504832003482 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832003483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832003484 DNA-binding site [nucleotide binding]; DNA binding site 504832003485 FCD domain; Region: FCD; pfam07729 504832003486 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 504832003487 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832003488 putative substrate translocation pore; other site 504832003489 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 504832003490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832003491 NAD(P) binding site [chemical binding]; other site 504832003492 active site 504832003493 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 504832003494 Fe-S cluster binding site [ion binding]; other site 504832003495 active site 504832003496 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 504832003497 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504832003498 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 504832003499 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832003500 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 504832003501 TPR motif; other site 504832003502 binding surface 504832003503 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 504832003504 binding surface 504832003505 TPR motif; other site 504832003506 TPR repeat; Region: TPR_11; pfam13414 504832003507 TPR repeat; Region: TPR_11; pfam13414 504832003508 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 504832003509 binding surface 504832003510 TPR motif; other site 504832003511 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504832003512 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 504832003513 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504832003514 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504832003515 substrate binding pocket [chemical binding]; other site 504832003516 chain length determination region; other site 504832003517 substrate-Mg2+ binding site; other site 504832003518 catalytic residues [active] 504832003519 aspartate-rich region 1; other site 504832003520 active site lid residues [active] 504832003521 aspartate-rich region 2; other site 504832003522 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 504832003523 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 504832003524 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 504832003525 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 504832003526 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 504832003527 tandem repeat interface [polypeptide binding]; other site 504832003528 oligomer interface [polypeptide binding]; other site 504832003529 active site residues [active] 504832003530 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 504832003531 dimer interface [polypeptide binding]; other site 504832003532 motif 1; other site 504832003533 active site 504832003534 motif 2; other site 504832003535 motif 3; other site 504832003536 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 504832003537 putative active site [active] 504832003538 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 504832003539 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 504832003540 pyruvate phosphate dikinase; Provisional; Region: PRK09279 504832003541 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 504832003542 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 504832003543 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 504832003544 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 504832003545 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 504832003546 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 504832003547 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 504832003548 dimerization interface [polypeptide binding]; other site 504832003549 active site 504832003550 L-aspartate oxidase; Provisional; Region: PRK07512 504832003551 L-aspartate oxidase; Provisional; Region: PRK06175 504832003552 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 504832003553 quinolinate synthetase; Provisional; Region: PRK09375 504832003554 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 504832003555 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 504832003556 NADP binding site [chemical binding]; other site 504832003557 dimer interface [polypeptide binding]; other site 504832003558 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 504832003559 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 504832003560 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 504832003561 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 504832003562 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 504832003563 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 504832003564 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 504832003565 dihydroorotase; Validated; Region: PRK09060 504832003566 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 504832003567 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 504832003568 active site 504832003569 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 504832003570 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_15; cd04673 504832003571 nudix motif; other site 504832003572 Uncharacterized conserved protein [Function unknown]; Region: COG2135 504832003573 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504832003574 FAD binding domain; Region: FAD_binding_4; pfam01565 504832003575 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 504832003576 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 504832003577 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 504832003578 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 504832003579 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 504832003580 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 504832003581 dimerization interface [polypeptide binding]; other site 504832003582 active site 504832003583 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 504832003584 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504832003585 FAD binding site [chemical binding]; other site 504832003586 substrate binding pocket [chemical binding]; other site 504832003587 catalytic base [active] 504832003588 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504832003589 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 504832003590 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832003591 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 504832003592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832003593 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832003594 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 504832003595 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 504832003596 Cl binding site [ion binding]; other site 504832003597 oligomer interface [polypeptide binding]; other site 504832003598 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 504832003599 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 504832003600 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 504832003601 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 504832003602 active site 504832003603 DNA binding site [nucleotide binding] 504832003604 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 504832003605 DNA binding site [nucleotide binding] 504832003606 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 504832003607 nucleotide binding site [chemical binding]; other site 504832003608 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 504832003609 classical (c) SDRs; Region: SDR_c; cd05233 504832003610 NAD(P) binding site [chemical binding]; other site 504832003611 active site 504832003612 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 504832003613 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 504832003614 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 504832003615 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 504832003616 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 504832003617 HSP70 interaction site [polypeptide binding]; other site 504832003618 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504832003619 substrate binding site [polypeptide binding]; other site 504832003620 dimer interface [polypeptide binding]; other site 504832003621 PRC-barrel domain; Region: PRC; pfam05239 504832003622 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 504832003623 RNA polymerase sigma factor; Provisional; Region: PRK12511 504832003624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832003625 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 504832003626 DNA binding residues [nucleotide binding] 504832003627 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 504832003628 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 504832003629 NAD binding site [chemical binding]; other site 504832003630 homotetramer interface [polypeptide binding]; other site 504832003631 homodimer interface [polypeptide binding]; other site 504832003632 substrate binding site [chemical binding]; other site 504832003633 active site 504832003634 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 504832003635 catalytic core [active] 504832003636 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 504832003637 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 504832003638 Tetramer interface [polypeptide binding]; other site 504832003639 active site 504832003640 FMN-binding site [chemical binding]; other site 504832003641 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 504832003642 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 504832003643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832003644 dimer interface [polypeptide binding]; other site 504832003645 putative CheW interface [polypeptide binding]; other site 504832003646 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 504832003647 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 504832003648 S-adenosylmethionine binding site [chemical binding]; other site 504832003649 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 504832003650 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 504832003651 RNA binding surface [nucleotide binding]; other site 504832003652 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 504832003653 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 504832003654 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 504832003655 TPP-binding site; other site 504832003656 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 504832003657 PYR/PP interface [polypeptide binding]; other site 504832003658 dimer interface [polypeptide binding]; other site 504832003659 TPP binding site [chemical binding]; other site 504832003660 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832003661 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 504832003662 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 504832003663 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 504832003664 putative active site [active] 504832003665 Zn binding site [ion binding]; other site 504832003666 enoyl-CoA hydratase; Provisional; Region: PRK06688 504832003667 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832003668 substrate binding site [chemical binding]; other site 504832003669 oxyanion hole (OAH) forming residues; other site 504832003670 trimer interface [polypeptide binding]; other site 504832003671 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504832003672 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504832003673 active site 504832003674 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 504832003675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832003676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832003677 LysR substrate binding domain; Region: LysR_substrate; pfam03466 504832003678 dimerization interface [polypeptide binding]; other site 504832003679 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 504832003680 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 504832003681 tetrameric interface [polypeptide binding]; other site 504832003682 NAD binding site [chemical binding]; other site 504832003683 catalytic residues [active] 504832003684 PAS fold; Region: PAS_7; pfam12860 504832003685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832003686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832003687 metal binding site [ion binding]; metal-binding site 504832003688 active site 504832003689 I-site; other site 504832003690 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 504832003691 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 504832003692 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 504832003693 catalytic triad [active] 504832003694 Cytochrome c2 [Energy production and conversion]; Region: COG3474 504832003695 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832003696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832003697 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832003698 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 504832003699 dimer interface [polypeptide binding]; other site 504832003700 conserved gate region; other site 504832003701 putative PBP binding loops; other site 504832003702 ABC-ATPase subunit interface; other site 504832003703 NMT1-like family; Region: NMT1_2; pfam13379 504832003704 NMT1/THI5 like; Region: NMT1; pfam09084 504832003705 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832003706 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832003707 Walker A/P-loop; other site 504832003708 ATP binding site [chemical binding]; other site 504832003709 Q-loop/lid; other site 504832003710 ABC transporter signature motif; other site 504832003711 Walker B; other site 504832003712 D-loop; other site 504832003713 H-loop/switch region; other site 504832003714 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504832003715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504832003716 active site 504832003717 Uncharacterized conserved protein [Function unknown]; Region: COG2128 504832003718 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504832003719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504832003720 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832003721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832003722 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 504832003723 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 504832003724 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 504832003725 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 504832003726 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 504832003727 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 504832003728 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 504832003729 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 504832003730 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 504832003731 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832003732 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 504832003733 putative ligand binding site [chemical binding]; other site 504832003734 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 504832003735 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832003736 TM-ABC transporter signature motif; other site 504832003737 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832003738 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 504832003739 TM-ABC transporter signature motif; other site 504832003740 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832003741 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832003742 Walker A/P-loop; other site 504832003743 ATP binding site [chemical binding]; other site 504832003744 Q-loop/lid; other site 504832003745 ABC transporter signature motif; other site 504832003746 Walker B; other site 504832003747 D-loop; other site 504832003748 H-loop/switch region; other site 504832003749 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832003750 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832003751 Walker A/P-loop; other site 504832003752 ATP binding site [chemical binding]; other site 504832003753 Q-loop/lid; other site 504832003754 ABC transporter signature motif; other site 504832003755 Walker B; other site 504832003756 D-loop; other site 504832003757 H-loop/switch region; other site 504832003758 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 504832003759 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 504832003760 NAD binding site [chemical binding]; other site 504832003761 catalytic Zn binding site [ion binding]; other site 504832003762 substrate binding site [chemical binding]; other site 504832003763 structural Zn binding site [ion binding]; other site 504832003764 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832003765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832003766 DNA-binding site [nucleotide binding]; DNA binding site 504832003767 FCD domain; Region: FCD; pfam07729 504832003768 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 504832003769 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504832003770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832003771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832003772 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 504832003773 dimerization interface [polypeptide binding]; other site 504832003774 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 504832003775 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 504832003776 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504832003777 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504832003778 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504832003779 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 504832003780 dimer interface [polypeptide binding]; other site 504832003781 conserved gate region; other site 504832003782 putative PBP binding loops; other site 504832003783 ABC-ATPase subunit interface; other site 504832003784 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 504832003785 dimer interface [polypeptide binding]; other site 504832003786 conserved gate region; other site 504832003787 putative PBP binding loops; other site 504832003788 ABC-ATPase subunit interface; other site 504832003789 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504832003790 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832003791 Walker A/P-loop; other site 504832003792 ATP binding site [chemical binding]; other site 504832003793 Q-loop/lid; other site 504832003794 ABC transporter signature motif; other site 504832003795 Walker B; other site 504832003796 D-loop; other site 504832003797 H-loop/switch region; other site 504832003798 TOBE domain; Region: TOBE_2; pfam08402 504832003799 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 504832003800 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504832003801 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504832003802 Walker A/P-loop; other site 504832003803 ATP binding site [chemical binding]; other site 504832003804 Q-loop/lid; other site 504832003805 ABC transporter signature motif; other site 504832003806 Walker B; other site 504832003807 D-loop; other site 504832003808 H-loop/switch region; other site 504832003809 FOG: CBS domain [General function prediction only]; Region: COG0517 504832003810 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 504832003811 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 504832003812 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832003813 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 504832003814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 504832003815 active site 504832003816 phosphorylation site [posttranslational modification] 504832003817 intermolecular recognition site; other site 504832003818 ANTAR domain; Region: ANTAR; pfam03861 504832003819 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 504832003820 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 504832003821 putative substrate translocation pore; other site 504832003822 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 504832003823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832003824 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 504832003825 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 504832003826 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504832003827 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 504832003828 [2Fe-2S] cluster binding site [ion binding]; other site 504832003829 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 504832003830 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 504832003831 [4Fe-4S] binding site [ion binding]; other site 504832003832 molybdopterin cofactor binding site; other site 504832003833 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 504832003834 molybdopterin cofactor binding site; other site 504832003835 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 504832003836 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 504832003837 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 504832003838 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 504832003839 active site 504832003840 SAM binding site [chemical binding]; other site 504832003841 homodimer interface [polypeptide binding]; other site 504832003842 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 504832003843 Ligand Binding Site [chemical binding]; other site 504832003844 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 504832003845 mce related protein; Region: MCE; pfam02470 504832003846 Protein of unknown function (DUF330); Region: DUF330; cl01135 504832003847 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 504832003848 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 504832003849 Walker A/P-loop; other site 504832003850 ATP binding site [chemical binding]; other site 504832003851 Q-loop/lid; other site 504832003852 ABC transporter signature motif; other site 504832003853 Walker B; other site 504832003854 D-loop; other site 504832003855 H-loop/switch region; other site 504832003856 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 504832003857 anti sigma factor interaction site; other site 504832003858 regulatory phosphorylation site [posttranslational modification]; other site 504832003859 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 504832003860 Permease; Region: Permease; pfam02405 504832003861 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832003862 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 504832003863 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 504832003864 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 504832003865 putative NAD(P) binding site [chemical binding]; other site 504832003866 putative substrate binding site [chemical binding]; other site 504832003867 catalytic Zn binding site [ion binding]; other site 504832003868 structural Zn binding site [ion binding]; other site 504832003869 FOG: CBS domain [General function prediction only]; Region: COG0517 504832003870 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 504832003871 FOG: CBS domain [General function prediction only]; Region: COG0517 504832003872 BON domain; Region: BON; pfam04972 504832003873 putative phosphoketolase; Provisional; Region: PRK05261 504832003874 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 504832003875 TPP-binding site; other site 504832003876 XFP C-terminal domain; Region: XFP_C; pfam09363 504832003877 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 504832003878 CoA binding domain; Region: CoA_binding_2; pfam13380 504832003879 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504832003880 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 504832003881 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504832003882 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832003883 Coenzyme A binding pocket [chemical binding]; other site 504832003884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 504832003885 AAA domain; Region: AAA_33; pfam13671 504832003886 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 504832003887 nucleoside/Zn binding site; other site 504832003888 dimer interface [polypeptide binding]; other site 504832003889 catalytic motif [active] 504832003890 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504832003891 Protein export membrane protein; Region: SecD_SecF; cl14618 504832003892 Protein export membrane protein; Region: SecD_SecF; cl14618 504832003893 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 504832003894 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832003895 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 504832003896 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 504832003897 dimerization interface [polypeptide binding]; other site 504832003898 putative DNA binding site [nucleotide binding]; other site 504832003899 putative Zn2+ binding site [ion binding]; other site 504832003900 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003901 PAS domain; Region: PAS_9; pfam13426 504832003902 putative active site [active] 504832003903 heme pocket [chemical binding]; other site 504832003904 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003905 PAS domain; Region: PAS_9; pfam13426 504832003906 putative active site [active] 504832003907 heme pocket [chemical binding]; other site 504832003908 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832003909 PAS domain; Region: PAS_9; pfam13426 504832003910 putative active site [active] 504832003911 heme pocket [chemical binding]; other site 504832003912 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 504832003913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832003914 dimer interface [polypeptide binding]; other site 504832003915 putative CheW interface [polypeptide binding]; other site 504832003916 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504832003917 heme-binding site [chemical binding]; other site 504832003918 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832003919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832003920 metal binding site [ion binding]; metal-binding site 504832003921 active site 504832003922 I-site; other site 504832003923 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 504832003924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832003925 DNA-binding site [nucleotide binding]; DNA binding site 504832003926 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 504832003927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832003928 homodimer interface [polypeptide binding]; other site 504832003929 catalytic residue [active] 504832003930 DJ-1 family protein; Region: not_thiJ; TIGR01383 504832003931 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 504832003932 conserved cys residue [active] 504832003933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832003934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832003935 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 504832003936 putative effector binding pocket; other site 504832003937 putative dimerization interface [polypeptide binding]; other site 504832003938 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832003939 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 504832003940 putative C-terminal domain interface [polypeptide binding]; other site 504832003941 putative GSH binding site (G-site) [chemical binding]; other site 504832003942 putative dimer interface [polypeptide binding]; other site 504832003943 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 504832003944 putative N-terminal domain interface [polypeptide binding]; other site 504832003945 putative dimer interface [polypeptide binding]; other site 504832003946 putative substrate binding pocket (H-site) [chemical binding]; other site 504832003947 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 504832003948 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 504832003949 malonyl-CoA synthase; Validated; Region: PRK07514 504832003950 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 504832003951 acyl-activating enzyme (AAE) consensus motif; other site 504832003952 active site 504832003953 AMP binding site [chemical binding]; other site 504832003954 CoA binding site [chemical binding]; other site 504832003955 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 504832003956 Predicted amidohydrolase [General function prediction only]; Region: COG0388 504832003957 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 504832003958 putative active site [active] 504832003959 catalytic triad [active] 504832003960 putative dimer interface [polypeptide binding]; other site 504832003961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832003962 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 504832003963 TM-ABC transporter signature motif; other site 504832003964 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832003965 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 504832003966 TM-ABC transporter signature motif; other site 504832003967 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832003968 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832003969 Walker A/P-loop; other site 504832003970 ATP binding site [chemical binding]; other site 504832003971 Q-loop/lid; other site 504832003972 ABC transporter signature motif; other site 504832003973 Walker B; other site 504832003974 D-loop; other site 504832003975 H-loop/switch region; other site 504832003976 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832003977 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832003978 Walker A/P-loop; other site 504832003979 ATP binding site [chemical binding]; other site 504832003980 Q-loop/lid; other site 504832003981 ABC transporter signature motif; other site 504832003982 Walker B; other site 504832003983 D-loop; other site 504832003984 H-loop/switch region; other site 504832003985 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832003986 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504832003987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832003988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832003989 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 504832003990 dimerization interface [polypeptide binding]; other site 504832003991 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 504832003992 Ligand Binding Site [chemical binding]; other site 504832003993 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504832003994 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 504832003995 active site 504832003996 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832003997 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 504832003998 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832003999 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 504832004000 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 504832004001 metal binding site [ion binding]; metal-binding site 504832004002 substrate binding pocket [chemical binding]; other site 504832004003 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 504832004004 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 504832004005 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 504832004006 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 504832004007 iron-sulfur cluster [ion binding]; other site 504832004008 [2Fe-2S] cluster binding site [ion binding]; other site 504832004009 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 504832004010 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 504832004011 catalytic loop [active] 504832004012 iron binding site [ion binding]; other site 504832004013 Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P; Region: T4MO_e_transfer_like; cd06190 504832004014 FAD binding pocket [chemical binding]; other site 504832004015 FAD binding motif [chemical binding]; other site 504832004016 phosphate binding motif [ion binding]; other site 504832004017 beta-alpha-beta structure motif; other site 504832004018 NAD binding pocket [chemical binding]; other site 504832004019 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 504832004020 iron-sulfur cluster [ion binding]; other site 504832004021 [2Fe-2S] cluster binding site [ion binding]; other site 504832004022 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504832004023 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832004024 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 504832004025 N-terminal domain interface [polypeptide binding]; other site 504832004026 dimer interface [polypeptide binding]; other site 504832004027 substrate binding pocket (H-site) [chemical binding]; other site 504832004028 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832004029 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504832004030 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 504832004031 NADP binding site [chemical binding]; other site 504832004032 dimer interface [polypeptide binding]; other site 504832004033 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 504832004034 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832004035 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504832004036 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832004037 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832004038 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832004039 enoyl-CoA hydratase; Provisional; Region: PRK05870 504832004040 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832004041 substrate binding site [chemical binding]; other site 504832004042 oxyanion hole (OAH) forming residues; other site 504832004043 trimer interface [polypeptide binding]; other site 504832004044 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832004045 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504832004046 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832004047 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 504832004048 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504832004049 acyl-activating enzyme (AAE) consensus motif; other site 504832004050 AMP binding site [chemical binding]; other site 504832004051 active site 504832004052 CoA binding site [chemical binding]; other site 504832004053 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 504832004054 Coenzyme A transferase; Region: CoA_trans; cl17247 504832004055 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504832004056 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504832004057 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504832004058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832004059 Walker A/P-loop; other site 504832004060 ATP binding site [chemical binding]; other site 504832004061 Q-loop/lid; other site 504832004062 ABC transporter signature motif; other site 504832004063 Walker B; other site 504832004064 D-loop; other site 504832004065 H-loop/switch region; other site 504832004066 TOBE domain; Region: TOBE_2; pfam08402 504832004067 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504832004068 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 504832004069 dimer interface [polypeptide binding]; other site 504832004070 conserved gate region; other site 504832004071 putative PBP binding loops; other site 504832004072 ABC-ATPase subunit interface; other site 504832004073 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504832004074 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 504832004075 dimer interface [polypeptide binding]; other site 504832004076 conserved gate region; other site 504832004077 putative PBP binding loops; other site 504832004078 ABC-ATPase subunit interface; other site 504832004079 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 504832004080 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 504832004081 [4Fe-4S] binding site [ion binding]; other site 504832004082 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832004083 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 504832004084 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 504832004085 molybdopterin cofactor binding site; other site 504832004086 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 504832004087 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 504832004088 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832004089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832004090 metal binding site [ion binding]; metal-binding site 504832004091 active site 504832004092 I-site; other site 504832004093 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 504832004094 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 504832004095 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504832004096 Transcriptional regulator; Region: Transcrip_reg; cl00361 504832004097 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 504832004098 active site 504832004099 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504832004100 TSCPD domain; Region: TSCPD; pfam12637 504832004101 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 504832004102 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 504832004103 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832004104 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504832004105 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504832004106 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 504832004107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 504832004108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832004109 NADH(P)-binding; Region: NAD_binding_10; pfam13460 504832004110 NAD(P) binding site [chemical binding]; other site 504832004111 active site 504832004112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832004113 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 504832004114 DNA binding site [nucleotide binding] 504832004115 Predicted integral membrane protein [Function unknown]; Region: COG5616 504832004116 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 504832004117 TPR motif; other site 504832004118 TPR repeat; Region: TPR_11; pfam13414 504832004119 binding surface 504832004120 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 504832004121 binding surface 504832004122 TPR motif; other site 504832004123 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 504832004124 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 504832004125 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 504832004126 Glutamate binding site [chemical binding]; other site 504832004127 NAD binding site [chemical binding]; other site 504832004128 catalytic residues [active] 504832004129 MASE1; Region: MASE1; cl17823 504832004130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832004131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832004132 metal binding site [ion binding]; metal-binding site 504832004133 active site 504832004134 I-site; other site 504832004135 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 504832004136 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 504832004137 dimer interface [polypeptide binding]; other site 504832004138 putative radical transfer pathway; other site 504832004139 diiron center [ion binding]; other site 504832004140 tyrosyl radical; other site 504832004141 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 504832004142 ATP cone domain; Region: ATP-cone; pfam03477 504832004143 ATP cone domain; Region: ATP-cone; pfam03477 504832004144 Class I ribonucleotide reductase; Region: RNR_I; cd01679 504832004145 active site 504832004146 dimer interface [polypeptide binding]; other site 504832004147 catalytic residues [active] 504832004148 effector binding site; other site 504832004149 R2 peptide binding site; other site 504832004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 504832004151 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 504832004152 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 504832004153 THF binding site; other site 504832004154 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 504832004155 substrate binding site [chemical binding]; other site 504832004156 THF binding site; other site 504832004157 zinc-binding site [ion binding]; other site 504832004158 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832004159 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 504832004160 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832004161 choline dehydrogenase; Validated; Region: PRK02106 504832004162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832004163 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 504832004164 metabolite-proton symporter; Region: 2A0106; TIGR00883 504832004165 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 504832004166 putative substrate translocation pore; other site 504832004167 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 504832004168 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832004169 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 504832004170 putative DNA binding site [nucleotide binding]; other site 504832004171 putative Zn2+ binding site [ion binding]; other site 504832004172 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832004173 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 504832004174 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504832004175 PYR/PP interface [polypeptide binding]; other site 504832004176 dimer interface [polypeptide binding]; other site 504832004177 TPP binding site [chemical binding]; other site 504832004178 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504832004179 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 504832004180 TPP-binding site [chemical binding]; other site 504832004181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832004182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832004183 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 504832004184 dimerization interface [polypeptide binding]; other site 504832004185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504832004186 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 504832004187 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 504832004188 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 504832004189 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 504832004190 putative catalytic cysteine [active] 504832004191 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 504832004192 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 504832004193 CoA-ligase; Region: Ligase_CoA; pfam00549 504832004194 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 504832004195 CoA binding domain; Region: CoA_binding; pfam02629 504832004196 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504832004197 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504832004198 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 504832004199 ligand binding site [chemical binding]; other site 504832004200 flexible hinge region; other site 504832004201 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 504832004202 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 504832004203 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504832004204 PAS fold; Region: PAS_7; pfam12860 504832004205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832004206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832004207 metal binding site [ion binding]; metal-binding site 504832004208 active site 504832004209 I-site; other site 504832004210 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 504832004211 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 504832004212 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504832004213 active site 504832004214 catalytic tetrad [active] 504832004215 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 504832004216 dimerization interface [polypeptide binding]; other site 504832004217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832004218 dimer interface [polypeptide binding]; other site 504832004219 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 504832004220 putative CheW interface [polypeptide binding]; other site 504832004221 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 504832004222 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 504832004223 inhibitor-cofactor binding pocket; inhibition site 504832004224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832004225 catalytic residue [active] 504832004226 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 504832004227 AAA domain; Region: AAA_26; pfam13500 504832004228 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 504832004229 hypothetical protein; Provisional; Region: PRK07505 504832004230 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832004231 catalytic residue [active] 504832004232 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 504832004233 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832004234 N-terminal plug; other site 504832004235 ligand-binding site [chemical binding]; other site 504832004236 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 504832004237 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 504832004238 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 504832004239 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 504832004240 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 504832004241 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 504832004242 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 504832004243 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 504832004244 putative DNA binding site [nucleotide binding]; other site 504832004245 putative homodimer interface [polypeptide binding]; other site 504832004246 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832004247 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 504832004248 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 504832004249 MPT binding site; other site 504832004250 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 504832004251 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 504832004252 dimer interface [polypeptide binding]; other site 504832004253 putative functional site; other site 504832004254 putative MPT binding site; other site 504832004255 PBP superfamily domain; Region: PBP_like; pfam12727 504832004256 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 504832004257 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 504832004258 GTP binding site; other site 504832004259 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 504832004260 Walker A motif; other site 504832004261 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 504832004262 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 504832004263 dimer interface [polypeptide binding]; other site 504832004264 putative functional site; other site 504832004265 putative MPT binding site; other site 504832004266 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 504832004267 CPxP motif; other site 504832004268 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 504832004269 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 504832004270 putative substrate translocation pore; other site 504832004271 beta-lactamase TEM; Provisional; Region: PRK15442 504832004272 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 504832004273 PBP superfamily domain; Region: PBP_like_2; pfam12849 504832004274 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504832004275 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832004276 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504832004277 Walker A/P-loop; other site 504832004278 ATP binding site [chemical binding]; other site 504832004279 Q-loop/lid; other site 504832004280 ABC transporter signature motif; other site 504832004281 Walker B; other site 504832004282 D-loop; other site 504832004283 H-loop/switch region; other site 504832004284 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 504832004285 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 504832004286 ArsC family; Region: ArsC; pfam03960 504832004287 catalytic residues [active] 504832004288 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 504832004289 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 504832004290 putative dimer interface [polypeptide binding]; other site 504832004291 [2Fe-2S] cluster binding site [ion binding]; other site 504832004292 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 504832004293 SLBB domain; Region: SLBB; pfam10531 504832004294 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 504832004295 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 504832004296 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 504832004297 catalytic loop [active] 504832004298 iron binding site [ion binding]; other site 504832004299 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 504832004300 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 504832004301 [4Fe-4S] binding site [ion binding]; other site 504832004302 molybdopterin cofactor binding site; other site 504832004303 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 504832004304 molybdopterin cofactor binding site; other site 504832004305 allantoate amidohydrolase; Reviewed; Region: PRK09290 504832004306 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504832004307 active site 504832004308 metal binding site [ion binding]; metal-binding site 504832004309 dimer interface [polypeptide binding]; other site 504832004310 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 504832004311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 504832004312 dimer interface [polypeptide binding]; other site 504832004313 active site 504832004314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504832004315 substrate binding site [chemical binding]; other site 504832004316 catalytic residue [active] 504832004317 enoyl-CoA hydratase; Provisional; Region: PRK06127 504832004318 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832004319 substrate binding site [chemical binding]; other site 504832004320 oxyanion hole (OAH) forming residues; other site 504832004321 trimer interface [polypeptide binding]; other site 504832004322 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832004323 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832004324 Domain of unknown function (DUF336); Region: DUF336; cl01249 504832004325 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504832004326 FAD binding domain; Region: FAD_binding_4; pfam01565 504832004327 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 504832004328 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832004329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832004330 DNA-binding site [nucleotide binding]; DNA binding site 504832004331 FCD domain; Region: FCD; pfam07729 504832004332 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 504832004333 homodimer interface [polypeptide binding]; other site 504832004334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832004335 catalytic residue [active] 504832004336 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832004337 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 504832004338 homodimer interface [polypeptide binding]; other site 504832004339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832004340 catalytic residue [active] 504832004341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504832004342 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832004343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832004344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832004345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832004346 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504832004347 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832004348 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832004349 multidrug efflux protein; Reviewed; Region: PRK09579 504832004350 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 504832004351 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 504832004352 binding surface 504832004353 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504832004354 TPR motif; other site 504832004355 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 504832004356 FecR protein; Region: FecR; pfam04773 504832004357 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 504832004358 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 504832004359 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504832004360 active site 504832004361 catalytic tetrad [active] 504832004362 SlyX; Region: SlyX; pfam04102 504832004363 rhodanese superfamily protein; Provisional; Region: PRK05320 504832004364 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 504832004365 active site residue [active] 504832004366 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 504832004367 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 504832004368 B12 binding domain; Region: B12-binding; pfam02310 504832004369 B12 binding site [chemical binding]; other site 504832004370 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 504832004371 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 504832004372 active site lid residues [active] 504832004373 substrate binding pocket [chemical binding]; other site 504832004374 catalytic residues [active] 504832004375 substrate-Mg2+ binding site; other site 504832004376 aspartate-rich region 1; other site 504832004377 aspartate-rich region 2; other site 504832004378 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 504832004379 active site lid residues [active] 504832004380 substrate binding pocket [chemical binding]; other site 504832004381 catalytic residues [active] 504832004382 substrate-Mg2+ binding site; other site 504832004383 aspartate-rich region 1; other site 504832004384 aspartate-rich region 2; other site 504832004385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832004386 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 504832004387 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 504832004388 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 504832004389 Active site cavity [active] 504832004390 catalytic acid [active] 504832004391 hypothetical protein; Provisional; Region: PRK07077 504832004392 Methyltransferase domain; Region: Methyltransf_24; pfam13578 504832004393 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 504832004394 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 504832004395 FeS/SAM binding site; other site 504832004396 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 504832004397 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 504832004398 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 504832004399 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 504832004400 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 504832004401 TPP-binding site; other site 504832004402 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 504832004403 PYR/PP interface [polypeptide binding]; other site 504832004404 dimer interface [polypeptide binding]; other site 504832004405 TPP binding site [chemical binding]; other site 504832004406 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832004407 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 504832004408 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 504832004409 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 504832004410 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 504832004411 inhibitor-cofactor binding pocket; inhibition site 504832004412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832004413 catalytic residue [active] 504832004414 choline dehydrogenase; Validated; Region: PRK02106 504832004415 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 504832004416 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 504832004417 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 504832004418 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 504832004419 metal binding site [ion binding]; metal-binding site 504832004420 putative dimer interface [polypeptide binding]; other site 504832004421 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 504832004422 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 504832004423 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832004424 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832004425 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832004426 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 504832004427 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 504832004428 RNA polymerase sigma factor; Provisional; Region: PRK12536 504832004429 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832004430 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 504832004431 DNA binding residues [nucleotide binding] 504832004432 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 504832004433 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 504832004434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832004435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832004436 metal binding site [ion binding]; metal-binding site 504832004437 active site 504832004438 I-site; other site 504832004439 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 504832004440 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 504832004441 putative substrate binding pocket [chemical binding]; other site 504832004442 AC domain interface; other site 504832004443 catalytic triad [active] 504832004444 AB domain interface; other site 504832004445 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 504832004446 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 504832004447 catalytic center binding site [active] 504832004448 ATP binding site [chemical binding]; other site 504832004449 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 504832004450 homooctamer interface [polypeptide binding]; other site 504832004451 active site 504832004452 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 504832004453 dihydropteroate synthase; Region: DHPS; TIGR01496 504832004454 substrate binding pocket [chemical binding]; other site 504832004455 dimer interface [polypeptide binding]; other site 504832004456 inhibitor binding site; inhibition site 504832004457 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 504832004458 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 504832004459 hypothetical protein; Validated; Region: PRK09104 504832004460 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 504832004461 metal binding site [ion binding]; metal-binding site 504832004462 putative dimer interface [polypeptide binding]; other site 504832004463 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 504832004464 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 504832004465 DnaA box-binding interface [nucleotide binding]; other site 504832004466 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 504832004467 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 504832004468 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832004469 putative active site [active] 504832004470 heme pocket [chemical binding]; other site 504832004471 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832004472 dimer interface [polypeptide binding]; other site 504832004473 phosphorylation site [posttranslational modification] 504832004474 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832004475 ATP binding site [chemical binding]; other site 504832004476 Mg2+ binding site [ion binding]; other site 504832004477 G-X-G motif; other site 504832004478 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832004479 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 504832004480 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 504832004481 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 504832004482 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 504832004483 Predicted integral membrane protein [Function unknown]; Region: COG5436 504832004484 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 504832004485 Transglycosylase; Region: Transgly; pfam00912 504832004486 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 504832004487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 504832004488 hypothetical protein; Provisional; Region: PRK05170 504832004489 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 504832004490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832004491 putative substrate translocation pore; other site 504832004492 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 504832004493 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 504832004494 Uncharacterized conserved protein [Function unknown]; Region: COG5323 504832004495 Terminase-like family; Region: Terminase_6; pfam03237 504832004496 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 504832004497 GIY-YIG motif/motif A; other site 504832004498 putative active site [active] 504832004499 putative metal binding site [ion binding]; other site 504832004500 Phage-related protein [Function unknown]; Region: COG4695 504832004501 Phage portal protein; Region: Phage_portal; pfam04860 504832004502 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 504832004503 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 504832004504 Phage capsid family; Region: Phage_capsid; pfam05065 504832004505 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 504832004506 PilZ domain; Region: PilZ; cl01260 504832004507 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 504832004508 active site 504832004509 substrate binding sites [chemical binding]; other site 504832004510 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 504832004511 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 504832004512 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 504832004513 oligomerization interface [polypeptide binding]; other site 504832004514 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 504832004515 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 504832004516 Phage major tail protein 2; Region: Phage_tail_2; cl11463 504832004517 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 504832004518 phage conserved hypothetical protein; Region: phage_TIGR02216 504832004519 Phage-related minor tail protein [Function unknown]; Region: COG5281 504832004520 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 504832004521 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 504832004522 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 504832004523 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 504832004524 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 504832004525 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 504832004526 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 504832004527 Putative phage tail protein; Region: Phage-tail_3; pfam13550 504832004528 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 504832004529 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 504832004530 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 504832004531 putative trimer interface [polypeptide binding]; other site 504832004532 putative CoA binding site [chemical binding]; other site 504832004533 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 504832004534 catalytic residues [active] 504832004535 PilZ domain; Region: PilZ; pfam07238 504832004536 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832004537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832004538 active site 504832004539 phosphorylation site [posttranslational modification] 504832004540 intermolecular recognition site; other site 504832004541 dimerization interface [polypeptide binding]; other site 504832004542 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 504832004543 DNA binding site [nucleotide binding] 504832004544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832004545 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832004546 ATP binding site [chemical binding]; other site 504832004547 Mg2+ binding site [ion binding]; other site 504832004548 G-X-G motif; other site 504832004549 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 504832004550 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 504832004551 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 504832004552 binding surface 504832004553 TPR motif; other site 504832004554 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 504832004555 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 504832004556 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 504832004557 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 504832004558 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504832004559 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832004560 protein binding site [polypeptide binding]; other site 504832004561 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832004562 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832004563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832004564 active site 504832004565 phosphorylation site [posttranslational modification] 504832004566 intermolecular recognition site; other site 504832004567 dimerization interface [polypeptide binding]; other site 504832004568 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 504832004569 DNA binding site [nucleotide binding] 504832004570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832004571 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 504832004572 dimerization interface [polypeptide binding]; other site 504832004573 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832004574 dimer interface [polypeptide binding]; other site 504832004575 phosphorylation site [posttranslational modification] 504832004576 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832004577 ATP binding site [chemical binding]; other site 504832004578 Mg2+ binding site [ion binding]; other site 504832004579 G-X-G motif; other site 504832004580 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 504832004581 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504832004582 metal binding triad; other site 504832004583 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 504832004584 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504832004585 metal binding triad; other site 504832004586 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 504832004587 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832004588 PAS fold; Region: PAS_3; pfam08447 504832004589 putative active site [active] 504832004590 heme pocket [chemical binding]; other site 504832004591 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 504832004592 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832004593 dimer interface [polypeptide binding]; other site 504832004594 phosphorylation site [posttranslational modification] 504832004595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832004596 ATP binding site [chemical binding]; other site 504832004597 Mg2+ binding site [ion binding]; other site 504832004598 G-X-G motif; other site 504832004599 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 504832004600 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 504832004601 CoA-ligase; Region: Ligase_CoA; pfam00549 504832004602 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 504832004603 CoA binding domain; Region: CoA_binding; pfam02629 504832004604 CoA-ligase; Region: Ligase_CoA; pfam00549 504832004605 Uncharacterized conserved protein [Function unknown]; Region: COG3791 504832004606 transcriptional repressor IclR; Provisional; Region: PRK11569 504832004607 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504832004608 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832004609 glyoxylate carboligase; Provisional; Region: PRK11269 504832004610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504832004611 PYR/PP interface [polypeptide binding]; other site 504832004612 dimer interface [polypeptide binding]; other site 504832004613 TPP binding site [chemical binding]; other site 504832004614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504832004615 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 504832004616 TPP-binding site [chemical binding]; other site 504832004617 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 504832004618 tartronate semialdehyde reductase; Provisional; Region: PRK15059 504832004619 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504832004620 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 504832004621 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832004622 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 504832004623 pyruvate kinase; Provisional; Region: PRK06247 504832004624 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 504832004625 domain interfaces; other site 504832004626 active site 504832004627 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 504832004628 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 504832004629 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504832004630 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504832004631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832004632 DNA-binding site [nucleotide binding]; DNA binding site 504832004633 FCD domain; Region: FCD; pfam07729 504832004634 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 504832004635 CoA binding domain; Region: CoA_binding; pfam02629 504832004636 CoA-ligase; Region: Ligase_CoA; pfam00549 504832004637 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 504832004638 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 504832004639 CoA-ligase; Region: Ligase_CoA; pfam00549 504832004640 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 504832004641 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 504832004642 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 504832004643 CoA binding domain; Region: CoA_binding_2; pfam13380 504832004644 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504832004645 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 504832004646 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 504832004647 putative substrate translocation pore; other site 504832004648 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 504832004649 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504832004650 PYR/PP interface [polypeptide binding]; other site 504832004651 dimer interface [polypeptide binding]; other site 504832004652 TPP binding site [chemical binding]; other site 504832004653 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504832004654 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 504832004655 TPP-binding site; other site 504832004656 dimer interface [polypeptide binding]; other site 504832004657 formyl-coenzyme A transferase; Provisional; Region: PRK05398 504832004658 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832004659 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504832004660 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504832004661 MarR family; Region: MarR; pfam01047 504832004662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 504832004663 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 504832004664 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 504832004665 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 504832004666 FMN binding site [chemical binding]; other site 504832004667 active site 504832004668 catalytic residues [active] 504832004669 substrate binding site [chemical binding]; other site 504832004670 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 504832004671 catalytic motif [active] 504832004672 Catalytic residue [active] 504832004673 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 504832004674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832004675 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832004676 dimer interface [polypeptide binding]; other site 504832004677 phosphorylation site [posttranslational modification] 504832004678 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832004679 ATP binding site [chemical binding]; other site 504832004680 Mg2+ binding site [ion binding]; other site 504832004681 G-X-G motif; other site 504832004682 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 504832004683 MgtC family; Region: MgtC; pfam02308 504832004684 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 504832004685 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 504832004686 Domain of unknown function DUF59; Region: DUF59; pfam01883 504832004687 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 504832004688 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 504832004689 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 504832004690 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504832004691 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 504832004692 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504832004693 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 504832004694 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504832004695 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 504832004696 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 504832004697 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 504832004698 FeS/SAM binding site; other site 504832004699 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 504832004700 phosphoglycolate phosphatase; Provisional; Region: PRK13222 504832004701 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504832004702 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 504832004703 motif II; other site 504832004704 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 504832004705 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832004706 active site 504832004707 dimer interface [polypeptide binding]; other site 504832004708 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 504832004709 glutathione reductase; Validated; Region: PRK06116 504832004710 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832004711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832004712 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504832004713 Uncharacterized conserved protein [Function unknown]; Region: COG3391 504832004714 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504832004715 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 504832004716 NAD synthetase; Provisional; Region: PRK13981 504832004717 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 504832004718 multimer interface [polypeptide binding]; other site 504832004719 active site 504832004720 catalytic triad [active] 504832004721 protein interface 1 [polypeptide binding]; other site 504832004722 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 504832004723 homodimer interface [polypeptide binding]; other site 504832004724 NAD binding pocket [chemical binding]; other site 504832004725 ATP binding pocket [chemical binding]; other site 504832004726 Mg binding site [ion binding]; other site 504832004727 active-site loop [active] 504832004728 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 504832004729 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 504832004730 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504832004731 active site 504832004732 HIGH motif; other site 504832004733 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504832004734 KMSKS motif; other site 504832004735 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 504832004736 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504832004737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832004738 Coenzyme A binding pocket [chemical binding]; other site 504832004739 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 504832004740 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 504832004741 active site 504832004742 catalytic residues [active] 504832004743 metal binding site [ion binding]; metal-binding site 504832004744 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504832004745 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 504832004746 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832004747 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 504832004748 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 504832004749 Walker A/P-loop; other site 504832004750 ATP binding site [chemical binding]; other site 504832004751 Q-loop/lid; other site 504832004752 ABC transporter signature motif; other site 504832004753 Walker B; other site 504832004754 D-loop; other site 504832004755 H-loop/switch region; other site 504832004756 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 504832004757 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 504832004758 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 504832004759 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 504832004760 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 504832004761 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 504832004762 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 504832004763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 504832004764 ligand binding site [chemical binding]; other site 504832004765 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 504832004766 potassium uptake protein; Region: kup; TIGR00794 504832004767 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 504832004768 active site residue [active] 504832004769 hypothetical protein; Provisional; Region: PRK08912 504832004770 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 504832004771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832004772 homodimer interface [polypeptide binding]; other site 504832004773 catalytic residue [active] 504832004774 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 504832004775 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504832004776 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 504832004777 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 504832004778 putative acyl-acceptor binding pocket; other site 504832004779 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 504832004780 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504832004781 putative NAD(P) binding site [chemical binding]; other site 504832004782 structural Zn binding site [ion binding]; other site 504832004783 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 504832004784 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 504832004785 dimer interface [polypeptide binding]; other site 504832004786 active site 504832004787 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 504832004788 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 504832004789 active site 504832004790 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 504832004791 acyl carrier protein; Provisional; Region: PRK06508 504832004792 Domain of unknown function DUF87; Region: DUF87; pfam01935 504832004793 HerA helicase [Replication, recombination, and repair]; Region: COG0433 504832004794 PilZ domain; Region: PilZ; pfam07238 504832004795 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 504832004796 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832004797 N-terminal plug; other site 504832004798 ligand-binding site [chemical binding]; other site 504832004799 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 504832004800 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 504832004801 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 504832004802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504832004803 MarR family; Region: MarR; pfam01047 504832004804 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504832004805 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832004806 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832004807 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 504832004808 Protein export membrane protein; Region: SecD_SecF; cl14618 504832004809 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 504832004810 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 504832004811 dimer interface [polypeptide binding]; other site 504832004812 active site 504832004813 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 504832004814 putative substrate translocation pore; other site 504832004815 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832004816 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 504832004817 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504832004818 hypothetical protein; Provisional; Region: PRK07236 504832004819 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 504832004820 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832004821 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 504832004822 putative ligand binding site [chemical binding]; other site 504832004823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832004824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832004825 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 504832004826 dimerization interface [polypeptide binding]; other site 504832004827 ABC transporter ATPase component; Reviewed; Region: PRK11147 504832004828 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832004829 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832004830 hypothetical protein; Validated; Region: PRK00124 504832004831 exopolyphosphatase; Region: exo_poly_only; TIGR03706 504832004832 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 504832004833 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 504832004834 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 504832004835 S-adenosylmethionine binding site [chemical binding]; other site 504832004836 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 504832004837 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832004838 putative substrate translocation pore; other site 504832004839 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 504832004840 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 504832004841 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 504832004842 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 504832004843 active site 504832004844 MAPEG family; Region: MAPEG; cl09190 504832004845 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 504832004846 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 504832004847 GMP synthase; Reviewed; Region: guaA; PRK00074 504832004848 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 504832004849 AMP/PPi binding site [chemical binding]; other site 504832004850 candidate oxyanion hole; other site 504832004851 catalytic triad [active] 504832004852 potential glutamine specificity residues [chemical binding]; other site 504832004853 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 504832004854 ATP Binding subdomain [chemical binding]; other site 504832004855 Ligand Binding sites [chemical binding]; other site 504832004856 Dimerization subdomain; other site 504832004857 integrase; Provisional; Region: PRK09692 504832004858 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 504832004859 active site 504832004860 Int/Topo IB signature motif; other site 504832004861 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 504832004862 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 504832004863 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 504832004864 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832004865 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504832004866 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 504832004867 non-specific DNA binding site [nucleotide binding]; other site 504832004868 salt bridge; other site 504832004869 sequence-specific DNA binding site [nucleotide binding]; other site 504832004870 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 504832004871 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 504832004872 Helix-turn-helix domain; Region: HTH_17; pfam12728 504832004873 Replication initiator protein A; Region: RPA; pfam10134 504832004874 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504832004875 DNA methylase; Region: N6_N4_Mtase; pfam01555 504832004876 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 504832004877 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 504832004878 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 504832004879 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832004880 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832004881 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 504832004882 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832004883 catalytic residue [active] 504832004884 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 504832004885 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 504832004886 Putative transcription activator [Transcription]; Region: TenA; COG0819 504832004887 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 504832004888 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 504832004889 Walker A motif; other site 504832004890 ATP binding site [chemical binding]; other site 504832004891 Walker B motif; other site 504832004892 Outer membrane efflux protein; Region: OEP; pfam02321 504832004893 Outer membrane efflux protein; Region: OEP; pfam02321 504832004894 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 504832004895 lipoyl-biotinyl attachment site [posttranslational modification]; other site 504832004896 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832004897 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 504832004898 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 504832004899 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 504832004900 metal-binding site [ion binding] 504832004901 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832004902 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504832004903 PilZ domain; Region: PilZ; pfam07238 504832004904 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 504832004905 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504832004906 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832004907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832004908 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 504832004909 dimerization interface [polypeptide binding]; other site 504832004910 substrate binding pocket [chemical binding]; other site 504832004911 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 504832004912 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 504832004913 ATP binding site [chemical binding]; other site 504832004914 Walker A motif; other site 504832004915 hexamer interface [polypeptide binding]; other site 504832004916 Walker B motif; other site 504832004917 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 504832004918 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 504832004919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832004920 Walker A/P-loop; other site 504832004921 ATP binding site [chemical binding]; other site 504832004922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832004923 Walker B; other site 504832004924 D-loop; other site 504832004925 H-loop/switch region; other site 504832004926 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 504832004927 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 504832004928 conjugal transfer protein TrbL; Provisional; Region: PRK13875 504832004929 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 504832004930 conjugal transfer protein TrbF; Provisional; Region: PRK13872 504832004931 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 504832004932 VirB7 interaction site; other site 504832004933 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 504832004934 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 504832004935 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 504832004936 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504832004937 Walker A motif; other site 504832004938 ATP binding site [chemical binding]; other site 504832004939 Walker B motif; other site 504832004940 arginine finger; other site 504832004941 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 504832004942 active site 504832004943 catalytic triad [active] 504832004944 PIN domain; Region: PIN; pfam01850 504832004945 putative active site [active] 504832004946 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 504832004947 non-specific DNA binding site [nucleotide binding]; other site 504832004948 salt bridge; other site 504832004949 sequence-specific DNA binding site [nucleotide binding]; other site 504832004950 Domain of unknown function (DUF955); Region: DUF955; cl01076 504832004951 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 504832004952 active site 504832004953 NTP binding site [chemical binding]; other site 504832004954 metal binding triad [ion binding]; metal-binding site 504832004955 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 504832004956 Walker A motif; other site 504832004957 ATP binding site [chemical binding]; other site 504832004958 Walker B motif; other site 504832004959 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 504832004960 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 504832004961 active site 504832004962 catalytic site [active] 504832004963 substrate binding site [chemical binding]; other site 504832004964 TIR domain; Region: TIR_2; pfam13676 504832004965 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 504832004966 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 504832004967 Cl- selectivity filter; other site 504832004968 Cl- binding residues [ion binding]; other site 504832004969 pore gating glutamate residue; other site 504832004970 dimer interface [polypeptide binding]; other site 504832004971 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 504832004972 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 504832004973 ArsC family; Region: ArsC; pfam03960 504832004974 putative catalytic residues [active] 504832004975 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832004976 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832004977 Walker A/P-loop; other site 504832004978 ATP binding site [chemical binding]; other site 504832004979 Q-loop/lid; other site 504832004980 ABC transporter signature motif; other site 504832004981 Walker B; other site 504832004982 D-loop; other site 504832004983 H-loop/switch region; other site 504832004984 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832004985 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832004986 Walker A/P-loop; other site 504832004987 ATP binding site [chemical binding]; other site 504832004988 Q-loop/lid; other site 504832004989 ABC transporter signature motif; other site 504832004990 Walker B; other site 504832004991 D-loop; other site 504832004992 H-loop/switch region; other site 504832004993 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832004994 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 504832004995 TM-ABC transporter signature motif; other site 504832004996 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832004997 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 504832004998 TM-ABC transporter signature motif; other site 504832004999 multidrug efflux system protein; Provisional; Region: PRK11431 504832005000 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 504832005001 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 504832005002 G1 box; other site 504832005003 putative GEF interaction site [polypeptide binding]; other site 504832005004 GTP/Mg2+ binding site [chemical binding]; other site 504832005005 Switch I region; other site 504832005006 G2 box; other site 504832005007 G3 box; other site 504832005008 Switch II region; other site 504832005009 G4 box; other site 504832005010 G5 box; other site 504832005011 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 504832005012 NnrU protein; Region: NnrU; pfam07298 504832005013 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 504832005014 oligomerization interface [polypeptide binding]; other site 504832005015 active site 504832005016 metal binding site [ion binding]; metal-binding site 504832005017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 504832005018 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 504832005019 GTP-binding protein Der; Reviewed; Region: PRK00093 504832005020 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 504832005021 G1 box; other site 504832005022 GTP/Mg2+ binding site [chemical binding]; other site 504832005023 Switch I region; other site 504832005024 G2 box; other site 504832005025 Switch II region; other site 504832005026 G3 box; other site 504832005027 G4 box; other site 504832005028 G5 box; other site 504832005029 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 504832005030 G1 box; other site 504832005031 GTP/Mg2+ binding site [chemical binding]; other site 504832005032 Switch I region; other site 504832005033 G2 box; other site 504832005034 G3 box; other site 504832005035 Switch II region; other site 504832005036 G4 box; other site 504832005037 G5 box; other site 504832005038 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 504832005039 classical (c) SDRs; Region: SDR_c; cd05233 504832005040 NAD(P) binding site [chemical binding]; other site 504832005041 active site 504832005042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 504832005043 amidophosphoribosyltransferase; Provisional; Region: PRK09123 504832005044 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 504832005045 active site 504832005046 tetramer interface [polypeptide binding]; other site 504832005047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832005048 active site 504832005049 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 504832005050 Colicin V production protein; Region: Colicin_V; pfam02674 504832005051 DNA repair protein RadA; Provisional; Region: PRK11823 504832005052 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 504832005053 Walker A motif; other site 504832005054 ATP binding site [chemical binding]; other site 504832005055 Walker B motif; other site 504832005056 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 504832005057 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 504832005058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 504832005059 active site 504832005060 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504832005061 dimer interface [polypeptide binding]; other site 504832005062 substrate binding site [chemical binding]; other site 504832005063 catalytic residues [active] 504832005064 replicative DNA helicase; Provisional; Region: PRK09165 504832005065 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 504832005066 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 504832005067 Walker A motif; other site 504832005068 ATP binding site [chemical binding]; other site 504832005069 Walker B motif; other site 504832005070 DNA binding loops [nucleotide binding] 504832005071 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 504832005072 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 504832005073 S-adenosylmethionine binding site [chemical binding]; other site 504832005074 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 504832005075 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 504832005076 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 504832005077 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 504832005078 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 504832005079 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 504832005080 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 504832005081 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 504832005082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832005083 NAD(P) binding site [chemical binding]; other site 504832005084 active site 504832005085 acyl carrier protein; Provisional; Region: acpP; PRK00982 504832005086 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 504832005087 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 504832005088 dimer interface [polypeptide binding]; other site 504832005089 active site 504832005090 YceG-like family; Region: YceG; pfam02618 504832005091 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 504832005092 dimerization interface [polypeptide binding]; other site 504832005093 hypothetical protein; Provisional; Region: PRK11820 504832005094 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 504832005095 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 504832005096 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 504832005097 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 504832005098 catalytic site [active] 504832005099 G-X2-G-X-G-K; other site 504832005100 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 504832005101 metabolite-proton symporter; Region: 2A0106; TIGR00883 504832005102 putative substrate translocation pore; other site 504832005103 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 504832005104 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 504832005105 putative catalytic residue [active] 504832005106 glycoprotein BALF4; Provisional; Region: PHA03231 504832005107 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 504832005108 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 504832005109 putative NAD(P) binding site [chemical binding]; other site 504832005110 catalytic Zn binding site [ion binding]; other site 504832005111 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 504832005112 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 504832005113 S-adenosylmethionine binding site [chemical binding]; other site 504832005114 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 504832005115 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 504832005116 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 504832005117 SurA N-terminal domain; Region: SurA_N; pfam09312 504832005118 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 504832005119 OstA-like protein; Region: OstA; cl00844 504832005120 Organic solvent tolerance protein; Region: OstA_C; pfam04453 504832005121 Predicted permeases [General function prediction only]; Region: COG0795 504832005122 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504832005123 multifunctional aminopeptidase A; Provisional; Region: PRK00913 504832005124 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 504832005125 interface (dimer of trimers) [polypeptide binding]; other site 504832005126 Substrate-binding/catalytic site; other site 504832005127 Zn-binding sites [ion binding]; other site 504832005128 DNA polymerase III subunit chi; Validated; Region: PRK05728 504832005129 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504832005130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832005131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832005132 ABC transporter; Region: ABC_tran_2; pfam12848 504832005133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504832005134 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 504832005135 active site 504832005136 multimer interface [polypeptide binding]; other site 504832005137 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 504832005138 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 504832005139 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 504832005140 active site 504832005141 substrate binding site [chemical binding]; other site 504832005142 cosubstrate binding site; other site 504832005143 catalytic site [active] 504832005144 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 504832005145 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 504832005146 dimerization interface [polypeptide binding]; other site 504832005147 putative ATP binding site [chemical binding]; other site 504832005148 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 504832005149 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 504832005150 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 504832005151 polyphosphate kinase; Provisional; Region: PRK05443 504832005152 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 504832005153 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 504832005154 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 504832005155 putative domain interface [polypeptide binding]; other site 504832005156 putative active site [active] 504832005157 catalytic site [active] 504832005158 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 504832005159 putative domain interface [polypeptide binding]; other site 504832005160 putative active site [active] 504832005161 catalytic site [active] 504832005162 exopolyphosphatase; Region: exo_poly_only; TIGR03706 504832005163 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 504832005164 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 504832005165 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 504832005166 catalytic site [active] 504832005167 putative active site [active] 504832005168 putative substrate binding site [chemical binding]; other site 504832005169 HRDC domain; Region: HRDC; pfam00570 504832005170 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 504832005171 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 504832005172 dimer interface [polypeptide binding]; other site 504832005173 anticodon binding site; other site 504832005174 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 504832005175 homodimer interface [polypeptide binding]; other site 504832005176 motif 1; other site 504832005177 active site 504832005178 motif 2; other site 504832005179 GAD domain; Region: GAD; pfam02938 504832005180 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832005181 active site 504832005182 motif 3; other site 504832005183 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 504832005184 Malic enzyme, N-terminal domain; Region: malic; pfam00390 504832005185 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 504832005186 putative NAD(P) binding site [chemical binding]; other site 504832005187 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 504832005188 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504832005189 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 504832005190 NodB motif; other site 504832005191 active site 504832005192 catalytic site [active] 504832005193 metal binding site [ion binding]; metal-binding site 504832005194 hypothetical protein; Provisional; Region: PRK06132 504832005195 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832005196 hypothetical protein; Provisional; Region: PRK10756 504832005197 CreA protein; Region: CreA; pfam05981 504832005198 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 504832005199 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504832005200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504832005201 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832005202 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 504832005203 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832005204 dimer interface [polypeptide binding]; other site 504832005205 putative CheW interface [polypeptide binding]; other site 504832005206 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504832005207 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832005208 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832005209 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504832005210 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504832005211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832005212 NAD(P) binding site [chemical binding]; other site 504832005213 active site 504832005214 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 504832005215 EamA-like transporter family; Region: EamA; pfam00892 504832005216 EamA-like transporter family; Region: EamA; pfam00892 504832005217 NADH dehydrogenase; Validated; Region: PRK08183 504832005218 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 504832005219 LexA repressor; Validated; Region: PRK00215 504832005220 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 504832005221 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 504832005222 Catalytic site [active] 504832005223 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 504832005224 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 504832005225 dimer interface [polypeptide binding]; other site 504832005226 putative functional site; other site 504832005227 putative MPT binding site; other site 504832005228 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 504832005229 trimer interface [polypeptide binding]; other site 504832005230 dimer interface [polypeptide binding]; other site 504832005231 putative active site [active] 504832005232 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 504832005233 active site 504832005234 ribulose/triose binding site [chemical binding]; other site 504832005235 phosphate binding site [ion binding]; other site 504832005236 substrate (anthranilate) binding pocket [chemical binding]; other site 504832005237 product (indole) binding pocket [chemical binding]; other site 504832005238 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 504832005239 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 504832005240 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 504832005241 SurA N-terminal domain; Region: SurA_N_3; cl07813 504832005242 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 504832005243 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 504832005244 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 504832005245 triosephosphate isomerase; Provisional; Region: PRK14565 504832005246 substrate binding site [chemical binding]; other site 504832005247 dimer interface [polypeptide binding]; other site 504832005248 catalytic triad [active] 504832005249 protein translocase, SecG subunit; Region: secG; TIGR00810 504832005250 CTP synthetase; Validated; Region: pyrG; PRK05380 504832005251 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 504832005252 Catalytic site [active] 504832005253 active site 504832005254 UTP binding site [chemical binding]; other site 504832005255 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 504832005256 active site 504832005257 putative oxyanion hole; other site 504832005258 catalytic triad [active] 504832005259 Predicted periplasmic protein [Function unknown]; Region: COG3904 504832005260 NIPSNAP; Region: NIPSNAP; pfam07978 504832005261 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 504832005262 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 504832005263 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 504832005264 Protein of unknown function (DUF497); Region: DUF497; pfam04365 504832005265 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 504832005266 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 504832005267 enolase; Provisional; Region: eno; PRK00077 504832005268 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 504832005269 dimer interface [polypeptide binding]; other site 504832005270 metal binding site [ion binding]; metal-binding site 504832005271 substrate binding pocket [chemical binding]; other site 504832005272 Predicted flavoprotein [General function prediction only]; Region: COG0431 504832005273 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832005274 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 504832005275 Septum formation initiator; Region: DivIC; pfam04977 504832005276 sulfite oxidase; Provisional; Region: PLN00177 504832005277 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 504832005278 Moco binding site; other site 504832005279 metal coordination site [ion binding]; other site 504832005280 dimerization interface [polypeptide binding]; other site 504832005281 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 504832005282 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 504832005283 tetramer interface [polypeptide binding]; other site 504832005284 TPP-binding site [chemical binding]; other site 504832005285 heterodimer interface [polypeptide binding]; other site 504832005286 phosphorylation loop region [posttranslational modification] 504832005287 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 504832005288 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832005289 E3 interaction surface; other site 504832005290 lipoyl attachment site [posttranslational modification]; other site 504832005291 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 504832005292 alpha subunit interface [polypeptide binding]; other site 504832005293 TPP binding site [chemical binding]; other site 504832005294 heterodimer interface [polypeptide binding]; other site 504832005295 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832005296 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832005297 E3 interaction surface; other site 504832005298 lipoyl attachment site [posttranslational modification]; other site 504832005299 e3 binding domain; Region: E3_binding; pfam02817 504832005300 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 504832005301 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504832005302 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 504832005303 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 504832005304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832005305 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504832005306 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832005307 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 504832005308 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 504832005309 Sel1-like repeats; Region: SEL1; smart00671 504832005310 Sel1-like repeats; Region: SEL1; smart00671 504832005311 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 504832005312 putative catalytic site [active] 504832005313 putative phosphate binding site [ion binding]; other site 504832005314 active site 504832005315 metal binding site A [ion binding]; metal-binding site 504832005316 DNA binding site [nucleotide binding] 504832005317 putative AP binding site [nucleotide binding]; other site 504832005318 putative metal binding site B [ion binding]; other site 504832005319 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 504832005320 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 504832005321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504832005322 Zn2+ binding site [ion binding]; other site 504832005323 Mg2+ binding site [ion binding]; other site 504832005324 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 504832005325 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 504832005326 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 504832005327 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 504832005328 active site 504832005329 HIGH motif; other site 504832005330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504832005331 KMSK motif region; other site 504832005332 tRNA binding surface [nucleotide binding]; other site 504832005333 DALR anticodon binding domain; Region: DALR_1; smart00836 504832005334 anticodon binding site; other site 504832005335 Sporulation related domain; Region: SPOR; pfam05036 504832005336 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 504832005337 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 504832005338 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 504832005339 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 504832005340 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504832005341 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 504832005342 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 504832005343 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832005344 catalytic residues [active] 504832005345 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 504832005346 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 504832005347 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 504832005348 seryl-tRNA synthetase; Provisional; Region: PRK05431 504832005349 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 504832005350 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 504832005351 dimer interface [polypeptide binding]; other site 504832005352 active site 504832005353 motif 1; other site 504832005354 motif 2; other site 504832005355 motif 3; other site 504832005356 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 504832005357 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504832005358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832005359 active site 504832005360 phosphorylation site [posttranslational modification] 504832005361 intermolecular recognition site; other site 504832005362 dimerization interface [polypeptide binding]; other site 504832005363 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 504832005364 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 504832005365 S-adenosylmethionine binding site [chemical binding]; other site 504832005366 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504832005367 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 504832005368 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504832005369 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504832005370 Peptidase family M23; Region: Peptidase_M23; pfam01551 504832005371 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 504832005372 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 504832005373 Walker A motif; other site 504832005374 ATP binding site [chemical binding]; other site 504832005375 Walker B motif; other site 504832005376 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 504832005377 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 504832005378 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 504832005379 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 504832005380 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 504832005381 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 504832005382 Protein export membrane protein; Region: SecD_SecF; pfam02355 504832005383 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 504832005384 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 504832005385 substrate binding pocket [chemical binding]; other site 504832005386 substrate-Mg2+ binding site; other site 504832005387 aspartate-rich region 1; other site 504832005388 aspartate-rich region 2; other site 504832005389 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504832005390 Glucose inhibited division protein A; Region: GIDA; pfam01134 504832005391 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 504832005392 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 504832005393 intracellular protease, PfpI family; Region: PfpI; TIGR01382 504832005394 proposed catalytic triad [active] 504832005395 conserved cys residue [active] 504832005396 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 504832005397 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 504832005398 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 504832005399 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504832005400 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 504832005401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832005402 Isochorismatase family; Region: Isochorismatase; pfam00857 504832005403 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 504832005404 catalytic triad [active] 504832005405 dimer interface [polypeptide binding]; other site 504832005406 conserved cis-peptide bond; other site 504832005407 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 504832005408 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504832005409 Predicted acetyltransferase [General function prediction only]; Region: COG2388 504832005410 Predicted acetyltransferase [General function prediction only]; Region: COG2388 504832005411 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 504832005412 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504832005413 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504832005414 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 504832005415 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832005416 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504832005417 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 504832005418 dimer interface [polypeptide binding]; other site 504832005419 ssDNA binding site [nucleotide binding]; other site 504832005420 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832005421 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 504832005422 DNA gyrase subunit A; Validated; Region: PRK05560 504832005423 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 504832005424 CAP-like domain; other site 504832005425 active site 504832005426 primary dimer interface [polypeptide binding]; other site 504832005427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504832005428 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504832005429 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504832005430 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504832005431 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504832005432 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 504832005433 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 504832005434 active site 504832005435 (T/H)XGH motif; other site 504832005436 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 504832005437 active site 504832005438 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 504832005439 active site 504832005440 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 504832005441 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 504832005442 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 504832005443 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 504832005444 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 504832005445 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 504832005446 dimer interface [polypeptide binding]; other site 504832005447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832005448 catalytic residue [active] 504832005449 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 504832005450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832005451 dimer interface [polypeptide binding]; other site 504832005452 putative CheW interface [polypeptide binding]; other site 504832005453 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 504832005454 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504832005455 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 504832005456 active site 504832005457 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 504832005458 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 504832005459 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 504832005460 Substrate binding site; other site 504832005461 Mg++ binding site; other site 504832005462 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 504832005463 active site 504832005464 substrate binding site [chemical binding]; other site 504832005465 CoA binding site [chemical binding]; other site 504832005466 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 504832005467 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 504832005468 glutaminase active site [active] 504832005469 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 504832005470 dimer interface [polypeptide binding]; other site 504832005471 active site 504832005472 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 504832005473 dimer interface [polypeptide binding]; other site 504832005474 active site 504832005475 Uncharacterized conserved protein [Function unknown]; Region: COG2928 504832005476 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 504832005477 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 504832005478 generic binding surface II; other site 504832005479 ssDNA binding site; other site 504832005480 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 504832005481 ATP binding site [chemical binding]; other site 504832005482 putative Mg++ binding site [ion binding]; other site 504832005483 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 504832005484 nucleotide binding region [chemical binding]; other site 504832005485 ATP-binding site [chemical binding]; other site 504832005486 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 504832005487 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 504832005488 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 504832005489 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 504832005490 ATP binding site [chemical binding]; other site 504832005491 putative Mg++ binding site [ion binding]; other site 504832005492 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 504832005493 nucleotide binding region [chemical binding]; other site 504832005494 ATP-binding site [chemical binding]; other site 504832005495 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 504832005496 PRC-barrel domain; Region: PRC; pfam05239 504832005497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832005498 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504832005499 AMP-binding enzyme; Region: AMP-binding; pfam00501 504832005500 acyl-activating enzyme (AAE) consensus motif; other site 504832005501 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504832005502 active site 504832005503 CoA binding site [chemical binding]; other site 504832005504 AMP binding site [chemical binding]; other site 504832005505 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 504832005506 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 504832005507 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 504832005508 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832005509 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832005510 N-terminal plug; other site 504832005511 ligand-binding site [chemical binding]; other site 504832005512 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 504832005513 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 504832005514 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504832005515 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 504832005516 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 504832005517 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 504832005518 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 504832005519 NADP binding site [chemical binding]; other site 504832005520 dimer interface [polypeptide binding]; other site 504832005521 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 504832005522 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504832005523 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 504832005524 FeS/SAM binding site; other site 504832005525 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 504832005526 putative active site [active] 504832005527 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 504832005528 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 504832005529 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 504832005530 hypothetical protein; Validated; Region: PRK08245 504832005531 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 504832005532 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 504832005533 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504832005534 ligand binding site [chemical binding]; other site 504832005535 flexible hinge region; other site 504832005536 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504832005537 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 504832005538 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 504832005539 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832005540 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 504832005541 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504832005542 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504832005543 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504832005544 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 504832005545 dimer interface [polypeptide binding]; other site 504832005546 conserved gate region; other site 504832005547 putative PBP binding loops; other site 504832005548 ABC-ATPase subunit interface; other site 504832005549 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 504832005550 dimer interface [polypeptide binding]; other site 504832005551 conserved gate region; other site 504832005552 putative PBP binding loops; other site 504832005553 ABC-ATPase subunit interface; other site 504832005554 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504832005555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832005556 Walker A/P-loop; other site 504832005557 ATP binding site [chemical binding]; other site 504832005558 Q-loop/lid; other site 504832005559 ABC transporter signature motif; other site 504832005560 Walker B; other site 504832005561 D-loop; other site 504832005562 H-loop/switch region; other site 504832005563 TOBE domain; Region: TOBE_2; pfam08402 504832005564 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832005565 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832005566 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504832005567 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832005568 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 504832005569 heme-binding site [chemical binding]; other site 504832005570 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 504832005571 DNA binding residues [nucleotide binding] 504832005572 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 504832005573 dimer interface [polypeptide binding]; other site 504832005574 putative metal binding site [ion binding]; other site 504832005575 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 504832005576 AAA domain; Region: AAA_13; pfam13166 504832005577 integrase; Provisional; Region: PRK09692 504832005578 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 504832005579 active site 504832005580 Int/Topo IB signature motif; other site 504832005581 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 504832005582 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 504832005583 Walker A motif; other site 504832005584 ATP binding site [chemical binding]; other site 504832005585 Walker B motif; other site 504832005586 Phage-related protein [Function unknown]; Region: COG4695; cl01923 504832005587 Phage portal protein; Region: Phage_portal; pfam04860 504832005588 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 504832005589 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 504832005590 Phage capsid family; Region: Phage_capsid; pfam05065 504832005591 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 504832005592 oligomerization interface [polypeptide binding]; other site 504832005593 Phage terminase, small subunit; Region: Terminase_4; pfam05119 504832005594 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 504832005595 Phage Terminase; Region: Terminase_1; pfam03354 504832005596 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 504832005597 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 504832005598 active site 504832005599 Int/Topo IB signature motif; other site 504832005600 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 504832005601 Toprim domain; Region: Toprim_3; pfam13362 504832005602 AAA domain; Region: AAA_25; pfam13481 504832005603 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 504832005604 Walker A motif; other site 504832005605 ATP binding site [chemical binding]; other site 504832005606 Walker B motif; other site 504832005607 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 504832005608 Phage capsid family; Region: Phage_capsid; pfam05065 504832005609 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 504832005610 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 504832005611 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 504832005612 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 504832005613 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 504832005614 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 504832005615 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 504832005616 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 504832005617 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 504832005618 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 504832005619 TMP-binding site; other site 504832005620 ATP-binding site [chemical binding]; other site 504832005621 DNA polymerase III subunit delta'; Validated; Region: PRK07471 504832005622 DNA polymerase III subunit delta'; Validated; Region: PRK08485 504832005623 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 504832005624 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 504832005625 active site 504832005626 HIGH motif; other site 504832005627 KMSKS motif; other site 504832005628 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 504832005629 tRNA binding surface [nucleotide binding]; other site 504832005630 anticodon binding site; other site 504832005631 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 504832005632 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 504832005633 active site 504832005634 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 504832005635 putative hydrolase; Provisional; Region: PRK02113 504832005636 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 504832005637 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 504832005638 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 504832005639 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 504832005640 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 504832005641 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 504832005642 Substrate binding site; other site 504832005643 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 504832005644 Bacterial sugar transferase; Region: Bac_transf; pfam02397 504832005645 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832005646 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 504832005647 active site 504832005648 metal binding site [ion binding]; metal-binding site 504832005649 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 504832005650 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 504832005651 SLBB domain; Region: SLBB; pfam10531 504832005652 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 504832005653 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 504832005654 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 504832005655 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 504832005656 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832005657 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 504832005658 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 504832005659 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 504832005660 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 504832005661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832005662 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 504832005663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832005664 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 504832005665 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 504832005666 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 504832005667 Ligand Binding Site [chemical binding]; other site 504832005668 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 504832005669 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 504832005670 homodimer interface [polypeptide binding]; other site 504832005671 metal binding site [ion binding]; metal-binding site 504832005672 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 504832005673 homodimer interface [polypeptide binding]; other site 504832005674 active site 504832005675 putative chemical substrate binding site [chemical binding]; other site 504832005676 metal binding site [ion binding]; metal-binding site 504832005677 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 504832005678 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 504832005679 HflX GTPase family; Region: HflX; cd01878 504832005680 G1 box; other site 504832005681 GTP/Mg2+ binding site [chemical binding]; other site 504832005682 Switch I region; other site 504832005683 G2 box; other site 504832005684 G3 box; other site 504832005685 Switch II region; other site 504832005686 G4 box; other site 504832005687 G5 box; other site 504832005688 bacterial Hfq-like; Region: Hfq; cd01716 504832005689 hexamer interface [polypeptide binding]; other site 504832005690 Sm1 motif; other site 504832005691 RNA binding site [nucleotide binding]; other site 504832005692 Sm2 motif; other site 504832005693 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504832005694 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 504832005695 homodimer interface [polypeptide binding]; other site 504832005696 substrate-cofactor binding pocket; other site 504832005697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832005698 catalytic residue [active] 504832005699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 504832005700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832005701 active site 504832005702 phosphorylation site [posttranslational modification] 504832005703 intermolecular recognition site; other site 504832005704 dimerization interface [polypeptide binding]; other site 504832005705 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 504832005706 Walker A motif; other site 504832005707 ATP binding site [chemical binding]; other site 504832005708 Walker B motif; other site 504832005709 arginine finger; other site 504832005710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 504832005711 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 504832005712 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 504832005713 dimerization interface [polypeptide binding]; other site 504832005714 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832005715 dimer interface [polypeptide binding]; other site 504832005716 phosphorylation site [posttranslational modification] 504832005717 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832005718 ATP binding site [chemical binding]; other site 504832005719 Mg2+ binding site [ion binding]; other site 504832005720 G-X-G motif; other site 504832005721 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 504832005722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832005723 active site 504832005724 phosphorylation site [posttranslational modification] 504832005725 intermolecular recognition site; other site 504832005726 dimerization interface [polypeptide binding]; other site 504832005727 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 504832005728 Walker A motif; other site 504832005729 ATP binding site [chemical binding]; other site 504832005730 Walker B motif; other site 504832005731 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 504832005732 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 504832005733 PAS domain; Region: PAS; smart00091 504832005734 putative active site [active] 504832005735 heme pocket [chemical binding]; other site 504832005736 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832005737 dimer interface [polypeptide binding]; other site 504832005738 phosphorylation site [posttranslational modification] 504832005739 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832005740 ATP binding site [chemical binding]; other site 504832005741 Mg2+ binding site [ion binding]; other site 504832005742 G-X-G motif; other site 504832005743 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 504832005744 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 504832005745 FMN binding site [chemical binding]; other site 504832005746 active site 504832005747 catalytic residues [active] 504832005748 substrate binding site [chemical binding]; other site 504832005749 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 504832005750 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 504832005751 substrate binding site; other site 504832005752 dimer interface; other site 504832005753 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 504832005754 homotrimer interaction site [polypeptide binding]; other site 504832005755 zinc binding site [ion binding]; other site 504832005756 CDP-binding sites; other site 504832005757 Competence-damaged protein; Region: CinA; pfam02464 504832005758 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 504832005759 putative coenzyme Q binding site [chemical binding]; other site 504832005760 lipoyl synthase; Provisional; Region: PRK05481 504832005761 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 504832005762 FeS/SAM binding site; other site 504832005763 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 504832005764 active site 504832005765 DNA binding site [nucleotide binding] 504832005766 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 504832005767 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504832005768 HIGH motif; other site 504832005769 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504832005770 active site 504832005771 KMSKS motif; other site 504832005772 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 504832005773 tRNA binding surface [nucleotide binding]; other site 504832005774 anticodon binding site; other site 504832005775 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 504832005776 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 504832005777 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832005778 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 504832005779 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 504832005780 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 504832005781 S-adenosylmethionine binding site [chemical binding]; other site 504832005782 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504832005783 heme-binding site [chemical binding]; other site 504832005784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832005785 dimer interface [polypeptide binding]; other site 504832005786 putative CheW interface [polypeptide binding]; other site 504832005787 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 504832005788 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832005789 Walker A/P-loop; other site 504832005790 ATP binding site [chemical binding]; other site 504832005791 Q-loop/lid; other site 504832005792 ABC transporter signature motif; other site 504832005793 Walker B; other site 504832005794 D-loop; other site 504832005795 H-loop/switch region; other site 504832005796 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504832005797 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504832005798 Walker A/P-loop; other site 504832005799 ATP binding site [chemical binding]; other site 504832005800 Q-loop/lid; other site 504832005801 ABC transporter signature motif; other site 504832005802 Walker B; other site 504832005803 D-loop; other site 504832005804 H-loop/switch region; other site 504832005805 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 504832005806 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504832005807 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 504832005808 dimer interface [polypeptide binding]; other site 504832005809 conserved gate region; other site 504832005810 putative PBP binding loops; other site 504832005811 ABC-ATPase subunit interface; other site 504832005812 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504832005813 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 504832005814 dimer interface [polypeptide binding]; other site 504832005815 conserved gate region; other site 504832005816 putative PBP binding loops; other site 504832005817 ABC-ATPase subunit interface; other site 504832005818 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504832005819 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_12; cd08491 504832005820 Dehydratase family; Region: ILVD_EDD; pfam00920 504832005821 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 504832005822 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832005823 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832005824 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 504832005825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832005826 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 504832005827 dimerization interface [polypeptide binding]; other site 504832005828 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832005829 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832005830 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504832005831 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 504832005832 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 504832005833 active site 504832005834 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832005835 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832005836 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504832005837 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832005838 substrate binding site [chemical binding]; other site 504832005839 oxyanion hole (OAH) forming residues; other site 504832005840 trimer interface [polypeptide binding]; other site 504832005841 DTW domain; Region: DTW; cl01221 504832005842 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 504832005843 Protein export membrane protein; Region: SecD_SecF; cl14618 504832005844 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 504832005845 Protein export membrane protein; Region: SecD_SecF; cl14618 504832005846 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 504832005847 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832005848 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832005849 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 504832005850 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 504832005851 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 504832005852 dimer interface [polypeptide binding]; other site 504832005853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832005854 catalytic residue [active] 504832005855 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504832005856 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 504832005857 Walker A/P-loop; other site 504832005858 ATP binding site [chemical binding]; other site 504832005859 Q-loop/lid; other site 504832005860 ABC transporter signature motif; other site 504832005861 Walker B; other site 504832005862 D-loop; other site 504832005863 H-loop/switch region; other site 504832005864 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 504832005865 dimer interface [polypeptide binding]; other site 504832005866 conserved gate region; other site 504832005867 putative PBP binding loops; other site 504832005868 ABC-ATPase subunit interface; other site 504832005869 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 504832005870 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 504832005871 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 504832005872 putative PBP binding loops; other site 504832005873 dimer interface [polypeptide binding]; other site 504832005874 ABC-ATPase subunit interface; other site 504832005875 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 504832005876 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 504832005877 substrate binding pocket [chemical binding]; other site 504832005878 membrane-bound complex binding site; other site 504832005879 hinge residues; other site 504832005880 cystathionine beta-lyase; Provisional; Region: PRK05967 504832005881 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 504832005882 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832005883 catalytic residue [active] 504832005884 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 504832005885 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 504832005886 Putative Catalytic site; other site 504832005887 DXD motif; other site 504832005888 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 504832005889 active site 504832005890 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 504832005891 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 504832005892 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 504832005893 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 504832005894 OpgC protein; Region: OpgC_C; pfam10129 504832005895 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832005896 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 504832005897 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 504832005898 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832005899 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 504832005900 Walker A/P-loop; other site 504832005901 ATP binding site [chemical binding]; other site 504832005902 Q-loop/lid; other site 504832005903 ABC transporter signature motif; other site 504832005904 Walker B; other site 504832005905 D-loop; other site 504832005906 H-loop/switch region; other site 504832005907 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 504832005908 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832005909 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832005910 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 504832005911 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005912 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005913 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005914 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005915 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005916 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005917 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005918 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005919 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005920 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005921 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005922 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 504832005923 VCBS repeat; Region: VCBS_repeat; TIGR01965 504832005924 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832005925 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 504832005926 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 504832005927 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 504832005928 DNA-binding site [nucleotide binding]; DNA binding site 504832005929 RNA-binding motif; other site 504832005930 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 504832005931 DNA-binding site [nucleotide binding]; DNA binding site 504832005932 RNA-binding motif; other site 504832005933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832005934 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 504832005935 dimer interface [polypeptide binding]; other site 504832005936 active site 504832005937 metal binding site [ion binding]; metal-binding site 504832005938 glutathione binding site [chemical binding]; other site 504832005939 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 504832005940 Flavoprotein; Region: Flavoprotein; pfam02441 504832005941 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 504832005942 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 504832005943 FeS/SAM binding site; other site 504832005944 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 504832005945 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832005946 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 504832005947 motif 1; other site 504832005948 dimer interface [polypeptide binding]; other site 504832005949 active site 504832005950 motif 2; other site 504832005951 motif 3; other site 504832005952 elongation factor P; Validated; Region: PRK00529 504832005953 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 504832005954 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 504832005955 RNA binding site [nucleotide binding]; other site 504832005956 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 504832005957 RNA binding site [nucleotide binding]; other site 504832005958 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 504832005959 spermidine synthase; Provisional; Region: PRK00811 504832005960 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 504832005961 S-adenosylmethionine binding site [chemical binding]; other site 504832005962 lytic murein transglycosylase; Region: MltB_2; TIGR02283 504832005963 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 504832005964 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832005965 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832005966 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 504832005967 DHH family; Region: DHH; pfam01368 504832005968 DHHA1 domain; Region: DHHA1; pfam02272 504832005969 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 504832005970 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 504832005971 motif II; other site 504832005972 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 504832005973 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 504832005974 putative active site [active] 504832005975 homoserine dehydrogenase; Provisional; Region: PRK06349 504832005976 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 504832005977 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 504832005978 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 504832005979 aminotransferase; Validated; Region: PRK09148 504832005980 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 504832005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832005982 homodimer interface [polypeptide binding]; other site 504832005983 catalytic residue [active] 504832005984 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 504832005985 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 504832005986 MAPEG family; Region: MAPEG; pfam01124 504832005987 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 504832005988 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504832005989 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 504832005990 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 504832005991 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 504832005992 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832005993 Mg2+ binding site [ion binding]; other site 504832005994 G-X-G motif; other site 504832005995 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 504832005996 anchoring element; other site 504832005997 dimer interface [polypeptide binding]; other site 504832005998 ATP binding site [chemical binding]; other site 504832005999 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 504832006000 active site 504832006001 putative metal-binding site [ion binding]; other site 504832006002 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 504832006003 hypothetical protein; Provisional; Region: PRK06185 504832006004 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832006005 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504832006006 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 504832006007 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 504832006008 ATP binding site [chemical binding]; other site 504832006009 Mg++ binding site [ion binding]; other site 504832006010 motif III; other site 504832006011 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 504832006012 nucleotide binding region [chemical binding]; other site 504832006013 ATP-binding site [chemical binding]; other site 504832006014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832006015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832006016 metal binding site [ion binding]; metal-binding site 504832006017 active site 504832006018 I-site; other site 504832006019 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 504832006020 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 504832006021 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 504832006022 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 504832006023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832006024 catalytic residue [active] 504832006025 FeS assembly protein SufD; Region: sufD; TIGR01981 504832006026 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 504832006027 FeS assembly ATPase SufC; Region: sufC; TIGR01978 504832006028 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 504832006029 Walker A/P-loop; other site 504832006030 ATP binding site [chemical binding]; other site 504832006031 Q-loop/lid; other site 504832006032 ABC transporter signature motif; other site 504832006033 Walker B; other site 504832006034 D-loop; other site 504832006035 H-loop/switch region; other site 504832006036 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 504832006037 putative ABC transporter; Region: ycf24; CHL00085 504832006038 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 504832006039 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 504832006040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832006041 catalytic residue [active] 504832006042 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 504832006043 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 504832006044 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 504832006045 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 504832006046 active site 504832006047 HIGH motif; other site 504832006048 dimer interface [polypeptide binding]; other site 504832006049 KMSKS motif; other site 504832006050 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 504832006051 RNA binding surface [nucleotide binding]; other site 504832006052 Protein of unknown function; Region: DUF3971; pfam13116 504832006053 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 504832006054 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 504832006055 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832006056 catalytic triad [active] 504832006057 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504832006058 Peptidase family M23; Region: Peptidase_M23; pfam01551 504832006059 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 504832006060 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 504832006061 nucleoside/Zn binding site; other site 504832006062 dimer interface [polypeptide binding]; other site 504832006063 catalytic motif [active] 504832006064 peptide chain release factor 2; Provisional; Region: PRK07342 504832006065 This domain is found in peptide chain release factors; Region: PCRF; smart00937 504832006066 RF-1 domain; Region: RF-1; pfam00472 504832006067 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 504832006068 Transglycosylase; Region: Transgly; pfam00912 504832006069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504832006070 AMIN domain; Region: AMIN; pfam11741 504832006071 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504832006072 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 504832006073 active site 504832006074 metal binding site [ion binding]; metal-binding site 504832006075 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 504832006076 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 504832006077 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 504832006078 aspartate aminotransferase; Provisional; Region: PRK05764 504832006079 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 504832006080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832006081 homodimer interface [polypeptide binding]; other site 504832006082 catalytic residue [active] 504832006083 Peptidase family M48; Region: Peptidase_M48; cl12018 504832006084 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 504832006085 TPR motif; other site 504832006086 TPR repeat; Region: TPR_11; pfam13414 504832006087 binding surface 504832006088 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 504832006089 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 504832006090 catalytic residues [active] 504832006091 Dehydroquinase class II; Region: DHquinase_II; pfam01220 504832006092 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 504832006093 trimer interface [polypeptide binding]; other site 504832006094 active site 504832006095 dimer interface [polypeptide binding]; other site 504832006096 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 504832006097 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 504832006098 carboxyltransferase (CT) interaction site; other site 504832006099 biotinylation site [posttranslational modification]; other site 504832006100 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 504832006101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504832006102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504832006103 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 504832006104 CHASE3 domain; Region: CHASE3; pfam05227 504832006105 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 504832006106 dimer interface [polypeptide binding]; other site 504832006107 phosphorylation site [posttranslational modification] 504832006108 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832006109 ATP binding site [chemical binding]; other site 504832006110 Mg2+ binding site [ion binding]; other site 504832006111 G-X-G motif; other site 504832006112 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504832006113 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832006114 active site 504832006115 phosphorylation site [posttranslational modification] 504832006116 intermolecular recognition site; other site 504832006117 dimerization interface [polypeptide binding]; other site 504832006118 Response regulator receiver domain; Region: Response_reg; pfam00072 504832006119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832006120 active site 504832006121 phosphorylation site [posttranslational modification] 504832006122 intermolecular recognition site; other site 504832006123 dimerization interface [polypeptide binding]; other site 504832006124 Histidine kinase; Region: HisKA_2; pfam07568 504832006125 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 504832006126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832006127 ATP binding site [chemical binding]; other site 504832006128 Mg2+ binding site [ion binding]; other site 504832006129 G-X-G motif; other site 504832006130 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 504832006131 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 504832006132 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 504832006133 Competence protein; Region: Competence; pfam03772 504832006134 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 504832006135 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504832006136 active site 504832006137 HIGH motif; other site 504832006138 nucleotide binding site [chemical binding]; other site 504832006139 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 504832006140 KMSKS motif; other site 504832006141 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 504832006142 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 504832006143 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504832006144 HIGH motif; other site 504832006145 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504832006146 active site 504832006147 KMSKS motif; other site 504832006148 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 504832006149 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 504832006150 dimer interface [polypeptide binding]; other site 504832006151 active site 504832006152 citrylCoA binding site [chemical binding]; other site 504832006153 NADH binding [chemical binding]; other site 504832006154 cationic pore residues; other site 504832006155 oxalacetate/citrate binding site [chemical binding]; other site 504832006156 coenzyme A binding site [chemical binding]; other site 504832006157 catalytic triad [active] 504832006158 PAS domain; Region: PAS_9; pfam13426 504832006159 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832006160 putative active site [active] 504832006161 heme pocket [chemical binding]; other site 504832006162 HAMP domain; Region: HAMP; pfam00672 504832006163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832006164 dimer interface [polypeptide binding]; other site 504832006165 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 504832006166 putative CheW interface [polypeptide binding]; other site 504832006167 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 504832006168 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 504832006169 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 504832006170 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 504832006171 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 504832006172 active site 504832006173 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 504832006174 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 504832006175 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 504832006176 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 504832006177 trimer interface [polypeptide binding]; other site 504832006178 active site 504832006179 UDP-GlcNAc binding site [chemical binding]; other site 504832006180 lipid binding site [chemical binding]; lipid-binding site 504832006181 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 504832006182 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504832006183 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504832006184 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504832006185 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504832006186 Surface antigen; Region: Bac_surface_Ag; pfam01103 504832006187 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 504832006188 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 504832006189 active site 504832006190 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 504832006191 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 504832006192 putative substrate binding region [chemical binding]; other site 504832006193 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 504832006194 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 504832006195 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 504832006196 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 504832006197 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 504832006198 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 504832006199 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 504832006200 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 504832006201 catalytic residue [active] 504832006202 putative FPP diphosphate binding site; other site 504832006203 putative FPP binding hydrophobic cleft; other site 504832006204 dimer interface [polypeptide binding]; other site 504832006205 putative IPP diphosphate binding site; other site 504832006206 ribosome recycling factor; Reviewed; Region: frr; PRK00083 504832006207 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 504832006208 hinge region; other site 504832006209 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 504832006210 putative nucleotide binding site [chemical binding]; other site 504832006211 uridine monophosphate binding site [chemical binding]; other site 504832006212 homohexameric interface [polypeptide binding]; other site 504832006213 elongation factor Ts; Provisional; Region: tsf; PRK09377 504832006214 UBA/TS-N domain; Region: UBA; pfam00627 504832006215 Elongation factor TS; Region: EF_TS; pfam00889 504832006216 Elongation factor TS; Region: EF_TS; pfam00889 504832006217 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 504832006218 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 504832006219 rRNA interaction site [nucleotide binding]; other site 504832006220 S8 interaction site; other site 504832006221 putative laminin-1 binding site; other site 504832006222 Uncharacterized conserved protein [Function unknown]; Region: COG3743 504832006223 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 504832006224 Caspase domain; Region: Peptidase_C14; pfam00656 504832006225 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 504832006226 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 504832006227 putative active site [active] 504832006228 putative PHP Thumb interface [polypeptide binding]; other site 504832006229 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 504832006230 generic binding surface II; other site 504832006231 generic binding surface I; other site 504832006232 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 504832006233 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 504832006234 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504832006235 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504832006236 Walker A/P-loop; other site 504832006237 ATP binding site [chemical binding]; other site 504832006238 Q-loop/lid; other site 504832006239 ABC transporter signature motif; other site 504832006240 Walker B; other site 504832006241 D-loop; other site 504832006242 H-loop/switch region; other site 504832006243 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 504832006244 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504832006245 FtsX-like permease family; Region: FtsX; pfam02687 504832006246 prolyl-tRNA synthetase; Provisional; Region: PRK12325 504832006247 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 504832006248 dimer interface [polypeptide binding]; other site 504832006249 motif 1; other site 504832006250 active site 504832006251 motif 2; other site 504832006252 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 504832006253 active site 504832006254 motif 3; other site 504832006255 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 504832006256 anticodon binding site; other site 504832006257 Protein of unknown function (DUF461); Region: DUF461; pfam04314 504832006258 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 504832006259 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832006260 catalytic residues [active] 504832006261 BNR repeat-like domain; Region: BNR_2; pfam13088 504832006262 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832006263 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832006264 N-terminal plug; other site 504832006265 ligand-binding site [chemical binding]; other site 504832006266 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 504832006267 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 504832006268 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832006269 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 504832006270 dimer interface [polypeptide binding]; other site 504832006271 substrate binding site [chemical binding]; other site 504832006272 metal binding site [ion binding]; metal-binding site 504832006273 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 504832006274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504832006275 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 504832006276 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 504832006277 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 504832006278 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 504832006279 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 504832006280 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504832006281 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 504832006282 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504832006283 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 504832006284 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 504832006285 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504832006286 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 504832006287 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 504832006288 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 504832006289 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 504832006290 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 504832006291 4Fe-4S binding domain; Region: Fer4; cl02805 504832006292 4Fe-4S binding domain; Region: Fer4; pfam00037 504832006293 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 504832006294 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 504832006295 NADH dehydrogenase subunit G; Validated; Region: PRK09130 504832006296 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 504832006297 catalytic loop [active] 504832006298 iron binding site [ion binding]; other site 504832006299 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 504832006300 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 504832006301 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 504832006302 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 504832006303 SLBB domain; Region: SLBB; pfam10531 504832006304 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 504832006305 NADH dehydrogenase subunit E; Validated; Region: PRK07539 504832006306 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 504832006307 putative dimer interface [polypeptide binding]; other site 504832006308 [2Fe-2S] cluster binding site [ion binding]; other site 504832006309 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 504832006310 NADH dehydrogenase subunit D; Validated; Region: PRK06075 504832006311 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; cd03440 504832006312 active site 2 [active] 504832006313 active site 1 [active] 504832006314 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 504832006315 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 504832006316 NADH dehydrogenase subunit B; Validated; Region: PRK06411 504832006317 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 504832006318 tartrate dehydrogenase; Region: TTC; TIGR02089 504832006319 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504832006320 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 504832006321 IHF - DNA interface [nucleotide binding]; other site 504832006322 IHF dimer interface [polypeptide binding]; other site 504832006323 peptidase T; Region: peptidase-T; TIGR01882 504832006324 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 504832006325 metal binding site [ion binding]; metal-binding site 504832006326 dimer interface [polypeptide binding]; other site 504832006327 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832006328 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 504832006329 S-adenosylmethionine binding site [chemical binding]; other site 504832006330 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 504832006331 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504832006332 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504832006333 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 504832006334 Walker A motif; other site 504832006335 ATP binding site [chemical binding]; other site 504832006336 Walker B motif; other site 504832006337 arginine finger; other site 504832006338 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504832006339 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 504832006340 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 504832006341 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 504832006342 Walker A motif; other site 504832006343 ATP binding site [chemical binding]; other site 504832006344 Walker B motif; other site 504832006345 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504832006346 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 504832006347 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 504832006348 oligomer interface [polypeptide binding]; other site 504832006349 active site residues [active] 504832006350 trigger factor; Provisional; Region: tig; PRK01490 504832006351 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 504832006352 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 504832006353 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832006354 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504832006355 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832006356 Uncharacterized conserved protein [Function unknown]; Region: COG0062 504832006357 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 504832006358 putative substrate binding site [chemical binding]; other site 504832006359 putative ATP binding site [chemical binding]; other site 504832006360 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 504832006361 Nitrogen regulatory protein P-II; Region: P-II; smart00938 504832006362 glutamine synthetase; Provisional; Region: glnA; PRK09469 504832006363 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 504832006364 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504832006365 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 504832006366 Domain of unknown function DUF20; Region: UPF0118; pfam01594 504832006367 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 504832006368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832006369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832006370 metal binding site [ion binding]; metal-binding site 504832006371 active site 504832006372 I-site; other site 504832006373 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 504832006374 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 504832006375 23S rRNA interface [nucleotide binding]; other site 504832006376 L3 interface [polypeptide binding]; other site 504832006377 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 504832006378 CoenzymeA binding site [chemical binding]; other site 504832006379 subunit interaction site [polypeptide binding]; other site 504832006380 PHB binding site; other site 504832006381 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 504832006382 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 504832006383 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 504832006384 homodimer interface [polypeptide binding]; other site 504832006385 substrate-cofactor binding pocket; other site 504832006386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832006387 catalytic residue [active] 504832006388 Iron permease FTR1 family; Region: FTR1; cl00475 504832006389 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 504832006390 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 504832006391 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 504832006392 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 504832006393 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 504832006394 Chain length determinant protein; Region: Wzz; pfam02706 504832006395 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 504832006396 AAA domain; Region: AAA_31; pfam13614 504832006397 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 504832006398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832006399 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 504832006400 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 504832006401 Predicted permeases [General function prediction only]; Region: COG0795 504832006402 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504832006403 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 504832006404 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 504832006405 putative active site [active] 504832006406 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 504832006407 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 504832006408 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 504832006409 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 504832006410 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 504832006411 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504832006412 DNA binding residues [nucleotide binding] 504832006413 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 504832006414 IHF dimer interface [polypeptide binding]; other site 504832006415 IHF - DNA interface [nucleotide binding]; other site 504832006416 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 504832006417 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 504832006418 dimer interface [polypeptide binding]; other site 504832006419 active site 504832006420 CoA binding pocket [chemical binding]; other site 504832006421 putative phosphate acyltransferase; Provisional; Region: PRK05331 504832006422 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 504832006423 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 504832006424 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 504832006425 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 504832006426 Cupin domain; Region: Cupin_2; pfam07883 504832006427 Amino acid synthesis; Region: AA_synth; pfam06684 504832006428 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 504832006429 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 504832006430 putative substrate translocation pore; other site 504832006431 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 504832006432 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 504832006433 thiamine monophosphate kinase; Provisional; Region: PRK05731 504832006434 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 504832006435 ATP binding site [chemical binding]; other site 504832006436 dimerization interface [polypeptide binding]; other site 504832006437 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 504832006438 putative RNA binding site [nucleotide binding]; other site 504832006439 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 504832006440 homopentamer interface [polypeptide binding]; other site 504832006441 active site 504832006442 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 504832006443 Lumazine binding domain; Region: Lum_binding; pfam00677 504832006444 Lumazine binding domain; Region: Lum_binding; pfam00677 504832006445 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 504832006446 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 504832006447 catalytic motif [active] 504832006448 Zn binding site [ion binding]; other site 504832006449 RibD C-terminal domain; Region: RibD_C; cl17279 504832006450 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 504832006451 ATP cone domain; Region: ATP-cone; pfam03477 504832006452 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 504832006453 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 504832006454 dimer interface [polypeptide binding]; other site 504832006455 active site 504832006456 glycine-pyridoxal phosphate binding site [chemical binding]; other site 504832006457 folate binding site [chemical binding]; other site 504832006458 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504832006459 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 504832006460 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 504832006461 dimer interface [polypeptide binding]; other site 504832006462 allosteric magnesium binding site [ion binding]; other site 504832006463 active site 504832006464 aspartate-rich active site metal binding site; other site 504832006465 Schiff base residues; other site 504832006466 RDD family; Region: RDD; pfam06271 504832006467 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 504832006468 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 504832006469 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 504832006470 manganese transport protein MntH; Reviewed; Region: PRK00701 504832006471 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 504832006472 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 504832006473 homodimer interaction site [polypeptide binding]; other site 504832006474 cofactor binding site; other site 504832006475 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 504832006476 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 504832006477 CAP-like domain; other site 504832006478 active site 504832006479 primary dimer interface [polypeptide binding]; other site 504832006480 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 504832006481 Recombination protein O N terminal; Region: RecO_N; pfam11967 504832006482 Recombination protein O C terminal; Region: RecO_C; pfam02565 504832006483 GTPase Era; Reviewed; Region: era; PRK00089 504832006484 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 504832006485 G1 box; other site 504832006486 GTP/Mg2+ binding site [chemical binding]; other site 504832006487 Switch I region; other site 504832006488 G2 box; other site 504832006489 Switch II region; other site 504832006490 G3 box; other site 504832006491 G4 box; other site 504832006492 G5 box; other site 504832006493 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 504832006494 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 504832006495 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 504832006496 dimerization interface [polypeptide binding]; other site 504832006497 active site 504832006498 metal binding site [ion binding]; metal-binding site 504832006499 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 504832006500 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 504832006501 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 504832006502 Catalytic site [active] 504832006503 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 504832006504 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 504832006505 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 504832006506 active site 504832006507 hydrophilic channel; other site 504832006508 dimerization interface [polypeptide binding]; other site 504832006509 catalytic residues [active] 504832006510 active site lid [active] 504832006511 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 504832006512 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504832006513 Zn2+ binding site [ion binding]; other site 504832006514 Mg2+ binding site [ion binding]; other site 504832006515 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 504832006516 synthetase active site [active] 504832006517 NTP binding site [chemical binding]; other site 504832006518 metal binding site [ion binding]; metal-binding site 504832006519 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 504832006520 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 504832006521 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 504832006522 Uncharacterized conserved protein [Function unknown]; Region: COG1432 504832006523 LabA_like proteins; Region: LabA; cd10911 504832006524 putative metal binding site [ion binding]; other site 504832006525 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 504832006526 Fe-S cluster binding site [ion binding]; other site 504832006527 DNA binding site [nucleotide binding] 504832006528 active site 504832006529 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 504832006530 catalytic triad [active] 504832006531 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 504832006532 SmpB-tmRNA interface; other site 504832006533 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 504832006534 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 504832006535 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 504832006536 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 504832006537 dimer interface [polypeptide binding]; other site 504832006538 active site 504832006539 catalytic residue [active] 504832006540 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832006541 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 504832006542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832006543 catalytic residue [active] 504832006544 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504832006545 Porin subfamily; Region: Porin_2; pfam02530 504832006546 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 504832006547 trimer interface [polypeptide binding]; other site 504832006548 active site 504832006549 substrate binding site [chemical binding]; other site 504832006550 CoA binding site [chemical binding]; other site 504832006551 HTH-like domain; Region: HTH_21; pfam13276 504832006552 Integrase core domain; Region: rve; pfam00665 504832006553 Integrase core domain; Region: rve_3; pfam13683 504832006554 Transposase; Region: HTH_Tnp_1; cl17663 504832006555 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 504832006556 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 504832006557 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 504832006558 Bacterial sugar transferase; Region: Bac_transf; pfam02397 504832006559 H-NS histone family; Region: Histone_HNS; pfam00816 504832006560 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 504832006561 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 504832006562 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 504832006563 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 504832006564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504832006565 dimer interface [polypeptide binding]; other site 504832006566 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 504832006567 putative CheW interface [polypeptide binding]; other site 504832006568 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504832006569 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 504832006570 putative ligand binding site [chemical binding]; other site 504832006571 Isochorismatase family; Region: Isochorismatase; pfam00857 504832006572 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 504832006573 catalytic triad [active] 504832006574 dimer interface [polypeptide binding]; other site 504832006575 conserved cis-peptide bond; other site 504832006576 Pirin-related protein [General function prediction only]; Region: COG1741 504832006577 Pirin; Region: Pirin; pfam02678 504832006578 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 504832006579 LysR family transcriptional regulator; Provisional; Region: PRK14997 504832006580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832006581 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 504832006582 putative effector binding pocket; other site 504832006583 putative dimerization interface [polypeptide binding]; other site 504832006584 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 504832006585 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 504832006586 GatB domain; Region: GatB_Yqey; smart00845 504832006587 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 504832006588 active site 504832006589 nucleophile elbow; other site 504832006590 Chorismate mutase type II; Region: CM_2; smart00830 504832006591 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 504832006592 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 504832006593 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 504832006594 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 504832006595 CAAX protease self-immunity; Region: Abi; pfam02517 504832006596 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504832006597 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504832006598 active site 504832006599 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 504832006600 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504832006601 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504832006602 dihydroorotase; Validated; Region: PRK09059 504832006603 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 504832006604 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 504832006605 active site 504832006606 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 504832006607 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 504832006608 DNA protecting protein DprA; Region: dprA; TIGR00732 504832006609 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 504832006610 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 504832006611 active site 504832006612 interdomain interaction site; other site 504832006613 putative metal-binding site [ion binding]; other site 504832006614 nucleotide binding site [chemical binding]; other site 504832006615 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 504832006616 domain I; other site 504832006617 DNA binding groove [nucleotide binding] 504832006618 phosphate binding site [ion binding]; other site 504832006619 domain II; other site 504832006620 domain III; other site 504832006621 nucleotide binding site [chemical binding]; other site 504832006622 catalytic site [active] 504832006623 domain IV; other site 504832006624 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504832006625 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 504832006626 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 504832006627 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 504832006628 ribonuclease R; Region: RNase_R; TIGR02063 504832006629 RNB domain; Region: RNB; pfam00773 504832006630 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 504832006631 RNA binding site [nucleotide binding]; other site 504832006632 hypothetical protein; Provisional; Region: PRK05978 504832006633 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 504832006634 response regulator PleD; Reviewed; Region: pleD; PRK09581 504832006635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832006636 active site 504832006637 phosphorylation site [posttranslational modification] 504832006638 intermolecular recognition site; other site 504832006639 dimerization interface [polypeptide binding]; other site 504832006640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832006641 active site 504832006642 phosphorylation site [posttranslational modification] 504832006643 intermolecular recognition site; other site 504832006644 dimerization interface [polypeptide binding]; other site 504832006645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832006646 metal binding site [ion binding]; metal-binding site 504832006647 active site 504832006648 I-site; other site 504832006649 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504832006650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832006651 active site 504832006652 phosphorylation site [posttranslational modification] 504832006653 intermolecular recognition site; other site 504832006654 dimerization interface [polypeptide binding]; other site 504832006655 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 504832006656 DNA polymerase IV; Provisional; Region: PRK02794 504832006657 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 504832006658 active site 504832006659 DNA binding site [nucleotide binding] 504832006660 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 504832006661 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 504832006662 homotrimer interaction site [polypeptide binding]; other site 504832006663 putative active site [active] 504832006664 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 504832006665 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 504832006666 active site 504832006667 catalytic site [active] 504832006668 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 504832006669 Protein of unknown function, DUF482; Region: DUF482; pfam04339 504832006670 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832006671 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 504832006672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832006673 catalytic residue [active] 504832006674 Sporulation related domain; Region: SPOR; pfam05036 504832006675 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 504832006676 Clp amino terminal domain; Region: Clp_N; pfam02861 504832006677 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 504832006678 Walker A motif; other site 504832006679 ATP binding site [chemical binding]; other site 504832006680 Walker B motif; other site 504832006681 arginine finger; other site 504832006682 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 504832006683 Walker A motif; other site 504832006684 ATP binding site [chemical binding]; other site 504832006685 Walker B motif; other site 504832006686 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504832006687 Uncharacterized conserved protein [Function unknown]; Region: COG2127 504832006688 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 504832006689 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 504832006690 Phasin protein; Region: Phasin_2; pfam09361 504832006691 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 504832006692 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 504832006693 Sporulation related domain; Region: SPOR; pfam05036 504832006694 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 504832006695 HSP70 interaction site [polypeptide binding]; other site 504832006696 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504832006697 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 504832006698 nucleophilic elbow; other site 504832006699 catalytic triad; other site 504832006700 Pantoate-beta-alanine ligase; Region: PanC; cd00560 504832006701 pantoate--beta-alanine ligase; Region: panC; TIGR00018 504832006702 active site 504832006703 ATP-binding site [chemical binding]; other site 504832006704 pantoate-binding site; other site 504832006705 HXXH motif; other site 504832006706 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 504832006707 Histidine kinase N terminal; Region: HisK_N; pfam09385 504832006708 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832006709 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 504832006710 putative C-terminal domain interface [polypeptide binding]; other site 504832006711 putative GSH binding site (G-site) [chemical binding]; other site 504832006712 putative dimer interface [polypeptide binding]; other site 504832006713 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 504832006714 putative N-terminal domain interface [polypeptide binding]; other site 504832006715 putative dimer interface [polypeptide binding]; other site 504832006716 putative substrate binding pocket (H-site) [chemical binding]; other site 504832006717 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 504832006718 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504832006719 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 504832006720 putative active site [active] 504832006721 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 504832006722 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504832006723 active site 504832006724 catalytic tetrad [active] 504832006725 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 504832006726 non-specific DNA binding site [nucleotide binding]; other site 504832006727 salt bridge; other site 504832006728 sequence-specific DNA binding site [nucleotide binding]; other site 504832006729 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504832006730 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 504832006731 NodB motif; other site 504832006732 active site 504832006733 catalytic site [active] 504832006734 metal binding site [ion binding]; metal-binding site 504832006735 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504832006736 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 504832006737 NodB motif; other site 504832006738 active site 504832006739 catalytic site [active] 504832006740 metal binding site [ion binding]; metal-binding site 504832006741 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 504832006742 Zn binding residues [ion binding]; other site 504832006743 substrate binding site [chemical binding]; other site 504832006744 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504832006745 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504832006746 Dodecin; Region: Dodecin; pfam07311 504832006747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 504832006748 MOSC domain; Region: MOSC; pfam03473 504832006749 3-alpha domain; Region: 3-alpha; pfam03475 504832006750 hypothetical protein; Validated; Region: PRK06033 504832006751 lipoate-protein ligase B; Provisional; Region: PRK14341 504832006752 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_19; cd07262 504832006753 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832006754 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 504832006755 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 504832006756 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 504832006757 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 504832006758 dimer interface [polypeptide binding]; other site 504832006759 decamer (pentamer of dimers) interface [polypeptide binding]; other site 504832006760 catalytic triad [active] 504832006761 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 504832006762 DNA photolyase; Region: DNA_photolyase; pfam00875 504832006763 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 504832006764 EamA-like transporter family; Region: EamA; pfam00892 504832006765 EamA-like transporter family; Region: EamA; pfam00892 504832006766 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 504832006767 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 504832006768 substrate binding site [chemical binding]; other site 504832006769 catalytic Zn binding site [ion binding]; other site 504832006770 NAD binding site [chemical binding]; other site 504832006771 structural Zn binding site [ion binding]; other site 504832006772 dimer interface [polypeptide binding]; other site 504832006773 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504832006774 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 504832006775 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504832006776 MarR family; Region: MarR; pfam01047 504832006777 Predicted periplasmic protein [Function unknown]; Region: COG3904 504832006778 PilZ domain; Region: PilZ; pfam07238 504832006779 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 504832006780 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 504832006781 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 504832006782 cyclase homology domain; Region: CHD; cd07302 504832006783 nucleotidyl binding site; other site 504832006784 metal binding site [ion binding]; metal-binding site 504832006785 dimer interface [polypeptide binding]; other site 504832006786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832006787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832006788 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 504832006789 putative effector binding pocket; other site 504832006790 putative dimerization interface [polypeptide binding]; other site 504832006791 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 504832006792 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504832006793 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 504832006794 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 504832006795 NADH(P)-binding; Region: NAD_binding_10; pfam13460 504832006796 putative NAD(P) binding site [chemical binding]; other site 504832006797 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 504832006798 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 504832006799 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 504832006800 inhibitor site; inhibition site 504832006801 active site 504832006802 dimer interface [polypeptide binding]; other site 504832006803 catalytic residue [active] 504832006804 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 504832006805 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 504832006806 tetramer interface [polypeptide binding]; other site 504832006807 active site 504832006808 Mg2+/Mn2+ binding site [ion binding]; other site 504832006809 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 504832006810 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 504832006811 ATP12 chaperone protein; Region: ATP12; cl02228 504832006812 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 504832006813 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 504832006814 RNA binding surface [nucleotide binding]; other site 504832006815 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 504832006816 active site 504832006817 recombination factor protein RarA; Reviewed; Region: PRK13342 504832006818 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 504832006819 Walker A motif; other site 504832006820 ATP binding site [chemical binding]; other site 504832006821 Walker B motif; other site 504832006822 arginine finger; other site 504832006823 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 504832006824 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 504832006825 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504832006826 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832006827 protein binding site [polypeptide binding]; other site 504832006828 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832006829 protein binding site [polypeptide binding]; other site 504832006830 Predicted transcriptional regulators [Transcription]; Region: COG1733 504832006831 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 504832006832 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 504832006833 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 504832006834 putative NAD(P) binding site [chemical binding]; other site 504832006835 dimer interface [polypeptide binding]; other site 504832006836 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 504832006837 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504832006838 classical (c) SDRs; Region: SDR_c; cd05233 504832006839 NAD(P) binding site [chemical binding]; other site 504832006840 active site 504832006841 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 504832006842 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 504832006843 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 504832006844 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 504832006845 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 504832006846 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 504832006847 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 504832006848 alphaNTD - beta interaction site [polypeptide binding]; other site 504832006849 alphaNTD homodimer interface [polypeptide binding]; other site 504832006850 alphaNTD - beta' interaction site [polypeptide binding]; other site 504832006851 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 504832006852 30S ribosomal protein S11; Validated; Region: PRK05309 504832006853 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 504832006854 30S ribosomal protein S13; Region: bact_S13; TIGR03631 504832006855 adenylate kinase; Reviewed; Region: adk; PRK00279 504832006856 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 504832006857 AMP-binding site [chemical binding]; other site 504832006858 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 504832006859 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 504832006860 SecY translocase; Region: SecY; pfam00344 504832006861 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 504832006862 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 504832006863 23S rRNA binding site [nucleotide binding]; other site 504832006864 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 504832006865 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 504832006866 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 504832006867 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 504832006868 5S rRNA interface [nucleotide binding]; other site 504832006869 23S rRNA interface [nucleotide binding]; other site 504832006870 L5 interface [polypeptide binding]; other site 504832006871 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 504832006872 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504832006873 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504832006874 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 504832006875 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 504832006876 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 504832006877 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 504832006878 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 504832006879 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 504832006880 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 504832006881 RNA binding site [nucleotide binding]; other site 504832006882 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 504832006883 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 504832006884 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 504832006885 putative translocon interaction site; other site 504832006886 23S rRNA interface [nucleotide binding]; other site 504832006887 signal recognition particle (SRP54) interaction site; other site 504832006888 L23 interface [polypeptide binding]; other site 504832006889 trigger factor interaction site; other site 504832006890 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 504832006891 23S rRNA interface [nucleotide binding]; other site 504832006892 5S rRNA interface [nucleotide binding]; other site 504832006893 putative antibiotic binding site [chemical binding]; other site 504832006894 L25 interface [polypeptide binding]; other site 504832006895 L27 interface [polypeptide binding]; other site 504832006896 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 504832006897 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 504832006898 G-X-X-G motif; other site 504832006899 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 504832006900 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 504832006901 putative translocon binding site; other site 504832006902 protein-rRNA interface [nucleotide binding]; other site 504832006903 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 504832006904 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 504832006905 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 504832006906 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 504832006907 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 504832006908 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 504832006909 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 504832006910 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 504832006911 elongation factor Tu; Reviewed; Region: PRK00049 504832006912 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 504832006913 G1 box; other site 504832006914 GEF interaction site [polypeptide binding]; other site 504832006915 GTP/Mg2+ binding site [chemical binding]; other site 504832006916 Switch I region; other site 504832006917 G2 box; other site 504832006918 G3 box; other site 504832006919 Switch II region; other site 504832006920 G4 box; other site 504832006921 G5 box; other site 504832006922 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 504832006923 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 504832006924 Antibiotic Binding Site [chemical binding]; other site 504832006925 elongation factor G; Reviewed; Region: PRK00007 504832006926 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 504832006927 G1 box; other site 504832006928 putative GEF interaction site [polypeptide binding]; other site 504832006929 GTP/Mg2+ binding site [chemical binding]; other site 504832006930 Switch I region; other site 504832006931 G2 box; other site 504832006932 G3 box; other site 504832006933 Switch II region; other site 504832006934 G4 box; other site 504832006935 G5 box; other site 504832006936 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 504832006937 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 504832006938 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 504832006939 30S ribosomal protein S7; Validated; Region: PRK05302 504832006940 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 504832006941 S17 interaction site [polypeptide binding]; other site 504832006942 S8 interaction site; other site 504832006943 16S rRNA interaction site [nucleotide binding]; other site 504832006944 streptomycin interaction site [chemical binding]; other site 504832006945 23S rRNA interaction site [nucleotide binding]; other site 504832006946 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 504832006947 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 504832006948 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 504832006949 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504832006950 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 504832006951 active site 504832006952 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504832006953 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832006954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832006955 Walker A/P-loop; other site 504832006956 ATP binding site [chemical binding]; other site 504832006957 Q-loop/lid; other site 504832006958 ABC transporter signature motif; other site 504832006959 Walker B; other site 504832006960 D-loop; other site 504832006961 H-loop/switch region; other site 504832006962 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832006963 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 504832006964 Methyltransferase domain; Region: Methyltransf_11; pfam08241 504832006965 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 504832006966 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 504832006967 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 504832006968 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 504832006969 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 504832006970 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 504832006971 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 504832006972 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 504832006973 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 504832006974 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 504832006975 DNA binding site [nucleotide binding] 504832006976 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 504832006977 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 504832006978 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 504832006979 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 504832006980 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 504832006981 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 504832006982 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 504832006983 RPB3 interaction site [polypeptide binding]; other site 504832006984 RPB1 interaction site [polypeptide binding]; other site 504832006985 RPB11 interaction site [polypeptide binding]; other site 504832006986 RPB10 interaction site [polypeptide binding]; other site 504832006987 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 504832006988 core dimer interface [polypeptide binding]; other site 504832006989 peripheral dimer interface [polypeptide binding]; other site 504832006990 L10 interface [polypeptide binding]; other site 504832006991 L11 interface [polypeptide binding]; other site 504832006992 putative EF-Tu interaction site [polypeptide binding]; other site 504832006993 putative EF-G interaction site [polypeptide binding]; other site 504832006994 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 504832006995 23S rRNA interface [nucleotide binding]; other site 504832006996 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 504832006997 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 504832006998 mRNA/rRNA interface [nucleotide binding]; other site 504832006999 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 504832007000 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 504832007001 23S rRNA interface [nucleotide binding]; other site 504832007002 L7/L12 interface [polypeptide binding]; other site 504832007003 putative thiostrepton binding site; other site 504832007004 L25 interface [polypeptide binding]; other site 504832007005 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 504832007006 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 504832007007 putative homodimer interface [polypeptide binding]; other site 504832007008 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 504832007009 heterodimer interface [polypeptide binding]; other site 504832007010 homodimer interface [polypeptide binding]; other site 504832007011 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832007012 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 504832007013 active site 504832007014 metal binding site [ion binding]; metal-binding site 504832007015 HAMP domain; Region: HAMP; pfam00672 504832007016 dimerization interface [polypeptide binding]; other site 504832007017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 504832007018 HWE histidine kinase; Region: HWE_HK; pfam07536 504832007019 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 504832007020 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 504832007021 thermosome, various subunits, archaeal; Region: thermosome_arch; TIGR02339 504832007022 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504832007023 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504832007024 Walker A/P-loop; other site 504832007025 ATP binding site [chemical binding]; other site 504832007026 Q-loop/lid; other site 504832007027 ABC transporter signature motif; other site 504832007028 Walker B; other site 504832007029 D-loop; other site 504832007030 H-loop/switch region; other site 504832007031 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504832007032 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 504832007033 dimer interface [polypeptide binding]; other site 504832007034 conserved gate region; other site 504832007035 putative PBP binding loops; other site 504832007036 ABC-ATPase subunit interface; other site 504832007037 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 504832007038 NMT1-like family; Region: NMT1_2; pfam13379 504832007039 Predicted aconitase [General function prediction only]; Region: COG1679 504832007040 Protein of unknown function (DUF521); Region: DUF521; pfam04412 504832007041 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 504832007042 substrate binding site [chemical binding]; other site 504832007043 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 504832007044 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 504832007045 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 504832007046 metal ion-dependent adhesion site (MIDAS); other site 504832007047 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832007048 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 504832007049 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832007050 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 504832007051 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 504832007052 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 504832007053 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504832007054 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 504832007055 TspO/MBR family; Region: TspO_MBR; pfam03073 504832007056 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 504832007057 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832007058 N-terminal plug; other site 504832007059 ligand-binding site [chemical binding]; other site 504832007060 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 504832007061 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504832007062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832007063 active site 504832007064 phosphorylation site [posttranslational modification] 504832007065 intermolecular recognition site; other site 504832007066 dimerization interface [polypeptide binding]; other site 504832007067 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 504832007068 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 504832007069 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 504832007070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832007071 catalytic residue [active] 504832007072 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 504832007073 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 504832007074 GTP cyclohydrolase I; Provisional; Region: PLN03044 504832007075 active site 504832007076 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 504832007077 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 504832007078 trimerization site [polypeptide binding]; other site 504832007079 active site 504832007080 Predicted periplasmic protein [Function unknown]; Region: COG3904 504832007081 hypothetical protein; Validated; Region: PRK00041 504832007082 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504832007083 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 504832007084 catalytic loop [active] 504832007085 iron binding site [ion binding]; other site 504832007086 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504832007087 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504832007088 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 504832007089 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 504832007090 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504832007091 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504832007092 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 504832007093 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 504832007094 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504832007095 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 504832007096 active site 504832007097 dimer interface [polypeptide binding]; other site 504832007098 motif 1; other site 504832007099 motif 2; other site 504832007100 motif 3; other site 504832007101 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 504832007102 anticodon binding site; other site 504832007103 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 504832007104 putative FMN binding site [chemical binding]; other site 504832007105 hypothetical protein; Provisional; Region: PRK10279 504832007106 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 504832007107 nucleophile elbow; other site 504832007108 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 504832007109 FOG: CBS domain [General function prediction only]; Region: COG0517 504832007110 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 504832007111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 504832007112 PAS domain; Region: PAS_5; pfam07310 504832007113 TIGR02594 family protein; Region: TIGR02594 504832007114 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 504832007115 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 504832007116 Phage Tail Protein X; Region: Phage_tail_X; cl02088 504832007117 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 504832007118 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 504832007119 Phage tail tube protein FII; Region: Phage_tube; cl01390 504832007120 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 504832007121 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 504832007122 Baseplate J-like protein; Region: Baseplate_J; cl01294 504832007123 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 504832007124 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 504832007125 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 504832007126 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 504832007127 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 504832007128 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 504832007129 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 504832007130 tandem repeat interface [polypeptide binding]; other site 504832007131 oligomer interface [polypeptide binding]; other site 504832007132 active site residues [active] 504832007133 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 504832007134 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 504832007135 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 504832007136 Phosphopantetheine attachment site; Region: PP-binding; cl09936 504832007137 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 504832007138 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 504832007139 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 504832007140 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 504832007141 cofactor binding site; other site 504832007142 DNA binding site [nucleotide binding] 504832007143 substrate interaction site [chemical binding]; other site 504832007144 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 504832007145 Domain of unknown function DUF87; Region: DUF87; pfam01935 504832007146 HerA helicase [Replication, recombination, and repair]; Region: COG0433 504832007147 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 504832007148 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 504832007149 AAA domain; Region: AAA_25; pfam13481 504832007150 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 504832007151 ATP binding site [chemical binding]; other site 504832007152 Walker A motif; other site 504832007153 Walker B motif; other site 504832007154 DNA methylase; Region: N6_N4_Mtase; cl17433 504832007155 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 504832007156 GcrA cell cycle regulator; Region: GcrA; cl11564 504832007157 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 504832007158 RecT family; Region: RecT; pfam03837 504832007159 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 504832007160 RNA/DNA hybrid binding site [nucleotide binding]; other site 504832007161 active site 504832007162 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504832007163 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 504832007164 dimer interface [polypeptide binding]; other site 504832007165 ssDNA binding site [nucleotide binding]; other site 504832007166 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832007167 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 504832007168 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 504832007169 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 504832007170 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 504832007171 DNA binding site [nucleotide binding] 504832007172 Int/Topo IB signature motif; other site 504832007173 active site 504832007174 catalytic residues [active] 504832007175 PilZ domain; Region: PilZ; pfam07238 504832007176 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 504832007177 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 504832007178 active site 504832007179 oxyanion hole [active] 504832007180 catalytic triad [active] 504832007181 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504832007182 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 504832007183 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 504832007184 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 504832007185 putative active site [active] 504832007186 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 504832007187 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 504832007188 trimer interface [polypeptide binding]; other site 504832007189 putative metal binding site [ion binding]; other site 504832007190 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 504832007191 serine acetyltransferase; Provisional; Region: cysE; PRK11132 504832007192 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 504832007193 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 504832007194 trimer interface [polypeptide binding]; other site 504832007195 active site 504832007196 substrate binding site [chemical binding]; other site 504832007197 CoA binding site [chemical binding]; other site 504832007198 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504832007199 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504832007200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 504832007201 salicylate hydroxylase; Provisional; Region: PRK08163 504832007202 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504832007203 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504832007204 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504832007205 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 504832007206 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 504832007207 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 504832007208 putative NAD(P) binding site [chemical binding]; other site 504832007209 putative substrate binding site [chemical binding]; other site 504832007210 catalytic Zn binding site [ion binding]; other site 504832007211 structural Zn binding site [ion binding]; other site 504832007212 dimer interface [polypeptide binding]; other site 504832007213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504832007214 active site 504832007215 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 504832007216 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 504832007217 putative MPT binding site; other site 504832007218 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 504832007219 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 504832007220 active site 504832007221 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 504832007222 classical (c) SDRs; Region: SDR_c; cd05233 504832007223 NAD(P) binding site [chemical binding]; other site 504832007224 active site 504832007225 Usg-like family; Region: Usg; pfam06233 504832007226 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 504832007227 oligomerisation interface [polypeptide binding]; other site 504832007228 mobile loop; other site 504832007229 roof hairpin; other site 504832007230 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 504832007231 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 504832007232 ring oligomerisation interface [polypeptide binding]; other site 504832007233 ATP/Mg binding site [chemical binding]; other site 504832007234 stacking interactions; other site 504832007235 hinge regions; other site 504832007236 CHAT domain; Region: CHAT; cl17868 504832007237 MarR family; Region: MarR_2; cl17246 504832007238 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 504832007239 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 504832007240 substrate binding pocket [chemical binding]; other site 504832007241 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 504832007242 membrane-bound complex binding site; other site 504832007243 hinge residues; other site 504832007244 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 504832007245 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 504832007246 Uncharacterized conserved protein [Function unknown]; Region: COG2128 504832007247 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 504832007248 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 504832007249 Ligand binding site; other site 504832007250 Putative Catalytic site; other site 504832007251 DXD motif; other site 504832007252 Predicted membrane protein [Function unknown]; Region: COG2246 504832007253 GtrA-like protein; Region: GtrA; pfam04138 504832007254 Protein of unknown function DUF72; Region: DUF72; pfam01904 504832007255 Protein of unknown function, DUF488; Region: DUF488; pfam04343 504832007256 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 504832007257 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 504832007258 putative MPT binding site; other site 504832007259 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 504832007260 Ligand binding site; other site 504832007261 metal-binding site 504832007262 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504832007263 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504832007264 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504832007265 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 504832007266 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504832007267 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 504832007268 TM-ABC transporter signature motif; other site 504832007269 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 504832007270 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 504832007271 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 504832007272 TM-ABC transporter signature motif; other site 504832007273 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832007274 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832007275 Walker A/P-loop; other site 504832007276 ATP binding site [chemical binding]; other site 504832007277 Q-loop/lid; other site 504832007278 ABC transporter signature motif; other site 504832007279 Walker B; other site 504832007280 D-loop; other site 504832007281 H-loop/switch region; other site 504832007282 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832007283 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832007284 Walker A/P-loop; other site 504832007285 ATP binding site [chemical binding]; other site 504832007286 Q-loop/lid; other site 504832007287 ABC transporter signature motif; other site 504832007288 Walker B; other site 504832007289 D-loop; other site 504832007290 H-loop/switch region; other site 504832007291 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504832007292 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 504832007293 dimerization interface [polypeptide binding]; other site 504832007294 ligand binding site [chemical binding]; other site 504832007295 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504832007296 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 504832007297 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 504832007298 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 504832007299 cleavage site 504832007300 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 504832007301 TPR motif; other site 504832007302 binding surface 504832007303 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832007304 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832007305 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832007306 Cytochrome c; Region: Cytochrom_C; pfam00034 504832007307 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504832007308 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 504832007309 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832007310 KTSC domain; Region: KTSC; pfam13619 504832007311 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 504832007312 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 504832007313 EF-hand domain pair; Region: EF_hand_5; pfam13499 504832007314 Ca2+ binding site [ion binding]; other site 504832007315 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 504832007316 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 504832007317 substrate binding site [chemical binding]; other site 504832007318 hexamer interface [polypeptide binding]; other site 504832007319 metal binding site [ion binding]; metal-binding site 504832007320 adenylosuccinate lyase; Provisional; Region: PRK07492 504832007321 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 504832007322 tetramer interface [polypeptide binding]; other site 504832007323 active site 504832007324 Serine hydrolase; Region: Ser_hydrolase; pfam06821 504832007325 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504832007326 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 504832007327 glutamate racemase; Provisional; Region: PRK00865 504832007328 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 504832007329 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 504832007330 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 504832007331 RNA binding surface [nucleotide binding]; other site 504832007332 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 504832007333 putative GSH binding site [chemical binding]; other site 504832007334 catalytic residues [active] 504832007335 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 504832007336 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 504832007337 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 504832007338 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 504832007339 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 504832007340 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504832007341 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 504832007342 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 504832007343 dimerization interface [polypeptide binding]; other site 504832007344 ATP binding site [chemical binding]; other site 504832007345 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 504832007346 dimerization interface [polypeptide binding]; other site 504832007347 ATP binding site [chemical binding]; other site 504832007348 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 504832007349 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 504832007350 putative active site [active] 504832007351 catalytic triad [active] 504832007352 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 504832007353 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 504832007354 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 504832007355 ATP binding site [chemical binding]; other site 504832007356 active site 504832007357 substrate binding site [chemical binding]; other site 504832007358 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 504832007359 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832007360 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 504832007361 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 504832007362 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 504832007363 putative active site [active] 504832007364 isocitrate dehydrogenase; Validated; Region: PRK08299 504832007365 putative cation:proton antiport protein; Provisional; Region: PRK10669 504832007366 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 504832007367 TrkA-N domain; Region: TrkA_N; pfam02254 504832007368 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 504832007369 Ligand Binding Site [chemical binding]; other site 504832007370 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 504832007371 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 504832007372 motif 1; other site 504832007373 active site 504832007374 motif 2; other site 504832007375 motif 3; other site 504832007376 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504832007377 DHHA1 domain; Region: DHHA1; pfam02272 504832007378 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 504832007379 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 504832007380 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 504832007381 lipoyl attachment site [posttranslational modification]; other site 504832007382 glycine dehydrogenase; Provisional; Region: PRK05367 504832007383 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 504832007384 tetramer interface [polypeptide binding]; other site 504832007385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832007386 catalytic residue [active] 504832007387 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 504832007388 tetramer interface [polypeptide binding]; other site 504832007389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832007390 catalytic residue [active] 504832007391 recombinase A; Provisional; Region: recA; PRK09354 504832007392 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 504832007393 hexamer interface [polypeptide binding]; other site 504832007394 Walker A motif; other site 504832007395 ATP binding site [chemical binding]; other site 504832007396 Walker B motif; other site 504832007397 hypothetical protein; Provisional; Region: PRK02237 504832007398 camphor resistance protein CrcB; Provisional; Region: PRK14195 504832007399 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 504832007400 LTXXQ motif family protein; Region: LTXXQ; pfam07813 504832007401 LTXXQ motif family protein; Region: LTXXQ; pfam07813 504832007402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 504832007403 Cupin-like domain; Region: Cupin_8; pfam13621 504832007404 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 504832007405 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 504832007406 catalytic residues [active] 504832007407 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 504832007408 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 504832007409 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 504832007410 putative substrate translocation pore; other site 504832007411 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 504832007412 putative hydrophobic ligand binding site [chemical binding]; other site 504832007413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832007414 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 504832007415 dimer interface [polypeptide binding]; other site 504832007416 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 504832007417 putative hydrophobic ligand binding site [chemical binding]; other site 504832007418 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 504832007419 dimerization interface [polypeptide binding]; other site 504832007420 putative DNA binding site [nucleotide binding]; other site 504832007421 putative Zn2+ binding site [ion binding]; other site 504832007422 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 504832007423 putative C-terminal domain interface [polypeptide binding]; other site 504832007424 putative GSH binding site (G-site) [chemical binding]; other site 504832007425 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 504832007426 putative dimer interface [polypeptide binding]; other site 504832007427 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 504832007428 dimer interface [polypeptide binding]; other site 504832007429 N-terminal domain interface [polypeptide binding]; other site 504832007430 putative substrate binding pocket (H-site) [chemical binding]; other site 504832007431 fumarate hydratase; Provisional; Region: PRK15389 504832007432 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 504832007433 Fumarase C-terminus; Region: Fumerase_C; pfam05683 504832007434 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 504832007435 dimer interface [polypeptide binding]; other site 504832007436 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504832007437 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504832007438 glutathione s-transferase; Provisional; Region: PTZ00057 504832007439 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 504832007440 dimer interface [polypeptide binding]; other site 504832007441 N-terminal domain interface [polypeptide binding]; other site 504832007442 substrate binding pocket (H-site) [chemical binding]; other site 504832007443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 504832007444 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832007445 PAS domain; Region: PAS_9; pfam13426 504832007446 putative active site [active] 504832007447 heme pocket [chemical binding]; other site 504832007448 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 504832007449 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 504832007450 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832007451 putative active site [active] 504832007452 heme pocket [chemical binding]; other site 504832007453 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832007454 dimer interface [polypeptide binding]; other site 504832007455 phosphorylation site [posttranslational modification] 504832007456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832007457 ATP binding site [chemical binding]; other site 504832007458 Mg2+ binding site [ion binding]; other site 504832007459 G-X-G motif; other site 504832007460 Response regulator receiver domain; Region: Response_reg; pfam00072 504832007461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832007462 active site 504832007463 phosphorylation site [posttranslational modification] 504832007464 intermolecular recognition site; other site 504832007465 dimerization interface [polypeptide binding]; other site 504832007466 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 504832007467 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 504832007468 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 504832007469 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 504832007470 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 504832007471 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 504832007472 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 504832007473 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 504832007474 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 504832007475 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 504832007476 Uncharacterized conserved protein [Function unknown]; Region: COG3334 504832007477 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 504832007478 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 504832007479 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 504832007480 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 504832007481 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 504832007482 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 504832007483 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 504832007484 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 504832007485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 504832007486 SAF-like; Region: SAF_2; pfam13144 504832007487 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 504832007488 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 504832007489 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 504832007490 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 504832007491 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 504832007492 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 504832007493 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 504832007494 chemotactic signal-response protein CheL; Provisional; Region: PRK12790 504832007495 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 504832007496 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 504832007497 TPR repeat; Region: TPR_11; pfam13414 504832007498 binding surface 504832007499 TPR motif; other site 504832007500 TPR repeat; Region: TPR_11; pfam13414 504832007501 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 504832007502 binding surface 504832007503 TPR motif; other site 504832007504 TPR repeat; Region: TPR_11; pfam13414 504832007505 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 504832007506 binding surface 504832007507 TPR motif; other site 504832007508 TPR repeat; Region: TPR_11; pfam13414 504832007509 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 504832007510 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 504832007511 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK12791 504832007512 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 504832007513 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 504832007514 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 504832007515 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 504832007516 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 504832007517 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 504832007518 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 504832007519 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 504832007520 methionine sulfoxide reductase B; Provisional; Region: PRK00222 504832007521 SelR domain; Region: SelR; pfam01641 504832007522 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 504832007523 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504832007524 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 504832007525 catalytic core [active] 504832007526 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 504832007527 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 504832007528 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 504832007529 non-specific DNA binding site [nucleotide binding]; other site 504832007530 salt bridge; other site 504832007531 sequence-specific DNA binding site [nucleotide binding]; other site 504832007532 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 504832007533 dimerization interface [polypeptide binding]; other site 504832007534 metal binding site [ion binding]; metal-binding site 504832007535 Predicted integral membrane protein [Function unknown]; Region: COG0392 504832007536 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 504832007537 oxyanion hole [active] 504832007538 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 504832007539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832007540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832007541 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 504832007542 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 504832007543 catalytic loop [active] 504832007544 iron binding site [ion binding]; other site 504832007545 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 504832007546 putative binding surface; other site 504832007547 active site 504832007548 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 504832007549 Glucokinase; Region: Glucokinase; cl17310 504832007550 glucokinase, proteobacterial type; Region: glk; TIGR00749 504832007551 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 504832007552 mce related protein; Region: MCE; pfam02470 504832007553 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 504832007554 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 504832007555 Walker A/P-loop; other site 504832007556 ATP binding site [chemical binding]; other site 504832007557 Q-loop/lid; other site 504832007558 ABC transporter signature motif; other site 504832007559 Walker B; other site 504832007560 D-loop; other site 504832007561 H-loop/switch region; other site 504832007562 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 504832007563 anti sigma factor interaction site; other site 504832007564 regulatory phosphorylation site [posttranslational modification]; other site 504832007565 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 504832007566 Permease; Region: Permease; pfam02405 504832007567 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 504832007568 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 504832007569 active site 504832007570 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 504832007571 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 504832007572 tetramer interface [polypeptide binding]; other site 504832007573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832007574 catalytic residue [active] 504832007575 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504832007576 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 504832007577 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832007578 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 504832007579 putative active site [active] 504832007580 putative metal binding site [ion binding]; other site 504832007581 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 504832007582 S-adenosylmethionine binding site [chemical binding]; other site 504832007583 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 504832007584 dimer interface [polypeptide binding]; other site 504832007585 substrate binding site [chemical binding]; other site 504832007586 ATP binding site [chemical binding]; other site 504832007587 CHRD domain; Region: CHRD; pfam07452 504832007588 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 504832007589 MviN-like protein; Region: MVIN; pfam03023 504832007590 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 504832007591 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 504832007592 inhibitor-cofactor binding pocket; inhibition site 504832007593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832007594 catalytic residue [active] 504832007595 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504832007596 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504832007597 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504832007598 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 504832007599 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 504832007600 Substrate binding site; other site 504832007601 Cupin domain; Region: Cupin_2; cl17218 504832007602 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504832007603 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 504832007604 putative NAD(P) binding site [chemical binding]; other site 504832007605 active site 504832007606 putative substrate binding site [chemical binding]; other site 504832007607 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 504832007608 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 504832007609 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 504832007610 putative ribose interaction site [chemical binding]; other site 504832007611 putative ADP binding site [chemical binding]; other site 504832007612 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 504832007613 active site 504832007614 nucleotide binding site [chemical binding]; other site 504832007615 HIGH motif; other site 504832007616 KMSKS motif; other site 504832007617 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 504832007618 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 504832007619 NADP binding site [chemical binding]; other site 504832007620 homopentamer interface [polypeptide binding]; other site 504832007621 substrate binding site [chemical binding]; other site 504832007622 active site 504832007623 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 504832007624 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 504832007625 putative active site [active] 504832007626 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 504832007627 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 504832007628 dimer interface [polypeptide binding]; other site 504832007629 active site 504832007630 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 504832007631 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 504832007632 active site 504832007633 motif I; other site 504832007634 motif II; other site 504832007635 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 504832007636 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 504832007637 putative active site [active] 504832007638 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 504832007639 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 504832007640 NAD binding site [chemical binding]; other site 504832007641 homodimer interface [polypeptide binding]; other site 504832007642 active site 504832007643 substrate binding site [chemical binding]; other site 504832007644 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504832007645 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832007646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832007647 Walker A/P-loop; other site 504832007648 ATP binding site [chemical binding]; other site 504832007649 Q-loop/lid; other site 504832007650 ABC transporter signature motif; other site 504832007651 Walker B; other site 504832007652 D-loop; other site 504832007653 H-loop/switch region; other site 504832007654 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 504832007655 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504832007656 Cupin domain; Region: Cupin_2; pfam07883 504832007657 Protein of unknown function, DUF606; Region: DUF606; pfam04657 504832007658 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 504832007659 DNA-binding site [nucleotide binding]; DNA binding site 504832007660 RNA-binding motif; other site 504832007661 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 504832007662 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 504832007663 homotetramer interface [polypeptide binding]; other site 504832007664 ligand binding site [chemical binding]; other site 504832007665 catalytic site [active] 504832007666 NAD binding site [chemical binding]; other site 504832007667 S-adenosylmethionine synthetase; Validated; Region: PRK05250 504832007668 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 504832007669 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 504832007670 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 504832007671 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832007672 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504832007673 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 504832007674 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 504832007675 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 504832007676 putative active site [active] 504832007677 putative substrate binding site [chemical binding]; other site 504832007678 putative cosubstrate binding site; other site 504832007679 catalytic site [active] 504832007680 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 504832007681 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 504832007682 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 504832007683 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 504832007684 Cl- selectivity filter; other site 504832007685 Cl- binding residues [ion binding]; other site 504832007686 pore gating glutamate residue; other site 504832007687 dimer interface [polypeptide binding]; other site 504832007688 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 504832007689 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504832007690 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 504832007691 nucleophilic elbow; other site 504832007692 catalytic triad; other site 504832007693 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 504832007694 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504832007695 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 504832007696 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504832007697 acyl-activating enzyme (AAE) consensus motif; other site 504832007698 AMP binding site [chemical binding]; other site 504832007699 active site 504832007700 CoA binding site [chemical binding]; other site 504832007701 enterobactin exporter EntS; Provisional; Region: PRK10489 504832007702 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 504832007703 putative substrate translocation pore; other site 504832007704 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 504832007705 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832007706 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504832007707 FAD binding domain; Region: FAD_binding_4; pfam01565 504832007708 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504832007709 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504832007710 DNA-binding site [nucleotide binding]; DNA binding site 504832007711 FCD domain; Region: FCD; pfam07729 504832007712 DctM-like transporters; Region: DctM; pfam06808 504832007713 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 504832007714 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 504832007715 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 504832007716 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 504832007717 2-isopropylmalate synthase; Validated; Region: PRK00915 504832007718 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 504832007719 active site 504832007720 catalytic residues [active] 504832007721 metal binding site [ion binding]; metal-binding site 504832007722 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504832007723 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 504832007724 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 504832007725 substrate binding site [chemical binding]; other site 504832007726 ketol-acid reductoisomerase; Provisional; Region: PRK05479 504832007727 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 504832007728 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 504832007729 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 504832007730 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 504832007731 putative valine binding site [chemical binding]; other site 504832007732 dimer interface [polypeptide binding]; other site 504832007733 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 504832007734 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 504832007735 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504832007736 PYR/PP interface [polypeptide binding]; other site 504832007737 dimer interface [polypeptide binding]; other site 504832007738 TPP binding site [chemical binding]; other site 504832007739 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504832007740 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 504832007741 TPP-binding site [chemical binding]; other site 504832007742 dimer interface [polypeptide binding]; other site 504832007743 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 504832007744 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832007745 molybdopterin cofactor binding site; other site 504832007746 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 504832007747 molybdopterin cofactor binding site; other site 504832007748 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 504832007749 putative dimer interface [polypeptide binding]; other site 504832007750 [2Fe-2S] cluster binding site [ion binding]; other site 504832007751 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 504832007752 SLBB domain; Region: SLBB; pfam10531 504832007753 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 504832007754 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 504832007755 catalytic loop [active] 504832007756 iron binding site [ion binding]; other site 504832007757 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 504832007758 4Fe-4S binding domain; Region: Fer4; pfam00037 504832007759 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 504832007760 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832007761 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 504832007762 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 504832007763 G1 box; other site 504832007764 GTP/Mg2+ binding site [chemical binding]; other site 504832007765 G2 box; other site 504832007766 Switch I region; other site 504832007767 G3 box; other site 504832007768 Switch II region; other site 504832007769 G4 box; other site 504832007770 G5 box; other site 504832007771 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 504832007772 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 504832007773 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 504832007774 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 504832007775 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 504832007776 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 504832007777 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 504832007778 motif II; other site 504832007779 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 504832007780 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504832007781 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832007782 protein binding site [polypeptide binding]; other site 504832007783 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 504832007784 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 504832007785 HflC protein; Region: hflC; TIGR01932 504832007786 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 504832007787 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 504832007788 HflK protein; Region: hflK; TIGR01933 504832007789 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 504832007790 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 504832007791 folate binding site [chemical binding]; other site 504832007792 NADP+ binding site [chemical binding]; other site 504832007793 thymidylate synthase; Reviewed; Region: thyA; PRK01827 504832007794 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 504832007795 dimerization interface [polypeptide binding]; other site 504832007796 active site 504832007797 Stringent starvation protein B; Region: SspB; pfam04386 504832007798 fumarate hydratase; Reviewed; Region: fumC; PRK00485 504832007799 Class II fumarases; Region: Fumarase_classII; cd01362 504832007800 active site 504832007801 tetramer interface [polypeptide binding]; other site 504832007802 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 504832007803 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 504832007804 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 504832007805 AsmA family; Region: AsmA; pfam05170 504832007806 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 504832007807 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504832007808 FAD binding domain; Region: FAD_binding_4; pfam01565 504832007809 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 504832007810 Part of AAA domain; Region: AAA_19; pfam13245 504832007811 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 504832007812 Family description; Region: UvrD_C_2; pfam13538 504832007813 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504832007814 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504832007815 Walker A/P-loop; other site 504832007816 ATP binding site [chemical binding]; other site 504832007817 Q-loop/lid; other site 504832007818 ABC transporter signature motif; other site 504832007819 Walker B; other site 504832007820 D-loop; other site 504832007821 H-loop/switch region; other site 504832007822 ABC-2 type transporter; Region: ABC2_membrane; cl17235 504832007823 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 504832007824 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832007825 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 504832007826 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504832007827 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 504832007828 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 504832007829 S-adenosylmethionine binding site [chemical binding]; other site 504832007830 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504832007831 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504832007832 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504832007833 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 504832007834 active site 504832007835 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 504832007836 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 504832007837 nucleotide binding pocket [chemical binding]; other site 504832007838 K-X-D-G motif; other site 504832007839 catalytic site [active] 504832007840 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 504832007841 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 504832007842 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 504832007843 Dimer interface [polypeptide binding]; other site 504832007844 BRCT sequence motif; other site 504832007845 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 504832007846 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504832007847 Walker A/P-loop; other site 504832007848 ATP binding site [chemical binding]; other site 504832007849 Q-loop/lid; other site 504832007850 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504832007851 ABC transporter signature motif; other site 504832007852 Walker B; other site 504832007853 D-loop; other site 504832007854 H-loop/switch region; other site 504832007855 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 504832007856 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 504832007857 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 504832007858 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 504832007859 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 504832007860 nucleotide binding site [chemical binding]; other site 504832007861 SulA interaction site; other site 504832007862 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 504832007863 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 504832007864 Cell division protein FtsA; Region: FtsA; smart00842 504832007865 Cell division protein FtsA; Region: FtsA; pfam14450 504832007866 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 504832007867 Cell division protein FtsQ; Region: FtsQ; pfam03799 504832007868 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 504832007869 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 504832007870 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504832007871 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 504832007872 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 504832007873 FAD binding domain; Region: FAD_binding_4; pfam01565 504832007874 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 504832007875 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 504832007876 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504832007877 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504832007878 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504832007879 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 504832007880 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 504832007881 active site 504832007882 homodimer interface [polypeptide binding]; other site 504832007883 cell division protein FtsW; Region: ftsW; TIGR02614 504832007884 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 504832007885 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504832007886 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504832007887 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 504832007888 GIY-YIG motif/motif A; other site 504832007889 putative active site [active] 504832007890 putative metal binding site [ion binding]; other site 504832007891 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 504832007892 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 504832007893 Mg++ binding site [ion binding]; other site 504832007894 putative catalytic motif [active] 504832007895 putative substrate binding site [chemical binding]; other site 504832007896 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 504832007897 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504832007898 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504832007899 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 504832007900 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504832007901 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504832007902 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504832007903 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 504832007904 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 504832007905 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504832007906 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 504832007907 MraW methylase family; Region: Methyltransf_5; cl17771 504832007908 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 504832007909 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 504832007910 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 504832007911 amidase catalytic site [active] 504832007912 Zn binding residues [ion binding]; other site 504832007913 substrate binding site [chemical binding]; other site 504832007914 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832007915 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 504832007916 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 504832007917 putative substrate translocation pore; other site 504832007918 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 504832007919 putative substrate translocation pore; other site 504832007920 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 504832007921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832007922 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832007923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832007924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832007925 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 504832007926 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 504832007927 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 504832007928 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832007929 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 504832007930 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832007931 catalytic residue [active] 504832007932 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 504832007933 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 504832007934 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832007935 substrate binding site [chemical binding]; other site 504832007936 oxyanion hole (OAH) forming residues; other site 504832007937 trimer interface [polypeptide binding]; other site 504832007938 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504832007939 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504832007940 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 504832007941 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 504832007942 dimer interface [polypeptide binding]; other site 504832007943 active site 504832007944 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 504832007945 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504832007946 active site 504832007947 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 504832007948 CsbD-like; Region: CsbD; pfam05532 504832007949 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504832007950 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504832007951 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 504832007952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832007953 catalytic residue [active] 504832007954 oxo-acid-lyase/anthranilate synthase; Region: PLN02889 504832007955 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 504832007956 glutamine binding [chemical binding]; other site 504832007957 catalytic triad [active] 504832007958 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 504832007959 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 504832007960 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 504832007961 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 504832007962 Walker A motif; other site 504832007963 ATP binding site [chemical binding]; other site 504832007964 Walker B motif; other site 504832007965 arginine finger; other site 504832007966 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 504832007967 flagellar motor switch protein; Reviewed; Region: PRK08916 504832007968 flagellar assembly protein H; Validated; Region: fliH; PRK06032 504832007969 Flagellar assembly protein FliH; Region: FliH; pfam02108 504832007970 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 504832007971 FliG C-terminal domain; Region: FliG_C; pfam01706 504832007972 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 504832007973 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 504832007974 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 504832007975 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 504832007976 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 504832007977 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 504832007978 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 504832007979 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 504832007980 Ligand Binding Site [chemical binding]; other site 504832007981 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 504832007982 S-adenosylmethionine binding site [chemical binding]; other site 504832007983 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504832007984 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 504832007985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832007986 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832007987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504832007988 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 504832007989 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504832007990 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 504832007991 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 504832007992 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 504832007993 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 504832007994 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504832007995 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 504832007996 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 504832007997 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 504832007998 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 504832007999 Ligand Binding Site [chemical binding]; other site 504832008000 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 504832008001 Ligand Binding Site [chemical binding]; other site 504832008002 Putative transcription activator [Transcription]; Region: TenA; COG0819 504832008003 Domain of unknown function (DUF336); Region: DUF336; pfam03928 504832008004 DsrE/DsrF-like family; Region: DrsE; pfam02635 504832008005 DsrE/DsrF-like family; Region: DrsE; pfam02635 504832008006 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 504832008007 active site 504832008008 metal binding site [ion binding]; metal-binding site 504832008009 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 504832008010 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 504832008011 Phosphatidylinositol-glycan biosynthesis class S protein; Region: PIG-S; pfam10510 504832008012 Cytochrome c [Energy production and conversion]; Region: COG3258 504832008013 Cytochrome c [Energy production and conversion]; Region: COG3258 504832008014 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 504832008015 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 504832008016 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 504832008017 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504832008018 Cytochrome c; Region: Cytochrom_C; pfam00034 504832008019 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 504832008020 Moco binding site; other site 504832008021 metal coordination site [ion binding]; other site 504832008022 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 504832008023 dimerization interface [polypeptide binding]; other site 504832008024 putative DNA binding site [nucleotide binding]; other site 504832008025 putative Zn2+ binding site [ion binding]; other site 504832008026 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504832008027 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 504832008028 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 504832008029 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 504832008030 putative active site [active] 504832008031 putative PHP Thumb interface [polypeptide binding]; other site 504832008032 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 504832008033 generic binding surface I; other site 504832008034 generic binding surface II; other site 504832008035 DNA Polymerase Y-family; Region: PolY_like; cd03468 504832008036 active site 504832008037 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 504832008038 DNA binding site [nucleotide binding] 504832008039 Uncharacterized conserved protein [Function unknown]; Region: COG4544 504832008040 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 504832008041 Fe-S cluster binding site [ion binding]; other site 504832008042 active site 504832008043 ATP-dependent DNA ligase; Validated; Region: PRK09247 504832008044 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 504832008045 active site 504832008046 DNA binding site [nucleotide binding] 504832008047 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 504832008048 DNA binding site [nucleotide binding] 504832008049 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 504832008050 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504832008051 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 504832008052 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 504832008053 ATP binding site [chemical binding]; other site 504832008054 putative Mg++ binding site [ion binding]; other site 504832008055 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 504832008056 nucleotide binding region [chemical binding]; other site 504832008057 ATP-binding site [chemical binding]; other site 504832008058 DEAD/H associated; Region: DEAD_assoc; pfam08494 504832008059 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504832008060 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 504832008061 putative active site [active] 504832008062 putative metal binding site [ion binding]; other site 504832008063 selenophosphate synthetase; Provisional; Region: PRK00943 504832008064 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 504832008065 dimerization interface [polypeptide binding]; other site 504832008066 putative ATP binding site [chemical binding]; other site 504832008067 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 504832008068 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 504832008069 G1 box; other site 504832008070 putative GEF interaction site [polypeptide binding]; other site 504832008071 GTP/Mg2+ binding site [chemical binding]; other site 504832008072 Switch I region; other site 504832008073 G2 box; other site 504832008074 G3 box; other site 504832008075 Switch II region; other site 504832008076 G4 box; other site 504832008077 G5 box; other site 504832008078 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 504832008079 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 504832008080 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 504832008081 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 504832008082 potential RNA location (tRNA-U) that overlaps protein (selenocysteine-specific elongation factor SelB [Oligotropha carboxidovorans OM5]) 504832008083 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 504832008084 Sel1-like repeats; Region: SEL1; smart00671 504832008085 Sel1-like repeats; Region: SEL1; smart00671 504832008086 selenocysteine synthase; Provisional; Region: PRK04311 504832008087 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 504832008088 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 504832008089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504832008090 catalytic residue [active] 504832008091 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 504832008092 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 504832008093 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 504832008094 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 504832008095 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 504832008096 4Fe-4S binding domain; Region: Fer4; cl02805 504832008097 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 504832008098 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 504832008099 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008100 molybdopterin cofactor binding site; other site 504832008101 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008102 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008103 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 504832008104 molybdopterin cofactor binding site; other site 504832008105 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 504832008106 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832008107 catalytic residues [active] 504832008108 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 504832008109 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 504832008110 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 504832008111 Transcriptional regulator; Region: Rrf2; cl17282 504832008112 Rrf2 family protein; Region: rrf2_super; TIGR00738 504832008113 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 504832008114 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 504832008115 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 504832008116 AAA domain; Region: AAA_30; pfam13604 504832008117 Walker A motif; other site 504832008118 ATP binding site [chemical binding]; other site 504832008119 Family description; Region: UvrD_C_2; pfam13538 504832008120 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 504832008121 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832008122 methionine sulfoxide reductase A; Provisional; Region: PRK13014 504832008123 methionine sulfoxide reductase B; Provisional; Region: PRK00222 504832008124 SelR domain; Region: SelR; pfam01641 504832008125 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 504832008126 Transglycosylase SLT domain; Region: SLT_2; pfam13406 504832008127 murein hydrolase B; Provisional; Region: PRK10760; cl17906 504832008128 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 504832008129 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 504832008130 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 504832008131 gating phenylalanine in ion channel; other site 504832008132 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 504832008133 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 504832008134 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 504832008135 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 504832008136 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832008137 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 504832008138 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 504832008139 DNA binding residues [nucleotide binding] 504832008140 DNA primase; Validated; Region: dnaG; PRK05667 504832008141 CHC2 zinc finger; Region: zf-CHC2; pfam01807 504832008142 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 504832008143 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 504832008144 active site 504832008145 metal binding site [ion binding]; metal-binding site 504832008146 interdomain interaction site; other site 504832008147 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 504832008148 N-formylglutamate amidohydrolase; Region: FGase; cl01522 504832008149 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 504832008150 dimerization interface [polypeptide binding]; other site 504832008151 putative DNA binding site [nucleotide binding]; other site 504832008152 putative Zn2+ binding site [ion binding]; other site 504832008153 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 504832008154 putative hydrophobic ligand binding site [chemical binding]; other site 504832008155 Yqey-like protein; Region: YqeY; pfam09424 504832008156 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 504832008157 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 504832008158 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 504832008159 catalytic site [active] 504832008160 subunit interface [polypeptide binding]; other site 504832008161 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 504832008162 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 504832008163 dimerization interface [polypeptide binding]; other site 504832008164 DPS ferroxidase diiron center [ion binding]; other site 504832008165 ion pore; other site 504832008166 Methyltransferase domain; Region: Methyltransf_23; pfam13489 504832008167 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 504832008168 S-adenosylmethionine binding site [chemical binding]; other site 504832008169 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 504832008170 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504832008171 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504832008172 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 504832008173 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504832008174 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504832008175 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 504832008176 IMP binding site; other site 504832008177 dimer interface [polypeptide binding]; other site 504832008178 interdomain contacts; other site 504832008179 partial ornithine binding site; other site 504832008180 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 504832008181 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 504832008182 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504832008183 Predicted membrane protein [Function unknown]; Region: COG2259 504832008184 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832008185 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504832008186 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 504832008187 putative DNA binding site [nucleotide binding]; other site 504832008188 putative Zn2+ binding site [ion binding]; other site 504832008189 AsnC family; Region: AsnC_trans_reg; pfam01037 504832008190 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 504832008191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832008192 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832008193 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832008194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832008195 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 504832008196 putative effector binding pocket; other site 504832008197 dimerization interface [polypeptide binding]; other site 504832008198 Phasin protein; Region: Phasin_2; cl11491 504832008199 Phasin protein; Region: Phasin_2; cl11491 504832008200 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 504832008201 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832008202 putative active site [active] 504832008203 heme pocket [chemical binding]; other site 504832008204 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832008205 dimer interface [polypeptide binding]; other site 504832008206 phosphorylation site [posttranslational modification] 504832008207 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832008208 ATP binding site [chemical binding]; other site 504832008209 Mg2+ binding site [ion binding]; other site 504832008210 G-X-G motif; other site 504832008211 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 504832008212 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504832008213 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504832008214 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 504832008215 dimer interface [polypeptide binding]; other site 504832008216 conserved gate region; other site 504832008217 putative PBP binding loops; other site 504832008218 ABC-ATPase subunit interface; other site 504832008219 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 504832008220 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 504832008221 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 504832008222 AsmA family; Region: AsmA; pfam05170 504832008223 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 504832008224 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504832008225 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 504832008226 dimer interface [polypeptide binding]; other site 504832008227 conserved gate region; other site 504832008228 putative PBP binding loops; other site 504832008229 ABC-ATPase subunit interface; other site 504832008230 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 504832008231 dimer interface [polypeptide binding]; other site 504832008232 conserved gate region; other site 504832008233 putative PBP binding loops; other site 504832008234 ABC-ATPase subunit interface; other site 504832008235 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504832008236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832008237 Walker A/P-loop; other site 504832008238 ATP binding site [chemical binding]; other site 504832008239 Q-loop/lid; other site 504832008240 ABC transporter signature motif; other site 504832008241 Walker B; other site 504832008242 D-loop; other site 504832008243 H-loop/switch region; other site 504832008244 TOBE domain; Region: TOBE_2; pfam08402 504832008245 PAS domain; Region: PAS; smart00091 504832008246 PAS fold; Region: PAS_7; pfam12860 504832008247 PAS fold; Region: PAS_4; pfam08448 504832008248 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832008249 putative active site [active] 504832008250 heme pocket [chemical binding]; other site 504832008251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832008252 metal binding site [ion binding]; metal-binding site 504832008253 active site 504832008254 I-site; other site 504832008255 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 504832008256 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504832008257 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504832008258 Protein of unknown function (DUF465); Region: DUF465; cl01070 504832008259 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 504832008260 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 504832008261 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 504832008262 ATP-grasp domain; Region: ATP-grasp; pfam02222 504832008263 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 504832008264 amphipathic channel; other site 504832008265 Asn-Pro-Ala signature motifs; other site 504832008266 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 504832008267 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504832008268 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 504832008269 NAD(P) binding site [chemical binding]; other site 504832008270 catalytic residues [active] 504832008271 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 504832008272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832008273 PBP superfamily domain; Region: PBP_like; pfam12727 504832008274 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 504832008275 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 504832008276 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 504832008277 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 504832008278 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 504832008279 ligand binding site [chemical binding]; other site 504832008280 homodimer interface [polypeptide binding]; other site 504832008281 NAD(P) binding site [chemical binding]; other site 504832008282 trimer interface B [polypeptide binding]; other site 504832008283 trimer interface A [polypeptide binding]; other site 504832008284 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 504832008285 Fic/DOC family; Region: Fic; cl00960 504832008286 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 504832008287 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 504832008288 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 504832008289 active site 504832008290 Zn binding site [ion binding]; other site 504832008291 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 504832008292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832008293 active site 504832008294 phosphorylation site [posttranslational modification] 504832008295 intermolecular recognition site; other site 504832008296 dimerization interface [polypeptide binding]; other site 504832008297 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 504832008298 Walker A motif; other site 504832008299 ATP binding site [chemical binding]; other site 504832008300 Walker B motif; other site 504832008301 arginine finger; other site 504832008302 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 504832008303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 504832008304 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832008305 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832008306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 504832008307 Peptidase M15; Region: Peptidase_M15_3; cl01194 504832008308 hypothetical protein; Provisional; Region: PRK13694 504832008309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 504832008310 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 504832008311 pyruvate kinase; Provisional; Region: PRK06247 504832008312 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 504832008313 domain interfaces; other site 504832008314 active site 504832008315 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 504832008316 TPR motif; other site 504832008317 TPR repeat; Region: TPR_11; pfam13414 504832008318 binding surface 504832008319 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 504832008320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832008321 transcriptional regulator; Provisional; Region: PRK10632 504832008322 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 504832008323 putative effector binding pocket; other site 504832008324 dimerization interface [polypeptide binding]; other site 504832008325 Pirin-related protein [General function prediction only]; Region: COG1741 504832008326 Pirin; Region: Pirin; pfam02678 504832008327 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 504832008328 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832008329 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 504832008330 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 504832008331 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 504832008332 motif II; other site 504832008333 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 504832008334 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 504832008335 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 504832008336 TPP-binding site [chemical binding]; other site 504832008337 dimer interface [polypeptide binding]; other site 504832008338 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 504832008339 PYR/PP interface [polypeptide binding]; other site 504832008340 dimer interface [polypeptide binding]; other site 504832008341 TPP binding site [chemical binding]; other site 504832008342 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832008343 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 504832008344 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 504832008345 putative active site [active] 504832008346 catalytic residue [active] 504832008347 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 504832008348 active site 504832008349 dimer interface [polypeptide binding]; other site 504832008350 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 504832008351 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504832008352 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 504832008353 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 504832008354 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 504832008355 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 504832008356 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 504832008357 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 504832008358 putative active site [active] 504832008359 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 504832008360 ATP-binding site [chemical binding]; other site 504832008361 Gluconate-6-phosphate binding site [chemical binding]; other site 504832008362 Shikimate kinase; Region: SKI; pfam01202 504832008363 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 504832008364 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 504832008365 active site 504832008366 motif I; other site 504832008367 motif II; other site 504832008368 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504832008369 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 504832008370 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 504832008371 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 504832008372 YcjX-like family, DUF463; Region: DUF463; pfam04317 504832008373 hypothetical protein; Provisional; Region: PRK05415 504832008374 Domain of unknown function (DUF697); Region: DUF697; cl12064 504832008375 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 504832008376 DNA-binding site [nucleotide binding]; DNA binding site 504832008377 RNA-binding motif; other site 504832008378 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 504832008379 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 504832008380 amidase catalytic site [active] 504832008381 Zn binding residues [ion binding]; other site 504832008382 substrate binding site [chemical binding]; other site 504832008383 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504832008384 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 504832008385 putative metal binding site [ion binding]; other site 504832008386 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504832008387 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 504832008388 ABC-ATPase subunit interface; other site 504832008389 dimer interface [polypeptide binding]; other site 504832008390 putative PBP binding regions; other site 504832008391 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504832008392 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504832008393 Walker A/P-loop; other site 504832008394 ATP binding site [chemical binding]; other site 504832008395 Q-loop/lid; other site 504832008396 ABC transporter signature motif; other site 504832008397 Walker B; other site 504832008398 D-loop; other site 504832008399 H-loop/switch region; other site 504832008400 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 504832008401 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832008402 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 504832008403 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 504832008404 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504832008405 ligand binding site [chemical binding]; other site 504832008406 flexible hinge region; other site 504832008407 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 504832008408 putative switch regulator; other site 504832008409 non-specific DNA interactions [nucleotide binding]; other site 504832008410 DNA binding site [nucleotide binding] 504832008411 sequence specific DNA binding site [nucleotide binding]; other site 504832008412 putative cAMP binding site [chemical binding]; other site 504832008413 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 504832008414 MPT binding site; other site 504832008415 trimer interface [polypeptide binding]; other site 504832008416 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 504832008417 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 504832008418 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 504832008419 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 504832008420 4Fe-4S binding domain; Region: Fer4; cl02805 504832008421 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 504832008422 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 504832008423 [4Fe-4S] binding site [ion binding]; other site 504832008424 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008425 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008426 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 504832008427 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 504832008428 molybdopterin cofactor binding site; other site 504832008429 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 504832008430 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 504832008431 putative substrate translocation pore; other site 504832008432 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 504832008433 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 504832008434 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 504832008435 ligand binding site [chemical binding]; other site 504832008436 flexible hinge region; other site 504832008437 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 504832008438 putative switch regulator; other site 504832008439 non-specific DNA interactions [nucleotide binding]; other site 504832008440 DNA binding site [nucleotide binding] 504832008441 sequence specific DNA binding site [nucleotide binding]; other site 504832008442 putative cAMP binding site [chemical binding]; other site 504832008443 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 504832008444 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 504832008445 FeS/SAM binding site; other site 504832008446 HemN C-terminal domain; Region: HemN_C; pfam06969 504832008447 putative protease; Provisional; Region: PRK15447 504832008448 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 504832008449 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 504832008450 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 504832008451 Peptidase family U32; Region: Peptidase_U32; pfam01136 504832008452 SCP-2 sterol transfer family; Region: SCP2; cl01225 504832008453 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 504832008454 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504832008455 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 504832008456 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 504832008457 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832008458 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 504832008459 dinuclear metal binding motif [ion binding]; other site 504832008460 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 504832008461 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 504832008462 4Fe-4S binding domain; Region: Fer4_5; pfam12801 504832008463 4Fe-4S binding domain; Region: Fer4_5; pfam12801 504832008464 nitrous-oxide reductase; Validated; Region: PRK02888 504832008465 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 504832008466 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 504832008467 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504832008468 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504832008469 Walker A/P-loop; other site 504832008470 ATP binding site [chemical binding]; other site 504832008471 Q-loop/lid; other site 504832008472 ABC transporter signature motif; other site 504832008473 Walker B; other site 504832008474 D-loop; other site 504832008475 H-loop/switch region; other site 504832008476 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 504832008477 NosL; Region: NosL; pfam05573 504832008478 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 504832008479 ApbE family; Region: ApbE; pfam02424 504832008480 Cytochrome c2 [Energy production and conversion]; Region: COG3474 504832008481 NnrS protein; Region: NnrS; pfam05940 504832008482 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 504832008483 Ligand Binding Site [chemical binding]; other site 504832008484 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504832008485 Cytochrome c; Region: Cytochrom_C; pfam00034 504832008486 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832008487 E3 interaction surface; other site 504832008488 lipoyl attachment site [posttranslational modification]; other site 504832008489 Protein required for attachment to host cells; Region: Host_attach; pfam10116 504832008490 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 504832008491 IHF dimer interface [polypeptide binding]; other site 504832008492 IHF - DNA interface [nucleotide binding]; other site 504832008493 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 504832008494 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 504832008495 putative hydrophobic ligand binding site [chemical binding]; other site 504832008496 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 504832008497 membrane-bound complex binding site; other site 504832008498 hinge residues; other site 504832008499 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 504832008500 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 504832008501 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 504832008502 putative substrate translocation pore; other site 504832008503 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504832008504 MarR family; Region: MarR_2; pfam12802 504832008505 FO synthase; Reviewed; Region: fbiC; PRK09234 504832008506 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 504832008507 FeS/SAM binding site; other site 504832008508 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 504832008509 FeS/SAM binding site; other site 504832008510 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 504832008511 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 504832008512 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 504832008513 phosphate binding site [ion binding]; other site 504832008514 dimer interface [polypeptide binding]; other site 504832008515 substrate binding site [chemical binding]; other site 504832008516 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 504832008517 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 504832008518 tricarballylate utilization protein B; Provisional; Region: PRK15033 504832008519 tricarballylate dehydrogenase; Validated; Region: PRK08274 504832008520 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832008521 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 504832008522 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 504832008523 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504832008524 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504832008525 5,10-methylenetetrahydromethanopterin reductase; Region: F420_mer; TIGR03555 504832008526 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 504832008527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 504832008528 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504832008529 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 504832008530 enoyl-CoA hydratase; Provisional; Region: PRK06494 504832008531 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 504832008532 substrate binding site [chemical binding]; other site 504832008533 oxyanion hole (OAH) forming residues; other site 504832008534 trimer interface [polypeptide binding]; other site 504832008535 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 504832008536 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504832008537 Bacterial transcriptional regulator; Region: IclR; pfam01614 504832008538 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504832008539 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 504832008540 NAD(P) binding site [chemical binding]; other site 504832008541 catalytic residues [active] 504832008542 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 504832008543 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504832008544 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 504832008545 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 504832008546 active site 504832008547 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 504832008548 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 504832008549 DUF35 OB-fold domain; Region: DUF35; pfam01796 504832008550 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 504832008551 dimerization interface [polypeptide binding]; other site 504832008552 metal binding site [ion binding]; metal-binding site 504832008553 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 504832008554 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 504832008555 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 504832008556 Helix-turn-helix domain; Region: HTH_28; pfam13518 504832008557 putative transposase OrfB; Reviewed; Region: PHA02517 504832008558 Homeodomain-like domain; Region: HTH_32; pfam13565 504832008559 Integrase core domain; Region: rve; pfam00665 504832008560 Integrase core domain; Region: rve_3; pfam13683 504832008561 Transposase; Region: HTH_Tnp_1; cl17663 504832008562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 504832008563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 504832008564 Integrase core domain; Region: rve_3; pfam13683 504832008565 DctM-like transporters; Region: DctM; pfam06808 504832008566 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504832008567 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 504832008568 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 504832008569 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504832008570 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 504832008571 Cupin domain; Region: Cupin_2; cl17218 504832008572 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 504832008573 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 504832008574 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 504832008575 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 504832008576 homotrimer interaction site [polypeptide binding]; other site 504832008577 putative active site [active] 504832008578 YIEGIA protein; Region: YIEGIA; pfam14045 504832008579 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 504832008580 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 504832008581 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 504832008582 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 504832008583 catalytic residues [active] 504832008584 catalytic nucleophile [active] 504832008585 Presynaptic Site I dimer interface [polypeptide binding]; other site 504832008586 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 504832008587 Synaptic Flat tetramer interface [polypeptide binding]; other site 504832008588 Synaptic Site I dimer interface [polypeptide binding]; other site 504832008589 DNA binding site [nucleotide binding] 504832008590 Recombinase; Region: Recombinase; pfam07508 504832008591 Protein of unknown function, DUF606; Region: DUF606; pfam04657 504832008592 Response regulator receiver domain; Region: Response_reg; pfam00072 504832008593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832008594 active site 504832008595 phosphorylation site [posttranslational modification] 504832008596 intermolecular recognition site; other site 504832008597 dimerization interface [polypeptide binding]; other site 504832008598 N-formylglutamate amidohydrolase; Region: FGase; cl01522 504832008599 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504832008600 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 504832008601 active site 504832008602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832008603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832008604 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 504832008605 putative dimerization interface [polypeptide binding]; other site 504832008606 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504832008607 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 504832008608 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504832008609 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504832008610 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 504832008611 putative dimer interface [polypeptide binding]; other site 504832008612 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 504832008613 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832008614 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 504832008615 Uncharacterized conserved protein [Function unknown]; Region: COG2128 504832008616 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 504832008617 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 504832008618 active site 504832008619 dimer interface [polypeptide binding]; other site 504832008620 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 504832008621 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 504832008622 active site 504832008623 FMN binding site [chemical binding]; other site 504832008624 substrate binding site [chemical binding]; other site 504832008625 3Fe-4S cluster binding site [ion binding]; other site 504832008626 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 504832008627 domain interface; other site 504832008628 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 504832008629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832008630 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 504832008631 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 504832008632 active site 504832008633 oxyanion hole [active] 504832008634 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 504832008635 catalytic triad [active] 504832008636 Transglycosylase SLT domain; Region: SLT_2; pfam13406 504832008637 murein hydrolase B; Provisional; Region: PRK10760; cl17906 504832008638 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 504832008639 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 504832008640 active site 504832008641 tetramer interface; other site 504832008642 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 504832008643 active site 504832008644 catalytic triad [active] 504832008645 oxyanion hole [active] 504832008646 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832008647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832008648 metal binding site [ion binding]; metal-binding site 504832008649 active site 504832008650 I-site; other site 504832008651 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 504832008652 KpsF/GutQ family protein; Region: kpsF; TIGR00393 504832008653 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 504832008654 putative active site [active] 504832008655 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 504832008656 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 504832008657 trimer interface [polypeptide binding]; other site 504832008658 putative Zn binding site [ion binding]; other site 504832008659 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 504832008660 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 504832008661 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 504832008662 ferrochelatase; Reviewed; Region: hemH; PRK00035 504832008663 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 504832008664 C-terminal domain interface [polypeptide binding]; other site 504832008665 active site 504832008666 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 504832008667 active site 504832008668 N-terminal domain interface [polypeptide binding]; other site 504832008669 High-affinity nickel-transport protein; Region: NicO; cl00964 504832008670 High-affinity nickel-transport protein; Region: NicO; cl00964 504832008671 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 504832008672 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 504832008673 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 504832008674 active site 504832008675 Zn binding site [ion binding]; other site 504832008676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 504832008677 dimer interface [polypeptide binding]; other site 504832008678 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 504832008679 active site 504832008680 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504832008681 catalytic residues [active] 504832008682 substrate binding site [chemical binding]; other site 504832008683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832008684 Coenzyme A binding pocket [chemical binding]; other site 504832008685 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 504832008686 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504832008687 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 504832008688 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 504832008689 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 504832008690 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 504832008691 MgtC family; Region: MgtC; pfam02308 504832008692 FOG: WD40 repeat [General function prediction only]; Region: COG2319 504832008693 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 504832008694 structural tetrad; other site 504832008695 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504832008696 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 504832008697 P-loop, Walker A motif; other site 504832008698 Base recognition motif; other site 504832008699 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 504832008700 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 504832008701 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 504832008702 intersubunit interface [polypeptide binding]; other site 504832008703 ABC 3 transport family; Region: ABC-3; pfam00950 504832008704 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504832008705 ABC-ATPase subunit interface; other site 504832008706 dimer interface [polypeptide binding]; other site 504832008707 putative PBP binding regions; other site 504832008708 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 504832008709 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 504832008710 camphor resistance protein CrcB; Provisional; Region: PRK14198 504832008711 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 504832008712 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 504832008713 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 504832008714 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504832008715 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504832008716 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 504832008717 HIT family signature motif; other site 504832008718 catalytic residue [active] 504832008719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504832008720 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504832008721 Walker A/P-loop; other site 504832008722 ATP binding site [chemical binding]; other site 504832008723 Q-loop/lid; other site 504832008724 ABC transporter signature motif; other site 504832008725 Walker B; other site 504832008726 D-loop; other site 504832008727 H-loop/switch region; other site 504832008728 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504832008729 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 504832008730 TM-ABC transporter signature motif; other site 504832008731 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504832008732 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504832008733 Walker A/P-loop; other site 504832008734 ATP binding site [chemical binding]; other site 504832008735 Q-loop/lid; other site 504832008736 ABC transporter signature motif; other site 504832008737 Walker B; other site 504832008738 D-loop; other site 504832008739 H-loop/switch region; other site 504832008740 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 504832008741 TM-ABC transporter signature motif; other site 504832008742 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504832008743 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 504832008744 putative ligand binding site [chemical binding]; other site 504832008745 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 504832008746 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 504832008747 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 504832008748 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 504832008749 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 504832008750 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832008751 N-terminal plug; other site 504832008752 ligand-binding site [chemical binding]; other site 504832008753 Hemin uptake protein hemP; Region: hemP; pfam10636 504832008754 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 504832008755 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504832008756 putative hemin binding site; other site 504832008757 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504832008758 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 504832008759 dimer interface [polypeptide binding]; other site 504832008760 putative PBP binding regions; other site 504832008761 ABC-ATPase subunit interface; other site 504832008762 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 504832008763 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504832008764 Walker A/P-loop; other site 504832008765 ATP binding site [chemical binding]; other site 504832008766 Q-loop/lid; other site 504832008767 ABC transporter signature motif; other site 504832008768 Walker B; other site 504832008769 D-loop; other site 504832008770 H-loop/switch region; other site 504832008771 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 504832008772 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 504832008773 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832008774 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 504832008775 motif II; other site 504832008776 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 504832008777 metal-binding site [ion binding] 504832008778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832008779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832008780 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 504832008781 putative effector binding pocket; other site 504832008782 dimerization interface [polypeptide binding]; other site 504832008783 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 504832008784 ApbE family; Region: ApbE; pfam02424 504832008785 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 504832008786 FAD binding pocket [chemical binding]; other site 504832008787 FAD binding motif [chemical binding]; other site 504832008788 catalytic residues [active] 504832008789 NAD binding pocket [chemical binding]; other site 504832008790 phosphate binding motif [ion binding]; other site 504832008791 beta-alpha-beta structure motif; other site 504832008792 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 504832008793 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 504832008794 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 504832008795 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504832008796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832008797 active site 504832008798 phosphorylation site [posttranslational modification] 504832008799 intermolecular recognition site; other site 504832008800 dimerization interface [polypeptide binding]; other site 504832008801 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 504832008802 DNA binding site [nucleotide binding] 504832008803 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 504832008804 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832008805 dimer interface [polypeptide binding]; other site 504832008806 phosphorylation site [posttranslational modification] 504832008807 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 504832008808 Mg2+ binding site [ion binding]; other site 504832008809 G-X-G motif; other site 504832008810 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 504832008811 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832008812 Outer membrane efflux protein; Region: OEP; pfam02321 504832008813 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 504832008814 nucleophile elbow; other site 504832008815 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 504832008816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832008817 NAD(P) binding site [chemical binding]; other site 504832008818 active site 504832008819 acetate kinase; Provisional; Region: PRK07058 504832008820 propionate/acetate kinase; Provisional; Region: PRK12379 504832008821 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 504832008822 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 504832008823 dimer interaction site [polypeptide binding]; other site 504832008824 substrate-binding tunnel; other site 504832008825 active site 504832008826 catalytic site [active] 504832008827 substrate binding site [chemical binding]; other site 504832008828 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 504832008829 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 504832008830 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 504832008831 NAD(P) binding site [chemical binding]; other site 504832008832 homotetramer interface [polypeptide binding]; other site 504832008833 homodimer interface [polypeptide binding]; other site 504832008834 active site 504832008835 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 504832008836 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 504832008837 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 504832008838 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832008839 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832008840 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 504832008841 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 504832008842 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832008843 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832008844 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504832008845 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504832008846 Walker A/P-loop; other site 504832008847 ATP binding site [chemical binding]; other site 504832008848 Q-loop/lid; other site 504832008849 ABC transporter signature motif; other site 504832008850 Walker B; other site 504832008851 D-loop; other site 504832008852 H-loop/switch region; other site 504832008853 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504832008854 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 504832008855 Walker A/P-loop; other site 504832008856 ATP binding site [chemical binding]; other site 504832008857 Q-loop/lid; other site 504832008858 ABC transporter signature motif; other site 504832008859 Walker B; other site 504832008860 D-loop; other site 504832008861 H-loop/switch region; other site 504832008862 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504832008863 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 504832008864 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504832008865 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 504832008866 OsmC-like protein; Region: OsmC; pfam02566 504832008867 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504832008868 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504832008869 Walker A/P-loop; other site 504832008870 ATP binding site [chemical binding]; other site 504832008871 Q-loop/lid; other site 504832008872 ABC transporter signature motif; other site 504832008873 Walker B; other site 504832008874 D-loop; other site 504832008875 H-loop/switch region; other site 504832008876 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504832008877 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 504832008878 FtsX-like permease family; Region: FtsX; pfam02687 504832008879 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504832008880 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832008881 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832008882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832008883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832008884 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 504832008885 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 504832008886 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 504832008887 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 504832008888 C1q domain; Region: C1q; cl17543 504832008889 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 504832008890 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 504832008891 Putative phage tail protein; Region: Phage-tail_3; pfam13550 504832008892 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 504832008893 NlpC/P60 family; Region: NLPC_P60; cl17555 504832008894 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 504832008895 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 504832008896 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 504832008897 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 504832008898 Phage-related minor tail protein [Function unknown]; Region: COG5281 504832008899 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 504832008900 Protein of unknown function (DUF497); Region: DUF497; pfam04365 504832008901 Predicted transcriptional regulator [Transcription]; Region: COG2944 504832008902 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 504832008903 salt bridge; other site 504832008904 non-specific DNA binding site [nucleotide binding]; other site 504832008905 sequence-specific DNA binding site [nucleotide binding]; other site 504832008906 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 504832008907 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 504832008908 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 504832008909 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 504832008910 tandem repeat interface [polypeptide binding]; other site 504832008911 oligomer interface [polypeptide binding]; other site 504832008912 active site residues [active] 504832008913 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 504832008914 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 504832008915 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 504832008916 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 504832008917 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 504832008918 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 504832008919 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 504832008920 DNA binding site [nucleotide binding] 504832008921 substrate interaction site [chemical binding]; other site 504832008922 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 504832008923 ParB-like nuclease domain; Region: ParBc; pfam02195 504832008924 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504832008925 DNA methylase; Region: N6_N4_Mtase; cl17433 504832008926 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 504832008927 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 504832008928 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 504832008929 sequence-specific DNA binding site [nucleotide binding]; other site 504832008930 salt bridge; other site 504832008931 putative transposase; Provisional; Region: PHA02942 504832008932 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 504832008933 Predicted membrane protein [Function unknown]; Region: COG3462 504832008934 Short C-terminal domain; Region: SHOCT; pfam09851 504832008935 Domain of unknown function DUF302; Region: DUF302; pfam03625 504832008936 Toprim domain; Region: Toprim_3; pfam13362 504832008937 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 504832008938 Virulence-associated protein E; Region: VirE; pfam05272 504832008939 AAA domain; Region: AAA_24; pfam13479 504832008940 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 504832008941 G1 box; other site 504832008942 GTP/Mg2+ binding site [chemical binding]; other site 504832008943 Switch II region; other site 504832008944 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 504832008945 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832008946 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504832008947 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 504832008948 non-specific DNA binding site [nucleotide binding]; other site 504832008949 salt bridge; other site 504832008950 sequence-specific DNA binding site [nucleotide binding]; other site 504832008951 Domain of unknown function (DUF955); Region: DUF955; pfam06114 504832008952 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 504832008953 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 504832008954 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 504832008955 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 504832008956 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 504832008957 catalytic residues [active] 504832008958 catalytic nucleophile [active] 504832008959 Presynaptic Site I dimer interface [polypeptide binding]; other site 504832008960 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 504832008961 Synaptic Flat tetramer interface [polypeptide binding]; other site 504832008962 Synaptic Site I dimer interface [polypeptide binding]; other site 504832008963 DNA binding site [nucleotide binding] 504832008964 Recombinase; Region: Recombinase; pfam07508 504832008965 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 504832008966 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504832008967 Peptidase family M23; Region: Peptidase_M23; pfam01551 504832008968 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 504832008969 Clp amino terminal domain; Region: Clp_N; pfam02861 504832008970 Clp amino terminal domain; Region: Clp_N; pfam02861 504832008971 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 504832008972 Walker A motif; other site 504832008973 ATP binding site [chemical binding]; other site 504832008974 Walker B motif; other site 504832008975 arginine finger; other site 504832008976 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 504832008977 Walker A motif; other site 504832008978 ATP binding site [chemical binding]; other site 504832008979 Walker B motif; other site 504832008980 arginine finger; other site 504832008981 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504832008982 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 504832008983 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 504832008984 MOSC domain; Region: MOSC; pfam03473 504832008985 TIGR02594 family protein; Region: TIGR02594 504832008986 Methyltransferase domain; Region: Methyltransf_23; pfam13489 504832008987 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 504832008988 S-adenosylmethionine binding site [chemical binding]; other site 504832008989 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 504832008990 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 504832008991 hypothetical protein; Provisional; Region: PRK06034 504832008992 Chorismate mutase type II; Region: CM_2; pfam01817 504832008993 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 504832008994 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 504832008995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832008996 homodimer interface [polypeptide binding]; other site 504832008997 catalytic residue [active] 504832008998 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 504832008999 prephenate dehydrogenase; Validated; Region: PRK08507 504832009000 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 504832009001 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 504832009002 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; cl15777 504832009003 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504832009004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 504832009005 putative acyl-acceptor binding pocket; other site 504832009006 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504832009007 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 504832009008 putative active site [active] 504832009009 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 504832009010 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 504832009011 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 504832009012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832009013 Walker A/P-loop; other site 504832009014 ATP binding site [chemical binding]; other site 504832009015 Q-loop/lid; other site 504832009016 ABC transporter signature motif; other site 504832009017 Walker B; other site 504832009018 D-loop; other site 504832009019 H-loop/switch region; other site 504832009020 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 504832009021 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 504832009022 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 504832009023 Response regulator receiver domain; Region: Response_reg; pfam00072 504832009024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009025 active site 504832009026 phosphorylation site [posttranslational modification] 504832009027 intermolecular recognition site; other site 504832009028 dimerization interface [polypeptide binding]; other site 504832009029 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 504832009030 diaminopimelate decarboxylase; Region: lysA; TIGR01048 504832009031 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 504832009032 active site 504832009033 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504832009034 substrate binding site [chemical binding]; other site 504832009035 catalytic residues [active] 504832009036 dimer interface [polypeptide binding]; other site 504832009037 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 504832009038 argininosuccinate lyase; Provisional; Region: PRK00855 504832009039 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 504832009040 active sites [active] 504832009041 tetramer interface [polypeptide binding]; other site 504832009042 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 504832009043 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832009044 catalytic residues [active] 504832009045 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 504832009046 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 504832009047 dimer interface [polypeptide binding]; other site 504832009048 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832009049 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 504832009050 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504832009051 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504832009052 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 504832009053 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 504832009054 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 504832009055 Ligand binding site [chemical binding]; other site 504832009056 Electron transfer flavoprotein domain; Region: ETF; pfam01012 504832009057 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 504832009058 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 504832009059 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832009060 dimer interface [polypeptide binding]; other site 504832009061 phosphorylation site [posttranslational modification] 504832009062 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832009063 ATP binding site [chemical binding]; other site 504832009064 Mg2+ binding site [ion binding]; other site 504832009065 G-X-G motif; other site 504832009066 Response regulator receiver domain; Region: Response_reg; pfam00072 504832009067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009068 active site 504832009069 phosphorylation site [posttranslational modification] 504832009070 intermolecular recognition site; other site 504832009071 dimerization interface [polypeptide binding]; other site 504832009072 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 504832009073 active site 504832009074 HIGH motif; other site 504832009075 nucleotide binding site [chemical binding]; other site 504832009076 active site 504832009077 KMSKS motif; other site 504832009078 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 504832009079 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504832009080 minor groove reading motif; other site 504832009081 helix-hairpin-helix signature motif; other site 504832009082 active site 504832009083 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 504832009084 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 504832009085 active site 504832009086 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 504832009087 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 504832009088 dimer interface [polypeptide binding]; other site 504832009089 active site 504832009090 CoA binding pocket [chemical binding]; other site 504832009091 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832009092 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 504832009093 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832009094 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 504832009095 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 504832009096 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 504832009097 Methyltransferase domain; Region: Methyltransf_31; pfam13847 504832009098 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 504832009099 S-adenosylmethionine binding site [chemical binding]; other site 504832009100 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504832009101 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 504832009102 PAS fold; Region: PAS_7; pfam12860 504832009103 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504832009104 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504832009105 metal binding site [ion binding]; metal-binding site 504832009106 active site 504832009107 I-site; other site 504832009108 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 504832009109 Maf-like protein; Region: Maf; pfam02545 504832009110 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 504832009111 active site 504832009112 dimer interface [polypeptide binding]; other site 504832009113 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504832009114 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504832009115 active site 504832009116 hypothetical protein; Provisional; Region: PRK02853 504832009117 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 504832009118 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 504832009119 NAD binding site [chemical binding]; other site 504832009120 dimerization interface [polypeptide binding]; other site 504832009121 product binding site; other site 504832009122 substrate binding site [chemical binding]; other site 504832009123 zinc binding site [ion binding]; other site 504832009124 catalytic residues [active] 504832009125 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 504832009126 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 504832009127 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 504832009128 hinge; other site 504832009129 active site 504832009130 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 504832009131 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 504832009132 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 504832009133 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 504832009134 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 504832009135 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832009136 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832009137 N-terminal plug; other site 504832009138 ligand-binding site [chemical binding]; other site 504832009139 cyanate transporter; Region: CynX; TIGR00896 504832009140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504832009141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504832009142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 504832009143 SnoaL-like domain; Region: SnoaL_2; pfam12680 504832009144 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 504832009145 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 504832009146 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 504832009147 metabolite-proton symporter; Region: 2A0106; TIGR00883 504832009148 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 504832009149 putative substrate translocation pore; other site 504832009150 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 504832009151 conserved cys residue [active] 504832009152 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 504832009153 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504832009154 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 504832009155 non-specific DNA binding site [nucleotide binding]; other site 504832009156 salt bridge; other site 504832009157 sequence-specific DNA binding site [nucleotide binding]; other site 504832009158 Cupin domain; Region: Cupin_2; pfam07883 504832009159 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 504832009160 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 504832009161 FAD binding pocket [chemical binding]; other site 504832009162 conserved FAD binding motif [chemical binding]; other site 504832009163 phosphate binding motif [ion binding]; other site 504832009164 beta-alpha-beta structure motif; other site 504832009165 NAD binding pocket [chemical binding]; other site 504832009166 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 504832009167 catalytic loop [active] 504832009168 iron binding site [ion binding]; other site 504832009169 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 504832009170 intersubunit interface [polypeptide binding]; other site 504832009171 active site 504832009172 Zn2+ binding site [ion binding]; other site 504832009173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832009174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832009175 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 504832009176 dimerization interface [polypeptide binding]; other site 504832009177 biotin synthase; Region: bioB; TIGR00433 504832009178 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 504832009179 FeS/SAM binding site; other site 504832009180 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 504832009181 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 504832009182 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 504832009183 substrate-cofactor binding pocket; other site 504832009184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832009185 catalytic residue [active] 504832009186 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 504832009187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009188 active site 504832009189 phosphorylation site [posttranslational modification] 504832009190 intermolecular recognition site; other site 504832009191 dimerization interface [polypeptide binding]; other site 504832009192 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 504832009193 DNA binding residues [nucleotide binding] 504832009194 dimerization interface [polypeptide binding]; other site 504832009195 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 504832009196 Na binding site [ion binding]; other site 504832009197 PAS fold; Region: PAS_7; pfam12860 504832009198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504832009199 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832009200 dimer interface [polypeptide binding]; other site 504832009201 phosphorylation site [posttranslational modification] 504832009202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832009203 ATP binding site [chemical binding]; other site 504832009204 Mg2+ binding site [ion binding]; other site 504832009205 G-X-G motif; other site 504832009206 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504832009207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009208 active site 504832009209 phosphorylation site [posttranslational modification] 504832009210 intermolecular recognition site; other site 504832009211 dimerization interface [polypeptide binding]; other site 504832009212 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504832009213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009214 active site 504832009215 phosphorylation site [posttranslational modification] 504832009216 intermolecular recognition site; other site 504832009217 dimerization interface [polypeptide binding]; other site 504832009218 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 504832009219 DNA binding residues [nucleotide binding] 504832009220 dimerization interface [polypeptide binding]; other site 504832009221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 504832009222 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 504832009223 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 504832009224 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 504832009225 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 504832009226 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 504832009227 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 504832009228 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504832009229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 504832009230 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504832009231 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504832009232 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504832009233 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 504832009234 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 504832009235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832009236 catalytic residue [active] 504832009237 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 504832009238 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 504832009239 Subunit III/VIIa interface [polypeptide binding]; other site 504832009240 Phospholipid binding site [chemical binding]; other site 504832009241 Subunit I/III interface [polypeptide binding]; other site 504832009242 Subunit III/VIb interface [polypeptide binding]; other site 504832009243 Subunit III/VIa interface; other site 504832009244 Subunit III/Vb interface [polypeptide binding]; other site 504832009245 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 504832009246 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 504832009247 UbiA prenyltransferase family; Region: UbiA; pfam01040 504832009248 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 504832009249 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 504832009250 Subunit I/III interface [polypeptide binding]; other site 504832009251 D-pathway; other site 504832009252 Subunit I/VIIc interface [polypeptide binding]; other site 504832009253 Subunit I/IV interface [polypeptide binding]; other site 504832009254 Subunit I/II interface [polypeptide binding]; other site 504832009255 Low-spin heme (heme a) binding site [chemical binding]; other site 504832009256 Subunit I/VIIa interface [polypeptide binding]; other site 504832009257 Subunit I/VIa interface [polypeptide binding]; other site 504832009258 Dimer interface; other site 504832009259 Putative water exit pathway; other site 504832009260 Binuclear center (heme a3/CuB) [ion binding]; other site 504832009261 K-pathway; other site 504832009262 Subunit I/Vb interface [polypeptide binding]; other site 504832009263 Putative proton exit pathway; other site 504832009264 Subunit I/VIb interface; other site 504832009265 Subunit I/VIc interface [polypeptide binding]; other site 504832009266 Electron transfer pathway; other site 504832009267 Subunit I/VIIIb interface [polypeptide binding]; other site 504832009268 Subunit I/VIIb interface [polypeptide binding]; other site 504832009269 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 504832009270 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00168 504832009271 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 504832009272 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 504832009273 protease TldD; Provisional; Region: tldD; PRK10735 504832009274 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 504832009275 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 504832009276 Catalytic site [active] 504832009277 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 504832009278 PAN domain; Region: PAN_4; pfam14295 504832009279 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 504832009280 putative binding site; other site 504832009281 glutamate--cysteine ligase; Region: PLN02611 504832009282 MarR family; Region: MarR_2; pfam12802 504832009283 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 504832009284 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 504832009285 Sel1-like repeats; Region: SEL1; smart00671 504832009286 Sel1-like repeats; Region: SEL1; smart00671 504832009287 Sel1-like repeats; Region: SEL1; smart00671 504832009288 Sel1-like repeats; Region: SEL1; smart00671 504832009289 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 504832009290 binding surface 504832009291 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 504832009292 TPR motif; other site 504832009293 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 504832009294 S-adenosylmethionine binding site [chemical binding]; other site 504832009295 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 504832009296 putative efflux protein, MATE family; Region: matE; TIGR00797 504832009297 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 504832009298 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 504832009299 quinone interaction residues [chemical binding]; other site 504832009300 active site 504832009301 catalytic residues [active] 504832009302 FMN binding site [chemical binding]; other site 504832009303 substrate binding site [chemical binding]; other site 504832009304 Protein of unknown function (DUF952); Region: DUF952; cl01393 504832009305 Predicted transcriptional regulator [Transcription]; Region: COG2932 504832009306 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 504832009307 Catalytic site [active] 504832009308 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 504832009309 putative deacylase active site [active] 504832009310 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 504832009311 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504832009312 active site 504832009313 nucleotide binding site [chemical binding]; other site 504832009314 HIGH motif; other site 504832009315 KMSKS motif; other site 504832009316 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 504832009317 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 504832009318 substrate binding pocket [chemical binding]; other site 504832009319 membrane-bound complex binding site; other site 504832009320 hinge residues; other site 504832009321 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504832009322 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 504832009323 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 504832009324 DXD motif; other site 504832009325 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 504832009326 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 504832009327 Cu(I) binding site [ion binding]; other site 504832009328 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 504832009329 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 504832009330 trimer interface [polypeptide binding]; other site 504832009331 active site 504832009332 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 504832009333 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 504832009334 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 504832009335 homodimer interface [polypeptide binding]; other site 504832009336 substrate-cofactor binding pocket; other site 504832009337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832009338 catalytic residue [active] 504832009339 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 504832009340 active site 504832009341 oxyanion hole [active] 504832009342 catalytic triad [active] 504832009343 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 504832009344 active site 504832009345 oxyanion hole [active] 504832009346 OpgC protein; Region: OpgC_C; pfam10129 504832009347 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504832009348 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 504832009349 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 504832009350 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 504832009351 dimerization interface [polypeptide binding]; other site 504832009352 domain crossover interface; other site 504832009353 redox-dependent activation switch; other site 504832009354 ornithine carbamoyltransferase; Provisional; Region: PRK00779 504832009355 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504832009356 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504832009357 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 504832009358 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 504832009359 inhibitor-cofactor binding pocket; inhibition site 504832009360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832009361 catalytic residue [active] 504832009362 GcrA cell cycle regulator; Region: GcrA; pfam07750 504832009363 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 504832009364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009365 active site 504832009366 phosphorylation site [posttranslational modification] 504832009367 intermolecular recognition site; other site 504832009368 dimerization interface [polypeptide binding]; other site 504832009369 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 504832009370 DNA binding site [nucleotide binding] 504832009371 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 504832009372 PhoU domain; Region: PhoU; pfam01895 504832009373 PhoU domain; Region: PhoU; pfam01895 504832009374 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 504832009375 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 504832009376 Walker A/P-loop; other site 504832009377 ATP binding site [chemical binding]; other site 504832009378 Q-loop/lid; other site 504832009379 ABC transporter signature motif; other site 504832009380 Walker B; other site 504832009381 D-loop; other site 504832009382 H-loop/switch region; other site 504832009383 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 504832009384 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 504832009385 dimer interface [polypeptide binding]; other site 504832009386 conserved gate region; other site 504832009387 putative PBP binding loops; other site 504832009388 ABC-ATPase subunit interface; other site 504832009389 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 504832009390 dimer interface [polypeptide binding]; other site 504832009391 conserved gate region; other site 504832009392 putative PBP binding loops; other site 504832009393 ABC-ATPase subunit interface; other site 504832009394 PBP superfamily domain; Region: PBP_like_2; cl17296 504832009395 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 504832009396 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832009397 dimer interface [polypeptide binding]; other site 504832009398 phosphorylation site [posttranslational modification] 504832009399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832009400 ATP binding site [chemical binding]; other site 504832009401 Mg2+ binding site [ion binding]; other site 504832009402 G-X-G motif; other site 504832009403 Predicted integral membrane protein [Function unknown]; Region: COG0392 504832009404 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 504832009405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 504832009406 ligand binding site [chemical binding]; other site 504832009407 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504832009408 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 504832009409 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 504832009410 putative active site [active] 504832009411 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 504832009412 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 504832009413 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 504832009414 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 504832009415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 504832009416 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 504832009417 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 504832009418 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 504832009419 substrate binding pocket [chemical binding]; other site 504832009420 membrane-bound complex binding site; other site 504832009421 hinge residues; other site 504832009422 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_12; cd07255 504832009423 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504832009424 putative metal binding site [ion binding]; other site 504832009425 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 504832009426 ferrous iron transporter FeoB; Region: feoB; TIGR00437 504832009427 G1 box; other site 504832009428 GTP/Mg2+ binding site [chemical binding]; other site 504832009429 Switch I region; other site 504832009430 G2 box; other site 504832009431 G3 box; other site 504832009432 Switch II region; other site 504832009433 G4 box; other site 504832009434 G5 box; other site 504832009435 Nucleoside recognition; Region: Gate; pfam07670 504832009436 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 504832009437 Nucleoside recognition; Region: Gate; pfam07670 504832009438 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 504832009439 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 504832009440 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 504832009441 putative active site pocket [active] 504832009442 metal binding site [ion binding]; metal-binding site 504832009443 MEKHLA domain; Region: MEKHLA; pfam08670 504832009444 Predicted integral membrane protein [Function unknown]; Region: COG5615 504832009445 Protein of unknown function, DUF488; Region: DUF488; pfam04343 504832009446 cytosine deaminase; Provisional; Region: PRK05985 504832009447 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 504832009448 active site 504832009449 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504832009450 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504832009451 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504832009452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009453 active site 504832009454 phosphorylation site [posttranslational modification] 504832009455 intermolecular recognition site; other site 504832009456 dimerization interface [polypeptide binding]; other site 504832009457 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 504832009458 DNA binding residues [nucleotide binding] 504832009459 dimerization interface [polypeptide binding]; other site 504832009460 PAS domain S-box; Region: sensory_box; TIGR00229 504832009461 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832009462 putative active site [active] 504832009463 heme pocket [chemical binding]; other site 504832009464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 504832009465 Histidine kinase; Region: HisKA_3; pfam07730 504832009466 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832009467 ATP binding site [chemical binding]; other site 504832009468 Mg2+ binding site [ion binding]; other site 504832009469 G-X-G motif; other site 504832009470 Methyltransferase domain; Region: Methyltransf_23; pfam13489 504832009471 Methyltransferase domain; Region: Methyltransf_12; pfam08242 504832009472 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 504832009473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832009474 NAD(P) binding site [chemical binding]; other site 504832009475 active site 504832009476 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 504832009477 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504832009478 extended (e) SDRs; Region: SDR_e; cd08946 504832009479 NAD(P) binding site [chemical binding]; other site 504832009480 active site 504832009481 substrate binding site [chemical binding]; other site 504832009482 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 504832009483 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 504832009484 substrate binding site; other site 504832009485 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 504832009486 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 504832009487 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 504832009488 active site 504832009489 homotetramer interface [polypeptide binding]; other site 504832009490 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 504832009491 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 504832009492 benzoate transport; Region: 2A0115; TIGR00895 504832009493 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 504832009494 putative substrate translocation pore; other site 504832009495 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 504832009496 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504832009497 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 504832009498 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 504832009499 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 504832009500 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504832009501 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504832009502 Coenzyme A binding pocket [chemical binding]; other site 504832009503 GTPase CgtA; Reviewed; Region: obgE; PRK12299 504832009504 GTP1/OBG; Region: GTP1_OBG; pfam01018 504832009505 Obg GTPase; Region: Obg; cd01898 504832009506 G1 box; other site 504832009507 GTP/Mg2+ binding site [chemical binding]; other site 504832009508 Switch I region; other site 504832009509 G2 box; other site 504832009510 G3 box; other site 504832009511 Switch II region; other site 504832009512 G4 box; other site 504832009513 G5 box; other site 504832009514 gamma-glutamyl kinase; Provisional; Region: PRK05429 504832009515 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 504832009516 nucleotide binding site [chemical binding]; other site 504832009517 homotetrameric interface [polypeptide binding]; other site 504832009518 putative phosphate binding site [ion binding]; other site 504832009519 putative allosteric binding site; other site 504832009520 PUA domain; Region: PUA; pfam01472 504832009521 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 504832009522 putative catalytic cysteine [active] 504832009523 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 504832009524 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 504832009525 active site 504832009526 (T/H)XGH motif; other site 504832009527 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 504832009528 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 504832009529 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 504832009530 Peptidase family M23; Region: Peptidase_M23; pfam01551 504832009531 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504832009532 C-terminal peptidase (prc); Region: prc; TIGR00225 504832009533 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 504832009534 protein binding site [polypeptide binding]; other site 504832009535 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 504832009536 Catalytic dyad [active] 504832009537 maltose O-acetyltransferase; Provisional; Region: PRK10092 504832009538 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 504832009539 active site 504832009540 substrate binding site [chemical binding]; other site 504832009541 trimer interface [polypeptide binding]; other site 504832009542 CoA binding site [chemical binding]; other site 504832009543 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 504832009544 NodB motif; other site 504832009545 putative active site [active] 504832009546 putative catalytic site [active] 504832009547 Zn binding site [ion binding]; other site 504832009548 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 504832009549 putative active site [active] 504832009550 Ap4A binding site [chemical binding]; other site 504832009551 nudix motif; other site 504832009552 putative metal binding site [ion binding]; other site 504832009553 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 504832009554 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 504832009555 gamma subunit interface [polypeptide binding]; other site 504832009556 epsilon subunit interface [polypeptide binding]; other site 504832009557 LBP interface [polypeptide binding]; other site 504832009558 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 504832009559 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504832009560 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 504832009561 alpha subunit interaction interface [polypeptide binding]; other site 504832009562 Walker A motif; other site 504832009563 ATP binding site [chemical binding]; other site 504832009564 Walker B motif; other site 504832009565 inhibitor binding site; inhibition site 504832009566 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504832009567 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 504832009568 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 504832009569 core domain interface [polypeptide binding]; other site 504832009570 delta subunit interface [polypeptide binding]; other site 504832009571 epsilon subunit interface [polypeptide binding]; other site 504832009572 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 504832009573 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504832009574 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 504832009575 beta subunit interaction interface [polypeptide binding]; other site 504832009576 Walker A motif; other site 504832009577 ATP binding site [chemical binding]; other site 504832009578 Walker B motif; other site 504832009579 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504832009580 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 504832009581 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 504832009582 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 504832009583 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 504832009584 primosome assembly protein PriA; Validated; Region: PRK05580 504832009585 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 504832009586 ATP binding site [chemical binding]; other site 504832009587 putative Mg++ binding site [ion binding]; other site 504832009588 helicase superfamily c-terminal domain; Region: HELICc; smart00490 504832009589 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 504832009590 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 504832009591 active site 504832009592 DNA binding site [nucleotide binding] 504832009593 Int/Topo IB signature motif; other site 504832009594 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 504832009595 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 504832009596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504832009597 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832009598 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504832009599 short chain dehydrogenase; Provisional; Region: PRK06123 504832009600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504832009601 NAD(P) binding site [chemical binding]; other site 504832009602 active site 504832009603 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 504832009604 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832009605 E3 interaction surface; other site 504832009606 lipoyl attachment site [posttranslational modification]; other site 504832009607 e3 binding domain; Region: E3_binding; pfam02817 504832009608 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504832009609 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 504832009610 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 504832009611 TPP-binding site [chemical binding]; other site 504832009612 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 504832009613 malate dehydrogenase; Reviewed; Region: PRK06223 504832009614 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 504832009615 NAD(P) binding site [chemical binding]; other site 504832009616 dimer interface [polypeptide binding]; other site 504832009617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832009618 substrate binding site [chemical binding]; other site 504832009619 Predicted ATPase [General function prediction only]; Region: COG1485 504832009620 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 504832009621 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 504832009622 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 504832009623 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 504832009624 active site 504832009625 catalytic triad [active] 504832009626 oxyanion hole [active] 504832009627 switch loop; other site 504832009628 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 504832009629 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504832009630 Walker A/P-loop; other site 504832009631 ATP binding site [chemical binding]; other site 504832009632 Q-loop/lid; other site 504832009633 ABC transporter signature motif; other site 504832009634 Walker B; other site 504832009635 D-loop; other site 504832009636 H-loop/switch region; other site 504832009637 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 504832009638 FtsX-like permease family; Region: FtsX; pfam02687 504832009639 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 504832009640 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 504832009641 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 504832009642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832009643 Coenzyme A binding pocket [chemical binding]; other site 504832009644 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 504832009645 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 504832009646 aconitate hydratase; Validated; Region: PRK09277 504832009647 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 504832009648 substrate binding site [chemical binding]; other site 504832009649 ligand binding site [chemical binding]; other site 504832009650 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 504832009651 substrate binding site [chemical binding]; other site 504832009652 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 504832009653 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832009654 Walker A/P-loop; other site 504832009655 ATP binding site [chemical binding]; other site 504832009656 Q-loop/lid; other site 504832009657 ABC transporter signature motif; other site 504832009658 Walker B; other site 504832009659 D-loop; other site 504832009660 H-loop/switch region; other site 504832009661 heme exporter protein CcmB; Region: ccmB; TIGR01190 504832009662 heme exporter protein CcmC; Region: ccmC; TIGR01191 504832009663 Heme exporter protein D (CcmD); Region: CcmD; cl11475 504832009664 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 504832009665 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504832009666 catalytic residues [active] 504832009667 central insert; other site 504832009668 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504832009669 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 504832009670 putative ligand binding residues [chemical binding]; other site 504832009671 Methyltransferase domain; Region: Methyltransf_31; pfam13847 504832009672 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 504832009673 S-adenosylmethionine binding site [chemical binding]; other site 504832009674 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832009675 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 504832009676 N-terminal plug; other site 504832009677 ligand-binding site [chemical binding]; other site 504832009678 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504832009679 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504832009680 Walker A/P-loop; other site 504832009681 ATP binding site [chemical binding]; other site 504832009682 Q-loop/lid; other site 504832009683 ABC transporter signature motif; other site 504832009684 Walker B; other site 504832009685 D-loop; other site 504832009686 H-loop/switch region; other site 504832009687 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 504832009688 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504832009689 dimer interface [polypeptide binding]; other site 504832009690 putative PBP binding regions; other site 504832009691 ABC-ATPase subunit interface; other site 504832009692 Methyltransferase domain; Region: Methyltransf_24; pfam13578 504832009693 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 504832009694 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 504832009695 active site 504832009696 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 504832009697 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 504832009698 inhibitor-cofactor binding pocket; inhibition site 504832009699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504832009700 catalytic residue [active] 504832009701 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504832009702 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832009703 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 504832009704 Walker A/P-loop; other site 504832009705 ATP binding site [chemical binding]; other site 504832009706 Q-loop/lid; other site 504832009707 ABC transporter signature motif; other site 504832009708 Walker B; other site 504832009709 D-loop; other site 504832009710 H-loop/switch region; other site 504832009711 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 504832009712 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 504832009713 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 504832009714 NAD binding site [chemical binding]; other site 504832009715 substrate binding site [chemical binding]; other site 504832009716 homodimer interface [polypeptide binding]; other site 504832009717 active site 504832009718 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 504832009719 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 504832009720 NADP binding site [chemical binding]; other site 504832009721 active site 504832009722 putative substrate binding site [chemical binding]; other site 504832009723 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 504832009724 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 504832009725 substrate binding site; other site 504832009726 tetramer interface; other site 504832009727 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 504832009728 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504832009729 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 504832009730 active site residue [active] 504832009731 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 504832009732 active site residue [active] 504832009733 sulfite reductase subunit beta; Provisional; Region: PRK13504 504832009734 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504832009735 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504832009736 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 504832009737 Flavodoxin; Region: Flavodoxin_1; pfam00258 504832009738 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 504832009739 FAD binding pocket [chemical binding]; other site 504832009740 FAD binding motif [chemical binding]; other site 504832009741 catalytic residues [active] 504832009742 NAD binding pocket [chemical binding]; other site 504832009743 phosphate binding motif [ion binding]; other site 504832009744 beta-alpha-beta structure motif; other site 504832009745 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832009746 PAS domain; Region: PAS_9; pfam13426 504832009747 putative active site [active] 504832009748 heme pocket [chemical binding]; other site 504832009749 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832009750 dimer interface [polypeptide binding]; other site 504832009751 phosphorylation site [posttranslational modification] 504832009752 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832009753 ATP binding site [chemical binding]; other site 504832009754 G-X-G motif; other site 504832009755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832009756 active site 504832009757 phosphorylation site [posttranslational modification] 504832009758 intermolecular recognition site; other site 504832009759 dimerization interface [polypeptide binding]; other site 504832009760 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 504832009761 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 504832009762 SLBB domain; Region: SLBB; pfam10531 504832009763 methionine sulfoxide reductase A; Provisional; Region: PRK00058 504832009764 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 504832009765 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 504832009766 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 504832009767 DNA binding residues [nucleotide binding] 504832009768 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 504832009769 P-loop; other site 504832009770 Magnesium ion binding site [ion binding]; other site 504832009771 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 504832009772 Magnesium ion binding site [ion binding]; other site 504832009773 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 504832009774 ParB-like nuclease domain; Region: ParBc; pfam02195 504832009775 replication initiation protein RepC; Provisional; Region: PRK13824 504832009776 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 504832009777 putative DNA binding site [nucleotide binding]; other site 504832009778 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 504832009779 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 504832009780 dimer interface [polypeptide binding]; other site 504832009781 ssDNA binding site [nucleotide binding]; other site 504832009782 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832009783 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 504832009784 non-specific DNA binding site [nucleotide binding]; other site 504832009785 salt bridge; other site 504832009786 sequence-specific DNA binding site [nucleotide binding]; other site 504832009787 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 504832009788 non-specific DNA binding site [nucleotide binding]; other site 504832009789 salt bridge; other site 504832009790 sequence-specific DNA binding site [nucleotide binding]; other site 504832009791 replication initiation protein RepC; Provisional; Region: PRK13824 504832009792 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 504832009793 putative DNA binding site [nucleotide binding]; other site 504832009794 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 504832009795 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504832009796 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 504832009797 P-loop; other site 504832009798 Magnesium ion binding site [ion binding]; other site 504832009799 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 504832009800 transcriptional regulator TraR; Provisional; Region: PRK13870 504832009801 Autoinducer binding domain; Region: Autoind_bind; pfam03472 504832009802 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 504832009803 DNA binding residues [nucleotide binding] 504832009804 dimerization interface [polypeptide binding]; other site 504832009805 YHS domain; Region: YHS; pfam04945 504832009806 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832009807 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832009808 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 504832009809 motif II; other site 504832009810 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504832009811 putative homodimer interface [polypeptide binding]; other site 504832009812 putative homotetramer interface [polypeptide binding]; other site 504832009813 putative allosteric switch controlling residues; other site 504832009814 putative metal binding site [ion binding]; other site 504832009815 putative homodimer-homodimer interface [polypeptide binding]; other site 504832009816 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832009817 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832009818 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832009819 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832009820 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 504832009821 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 504832009822 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 504832009823 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 504832009824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 504832009825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504832009826 Coenzyme A binding pocket [chemical binding]; other site 504832009827 OpgC protein; Region: OpgC_C; pfam10129 504832009828 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 504832009829 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504832009830 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832009831 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504832009832 CopC domain; Region: CopC; pfam04234 504832009833 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 504832009834 Protein of unknown function, DUF; Region: DUF411; cl01142 504832009835 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 504832009836 Protein of unknown function, DUF; Region: DUF411; cl01142 504832009837 multicopper oxidase; Provisional; Region: PRK10965 504832009838 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504832009839 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504832009840 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504832009841 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 504832009842 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 504832009843 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 504832009844 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832009845 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 504832009846 RNA polymerase sigma factor; Provisional; Region: PRK12539 504832009847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504832009848 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 504832009849 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 504832009850 OpgC protein; Region: OpgC_C; pfam10129 504832009851 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504832009852 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 504832009853 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 504832009854 metal-binding site [ion binding] 504832009855 MerT mercuric transport protein; Region: MerT; cl03578 504832009856 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 504832009857 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504832009858 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 504832009859 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 504832009860 DNA binding residues [nucleotide binding] 504832009861 dimer interface [polypeptide binding]; other site 504832009862 metal binding site [ion binding]; metal-binding site 504832009863 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 504832009864 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 504832009865 putative substrate translocation pore; other site 504832009866 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832009867 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 504832009868 metal-binding site [ion binding] 504832009869 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832009870 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 504832009871 motif II; other site 504832009872 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 504832009873 metal-binding site [ion binding] 504832009874 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504832009875 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504832009876 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504832009877 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504832009878 Cation efflux family; Region: Cation_efflux; pfam01545 504832009879 MerT mercuric transport protein; Region: MerT; cl03578 504832009880 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 504832009881 metal-binding site [ion binding] 504832009882 mercuric reductase; Region: MerA; TIGR02053 504832009883 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504832009884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504832009885 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504832009886 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 504832009887 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504832009888 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 504832009889 ArsC family; Region: ArsC; pfam03960 504832009890 catalytic residues [active] 504832009891 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 504832009892 Sodium Bile acid symporter family; Region: SBF; cl17470 504832009893 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504832009894 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504832009895 active site 504832009896 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 504832009897 putative DNA binding site [nucleotide binding]; other site 504832009898 putative Zn2+ binding site [ion binding]; other site 504832009899 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 504832009900 dimerization interface [polypeptide binding]; other site 504832009901 putative DNA binding site [nucleotide binding]; other site 504832009902 putative Zn2+ binding site [ion binding]; other site 504832009903 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 504832009904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 504832009905 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504832009906 Outer membrane efflux protein; Region: OEP; pfam02321 504832009907 Outer membrane efflux protein; Region: OEP; pfam02321 504832009908 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 504832009909 lipoyl-biotinyl attachment site [posttranslational modification]; other site 504832009910 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832009911 Nitrogen regulatory protein P-II; Region: P-II; cl00412 504832009912 Nitrogen regulatory protein P-II; Region: P-II; smart00938 504832009913 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 504832009914 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832009915 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 504832009916 metal-binding site [ion binding] 504832009917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832009918 PilZ domain; Region: PilZ; pfam07238 504832009919 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 504832009920 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 504832009921 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504832009922 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 504832009923 E3 interaction surface; other site 504832009924 lipoyl attachment site [posttranslational modification]; other site 504832009925 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832009926 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 504832009927 OpgC protein; Region: OpgC_C; pfam10129 504832009928 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832009929 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832009930 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504832009931 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 504832009932 Cytochrome c; Region: Cytochrom_C; pfam00034 504832009933 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 504832009934 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 504832009935 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 504832009936 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 504832009937 Transposase; Region: HTH_Tnp_1; cl17663 504832009938 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 504832009939 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504832009940 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504832009941 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504832009942 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504832009943 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 504832009944 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 504832009945 TPR repeat; Region: TPR_11; pfam13414 504832009946 TPR repeat; Region: TPR_11; pfam13414 504832009947 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 504832009948 binding surface 504832009949 TPR motif; other site 504832009950 TPR repeat; Region: TPR_11; pfam13414 504832009951 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 504832009952 binding surface 504832009953 TPR motif; other site 504832009954 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 504832009955 binding surface 504832009956 TPR repeat; Region: TPR_11; pfam13414 504832009957 TPR motif; other site 504832009958 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 504832009959 EamA-like transporter family; Region: EamA; pfam00892 504832009960 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 504832009961 EamA-like transporter family; Region: EamA; pfam00892 504832009962 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 504832009963 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 504832009964 Walker A motif; other site 504832009965 ATP binding site [chemical binding]; other site 504832009966 Walker B motif; other site 504832009967 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 504832009968 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 504832009969 Walker A motif; other site 504832009970 hexamer interface [polypeptide binding]; other site 504832009971 ATP binding site [chemical binding]; other site 504832009972 Walker B motif; other site 504832009973 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 504832009974 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 504832009975 VirB7 interaction site; other site 504832009976 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 504832009977 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 504832009978 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 504832009979 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 504832009980 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 504832009981 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 504832009982 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504832009983 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 504832009984 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504832009985 catalytic residue [active] 504832009986 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 504832009987 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504832009988 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 504832009989 dimer interface [polypeptide binding]; other site 504832009990 ssDNA binding site [nucleotide binding]; other site 504832009991 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504832009992 hypothetical protein; Provisional; Region: PRK06518 504832009993 Staphylococcal nuclease homologues; Region: SNc; smart00318 504832009994 Autoinducer synthetase; Region: Autoind_synth; cl17404 504832009995 RES domain; Region: RES; pfam08808 504832009996 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 504832009997 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 504832009998 active site 504832009999 metal binding site [ion binding]; metal-binding site 504832010000 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 504832010001 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 504832010002 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 504832010003 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 504832010004 S-adenosylmethionine binding site [chemical binding]; other site 504832010005 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 504832010006 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504832010007 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 504832010008 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 504832010009 helicase superfamily c-terminal domain; Region: HELICc; smart00490 504832010010 plasmid partitioning protein; Provisional; Region: PRK13832 504832010011 ParB-like nuclease domain; Region: ParB; smart00470 504832010012 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 504832010013 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 504832010014 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832010015 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 504832010016 putative regulator PrlF; Provisional; Region: PRK09974 504832010017 Methyltransferase domain; Region: Methyltransf_26; pfam13659 504832010018 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 504832010019 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 504832010020 ATP-binding site [chemical binding]; other site 504832010021 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 504832010022 PLD-like domain; Region: PLDc_2; pfam13091 504832010023 putative active site [active] 504832010024 catalytic site [active] 504832010025 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 504832010026 active site 504832010027 catalytic triad [active] 504832010028 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504832010029 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 504832010030 Walker A motif; other site 504832010031 ATP binding site [chemical binding]; other site 504832010032 Walker B motif; other site 504832010033 arginine finger; other site 504832010034 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 504832010035 HTH DNA binding domain; Region: HTH_13; pfam11972 504832010036 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 504832010037 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 504832010038 oligomeric interface; other site 504832010039 putative active site [active] 504832010040 homodimer interface [polypeptide binding]; other site 504832010041 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 504832010042 active site 504832010043 DNA binding site [nucleotide binding] 504832010044 Int/Topo IB signature motif; other site 504832010045 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 504832010046 DNA binding residues [nucleotide binding] 504832010047 MerR family regulatory protein; Region: MerR; pfam00376 504832010048 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 504832010049 P-loop; other site 504832010050 Magnesium ion binding site [ion binding]; other site 504832010051 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 504832010052 Magnesium ion binding site [ion binding]; other site 504832010053 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 504832010054 ParB-like nuclease domain; Region: ParBc; pfam02195 504832010055 Replication protein C N-terminal domain; Region: RP-C; pfam03428 504832010056 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 504832010057 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 504832010058 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 504832010059 DNA binding site [nucleotide binding] 504832010060 dimer interface [polypeptide binding]; other site 504832010061 active site 504832010062 Int/Topo IB signature motif; other site 504832010063 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 504832010064 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 504832010065 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 504832010066 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 504832010067 motif II; other site 504832010068 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 504832010069 S-adenosylmethionine binding site [chemical binding]; other site 504832010070 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 504832010071 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504832010072 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 504832010073 DNA binding residues [nucleotide binding] 504832010074 dimerization interface [polypeptide binding]; other site 504832010075 Autoinducer synthetase; Region: Autoind_synth; cl17404 504832010076 Autoinducer binding domain; Region: Autoind_bind; pfam03472 504832010077 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504832010078 Peptidase family M23; Region: Peptidase_M23; pfam01551 504832010079 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 504832010080 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504832010081 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 504832010082 Walker A/P-loop; other site 504832010083 ATP binding site [chemical binding]; other site 504832010084 Q-loop/lid; other site 504832010085 ABC transporter signature motif; other site 504832010086 Walker B; other site 504832010087 D-loop; other site 504832010088 H-loop/switch region; other site 504832010089 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 504832010090 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504832010091 HlyD family secretion protein; Region: HlyD_3; pfam13437 504832010092 Uncharacterized conserved protein [Function unknown]; Region: COG4544 504832010093 DNA Polymerase Y-family; Region: PolY_like; cd03468 504832010094 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 504832010095 DNA binding site [nucleotide binding] 504832010096 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 504832010097 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 504832010098 active site 504832010099 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 504832010100 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 504832010101 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504832010102 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504832010103 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504832010104 LytTr DNA-binding domain; Region: LytTR; pfam04397 504832010105 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504832010106 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504832010107 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504832010108 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504832010109 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 504832010110 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 504832010111 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504832010112 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504832010113 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 504832010114 Walker A motif; other site 504832010115 ATP binding site [chemical binding]; other site 504832010116 Walker B motif; other site 504832010117 arginine finger; other site 504832010118 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 504832010119 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 504832010120 metal ion-dependent adhesion site (MIDAS); other site 504832010121 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504832010122 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504832010123 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504832010124 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 504832010125 putative hydrophobic ligand binding site [chemical binding]; other site 504832010126 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504832010127 LytTr DNA-binding domain; Region: LytTR; pfam04397 504832010128 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504832010129 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504832010130 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504832010131 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 504832010132 EamA-like transporter family; Region: EamA; pfam00892 504832010133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504832010134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504832010135 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 504832010136 putative dimerization interface [polypeptide binding]; other site 504832010137 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 504832010138 metal binding site [ion binding]; metal-binding site 504832010139 active site 504832010140 phosphoribulokinase; Provisional; Region: PRK15453 504832010141 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 504832010142 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 504832010143 TPP-binding site [chemical binding]; other site 504832010144 dimer interface [polypeptide binding]; other site 504832010145 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 504832010146 PYR/PP interface [polypeptide binding]; other site 504832010147 dimer interface [polypeptide binding]; other site 504832010148 TPP binding site [chemical binding]; other site 504832010149 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504832010150 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 504832010151 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 504832010152 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 504832010153 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 504832010154 Phosphoglycerate kinase; Region: PGK; pfam00162 504832010155 substrate binding site [chemical binding]; other site 504832010156 hinge regions; other site 504832010157 ADP binding site [chemical binding]; other site 504832010158 catalytic site [active] 504832010159 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 504832010160 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 504832010161 intersubunit interface [polypeptide binding]; other site 504832010162 active site 504832010163 zinc binding site [ion binding]; other site 504832010164 Na+ binding site [ion binding]; other site 504832010165 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 504832010166 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 504832010167 homodimer interface [polypeptide binding]; other site 504832010168 active site 504832010169 heterodimer interface [polypeptide binding]; other site 504832010170 catalytic residue [active] 504832010171 metal binding site [ion binding]; metal-binding site 504832010172 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 504832010173 multimerization interface [polypeptide binding]; other site 504832010174 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 504832010175 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 504832010176 Walker A motif; other site 504832010177 ATP binding site [chemical binding]; other site 504832010178 Walker B motif; other site 504832010179 arginine finger; other site 504832010180 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 504832010181 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 504832010182 substrate binding site [chemical binding]; other site 504832010183 hexamer interface [polypeptide binding]; other site 504832010184 metal binding site [ion binding]; metal-binding site 504832010185 phosphoglycolate phosphatase; Provisional; Region: PRK13222 504832010186 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504832010187 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 504832010188 motif II; other site 504832010189 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 504832010190 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 504832010191 motif II; other site 504832010192 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 504832010193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 504832010194 active site 504832010195 phosphorylation site [posttranslational modification] 504832010196 intermolecular recognition site; other site 504832010197 dimerization interface [polypeptide binding]; other site 504832010198 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 504832010199 Walker A motif; other site 504832010200 ATP binding site [chemical binding]; other site 504832010201 Walker B motif; other site 504832010202 arginine finger; other site 504832010203 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 504832010204 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504832010205 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 504832010206 G1 box; other site 504832010207 GTP/Mg2+ binding site [chemical binding]; other site 504832010208 Switch I region; other site 504832010209 G3 box; other site 504832010210 Switch II region; other site 504832010211 G4 box; other site 504832010212 G5 box; other site 504832010213 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 504832010214 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 504832010215 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 504832010216 Rubredoxin; Region: Rubredoxin; pfam00301 504832010217 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 504832010218 iron binding site [ion binding]; other site 504832010219 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 504832010220 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 504832010221 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 504832010222 HupF/HypC family; Region: HupF_HypC; cl00394 504832010223 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 504832010224 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 504832010225 putative substrate-binding site; other site 504832010226 nickel binding site [ion binding]; other site 504832010227 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 504832010228 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 504832010229 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 504832010230 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 504832010231 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 504832010232 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 504832010233 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 504832010234 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 504832010235 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 504832010236 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 504832010237 PAS fold; Region: PAS_4; pfam08448 504832010238 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 504832010239 putative active site [active] 504832010240 heme pocket [chemical binding]; other site 504832010241 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers 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 504832010242 dimer interface [polypeptide binding]; other site 504832010243 phosphorylation site [posttranslational modification] 504832010244 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 504832010245 ATP binding site [chemical binding]; other site 504832010246 Mg2+ binding site [ion binding]; other site 504832010247 G-X-G motif; other site 504832010248 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 504832010249 Acylphosphatase; Region: Acylphosphatase; pfam00708 504832010250 HypF finger; Region: zf-HYPF; pfam07503 504832010251 HypF finger; Region: zf-HYPF; pfam07503 504832010252 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 504832010253 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 504832010254 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 504832010255 active site 504832010256 dimer interface [polypeptide binding]; other site 504832010257 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 504832010258 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 504832010259 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 504832010260 dimerization interface [polypeptide binding]; other site 504832010261 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 504832010262 ATP binding site [chemical binding]; other site 504832010263 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 504832010264 nickel responsive regulator; Provisional; Region: PRK02967 504832010265 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 504832010266 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 504832010267 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 504832010268 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504832010269 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 504832010270 metal-binding site [ion binding] 504832010271 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504832010272 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504832010273 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 504832010274 Transposase; Region: HTH_Tnp_1; cl17663 504832010275 putative transposase OrfB; Reviewed; Region: PHA02517 504832010276 HTH-like domain; Region: HTH_21; pfam13276 504832010277 Integrase core domain; Region: rve; pfam00665 504832010278 Integrase core domain; Region: rve_3; pfam13683 504832010279 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832010280 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 504832010281 Toprim-like; Region: Toprim_2; pfam13155 504832010282 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 504832010283 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 504832010284 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 504832010285 S-adenosylmethionine binding site [chemical binding]; other site 504832010286 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 504832010287 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504832010288 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 504832010289 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 504832010290 helicase superfamily c-terminal domain; Region: HELICc; smart00490 504832010291 RES domain; Region: RES; cl02411 504832010292 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 504832010293 Transposase; Region: DEDD_Tnp_IS110; pfam01548 504832010294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 504832010295 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 504832010296 plasmid partitioning protein; Provisional; Region: PRK13832 504832010297 ParB-like nuclease domain; Region: ParB; smart00470 504832010298 replicative DNA helicase; Provisional; Region: PRK09165 504832010299 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 504832010300 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 504832010301 Walker A motif; other site 504832010302 ATP binding site [chemical binding]; other site 504832010303 Walker B motif; other site 504832010304 DNA binding loops [nucleotide binding] 504832010305 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 504832010306 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 504832010307 Protein of unknown function (DUF736); Region: DUF736; pfam05284 504832010308 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 504832010309 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 504832010310 Catalytic site; other site 504832010311 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504832010312 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 504832010313 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 504832010314 Walker A motif; other site 504832010315 ATP binding site [chemical binding]; other site 504832010316 Walker B motif; other site 504832010317 Conjugal transfer protein TraD; Region: TraD; cl05753 504832010318 TraC-like protein; Region: TraC; cl06725 504832010319 Dtr system oriT relaxase; Provisional; Region: PRK13826 504832010320 MobA/MobL family; Region: MobA_MobL; pfam03389 504832010321 AAA domain; Region: AAA_30; pfam13604 504832010322 Family description; Region: UvrD_C_2; pfam13538 504832010323 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 504832010324 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 504832010325 conjugal transfer protein TraB; Provisional; Region: PRK13825 504832010326 catalytic triad [active] 504832010327 TraH_2; Region: TraH_2; cl17600 504832010328 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 504832010329 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 504832010330 transcriptional regulator TraR; Provisional; Region: PRK13870 504832010331 Autoinducer binding domain; Region: Autoind_bind; pfam03472 504832010332 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 504832010333 DNA binding residues [nucleotide binding] 504832010334 dimerization interface [polypeptide binding]; other site 504832010335 conjugal transfer protein TrbI; Provisional; Region: PRK13831 504832010336 conjugal transfer protein TrbH; Provisional; Region: PRK13835 504832010337 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 504832010338 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 504832010339 VirB7 interaction site; other site 504832010340 conjugal transfer protein TrbF; Provisional; Region: PRK13836 504832010341 conjugal transfer protein TrbL; Provisional; Region: PRK13841 504832010342 entry exclusion protein TrbK, Ti-type; Region: TrbK_Ti; TIGR04361 504832010343 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 504832010344 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 504832010345 conjugal transfer protein TrbE; Provisional; Region: PRK13830 504832010346 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 504832010347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832010348 Walker A/P-loop; other site 504832010349 ATP binding site [chemical binding]; other site 504832010350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504832010351 Walker B; other site 504832010352 H-loop/switch region; other site 504832010353 conjugal transfer protein TrbD; Provisional; Region: PRK13823 504832010354 conjugal transfer protein TrbC; Provisional; Region: PRK13871 504832010355 conjugal transfer protein TrbB; Provisional; Region: PRK13833 504832010356 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 504832010357 ATP binding site [chemical binding]; other site 504832010358 Walker A motif; other site 504832010359 hexamer interface [polypeptide binding]; other site 504832010360 Walker B motif; other site 504832010361 putative autoinducer synthesis protein; Provisional; Region: PRK13834