-- dump date 20140619_061708 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1167006000001 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1167006000002 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1167006000003 Transglycosylase; Region: Transgly; pfam00912 1167006000004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1167006000005 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1167006000006 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 1167006000007 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006000008 catalytic residue [active] 1167006000009 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006000010 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1167006000011 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006000012 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1167006000013 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006000014 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 1167006000015 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 1167006000016 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1167006000017 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1167006000018 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1167006000019 trimer interface [polypeptide binding]; other site 1167006000020 active site 1167006000021 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1167006000022 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1167006000023 RNase E interface [polypeptide binding]; other site 1167006000024 trimer interface [polypeptide binding]; other site 1167006000025 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1167006000026 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1167006000027 RNase E interface [polypeptide binding]; other site 1167006000028 trimer interface [polypeptide binding]; other site 1167006000029 active site 1167006000030 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 1167006000031 putative nucleic acid binding region [nucleotide binding]; other site 1167006000032 G-X-X-G motif; other site 1167006000033 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 1167006000034 RNA binding site [nucleotide binding]; other site 1167006000035 domain interface; other site 1167006000036 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 1167006000037 16S/18S rRNA binding site [nucleotide binding]; other site 1167006000038 S13e-L30e interaction site [polypeptide binding]; other site 1167006000039 25S rRNA binding site [nucleotide binding]; other site 1167006000040 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1167006000041 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 1167006000042 RNA binding site [nucleotide binding]; other site 1167006000043 active site 1167006000044 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1167006000045 DHH family; Region: DHH; pfam01368 1167006000046 DHHA1 domain; Region: DHHA1; pfam02272 1167006000047 Ribosome-binding factor A; Region: RBFA; pfam02033 1167006000048 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1167006000049 translation initiation factor IF-2; Region: IF-2; TIGR00487 1167006000050 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1167006000051 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1167006000052 G1 box; other site 1167006000053 putative GEF interaction site [polypeptide binding]; other site 1167006000054 GTP/Mg2+ binding site [chemical binding]; other site 1167006000055 Switch I region; other site 1167006000056 G2 box; other site 1167006000057 G3 box; other site 1167006000058 Switch II region; other site 1167006000059 G4 box; other site 1167006000060 G5 box; other site 1167006000061 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 1167006000062 Translation-initiation factor 2; Region: IF-2; pfam11987 1167006000063 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 1167006000064 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1167006000065 NusA N-terminal domain; Region: NusA_N; pfam08529 1167006000066 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 1167006000067 RNA binding site [nucleotide binding]; other site 1167006000068 homodimer interface [polypeptide binding]; other site 1167006000069 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 1167006000070 G-X-X-G motif; other site 1167006000071 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 1167006000072 G-X-X-G motif; other site 1167006000073 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1167006000074 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1167006000075 hypothetical protein; Provisional; Region: PRK14641 1167006000076 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1167006000077 putative oligomer interface [polypeptide binding]; other site 1167006000078 putative RNA binding site [nucleotide binding]; other site 1167006000079 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1167006000080 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1167006000081 DNA topoisomerase III; Validated; Region: PRK08173 1167006000082 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1167006000083 active site 1167006000084 putative interdomain interaction site [polypeptide binding]; other site 1167006000085 putative metal-binding site [ion binding]; other site 1167006000086 putative nucleotide binding site [chemical binding]; other site 1167006000087 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 1167006000088 domain I; other site 1167006000089 DNA binding groove [nucleotide binding] 1167006000090 phosphate binding site [ion binding]; other site 1167006000091 domain II; other site 1167006000092 domain III; other site 1167006000093 nucleotide binding site [chemical binding]; other site 1167006000094 catalytic site [active] 1167006000095 domain IV; other site 1167006000096 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1167006000097 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1167006000098 Oligomerisation domain; Region: Oligomerisation; pfam02410 1167006000099 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1167006000100 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 1167006000101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006000102 catalytic residue [active] 1167006000103 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1167006000104 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1167006000105 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1167006000106 active site 1167006000107 putative substrate binding pocket [chemical binding]; other site 1167006000108 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 1167006000109 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1167006000110 PilZ domain; Region: PilZ; pfam07238 1167006000111 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1167006000112 putative active site [active] 1167006000113 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1167006000114 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1167006000115 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006000116 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 1167006000117 active site 1167006000118 FMN binding site [chemical binding]; other site 1167006000119 substrate binding site [chemical binding]; other site 1167006000120 3Fe-4S cluster binding site [ion binding]; other site 1167006000121 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 1167006000122 domain_subunit interface; other site 1167006000123 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1167006000124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006000125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006000126 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006000127 Transglycosylase; Region: Transgly; pfam00912 1167006000128 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1167006000129 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1167006000130 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1167006000131 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1167006000132 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1167006000133 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006000134 active site 1167006000135 metal binding site [ion binding]; metal-binding site 1167006000136 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1167006000137 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000138 ATP binding site [chemical binding]; other site 1167006000139 Mg2+ binding site [ion binding]; other site 1167006000140 G-X-G motif; other site 1167006000141 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 1167006000142 ATP binding site [chemical binding]; other site 1167006000143 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1167006000144 3D domain; Region: 3D; cl01439 1167006000145 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1167006000146 Glucose inhibited division protein A; Region: GIDA; pfam01134 1167006000147 Peptidase family M48; Region: Peptidase_M48; pfam01435 1167006000148 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006000149 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 1167006000150 dimerization interface [polypeptide binding]; other site 1167006000151 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1167006000152 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006000153 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1167006000154 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 1167006000155 active site residue [active] 1167006000156 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 1167006000157 active site residue [active] 1167006000158 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1167006000159 active site 1167006000160 metal binding site [ion binding]; metal-binding site 1167006000161 interdomain interaction site; other site 1167006000162 AAA domain; Region: AAA_25; pfam13481 1167006000163 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 1167006000164 Walker A motif; other site 1167006000165 ATP binding site [chemical binding]; other site 1167006000166 Walker B motif; other site 1167006000167 HEAT repeats; Region: HEAT_2; pfam13646 1167006000168 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006000169 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 1167006000170 ligand binding site [chemical binding]; other site 1167006000171 flexible hinge region; other site 1167006000172 PilZ domain; Region: PilZ; pfam07238 1167006000173 Maf-like protein; Region: Maf; pfam02545 1167006000174 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 1167006000175 active site 1167006000176 dimer interface [polypeptide binding]; other site 1167006000177 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006000178 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 1167006000179 ligand binding site [chemical binding]; other site 1167006000180 flexible hinge region; other site 1167006000181 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006000182 active site 1167006000183 metal binding site [ion binding]; metal-binding site 1167006000184 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 1167006000185 ParB-like nuclease domain; Region: ParB; smart00470 1167006000186 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1167006000187 AsnC family; Region: AsnC_trans_reg; pfam01037 1167006000188 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1167006000189 Domain of unknown function (DUF362); Region: DUF362; pfam04015 1167006000190 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006000191 GAF domain; Region: GAF_2; pfam13185 1167006000192 PAS domain; Region: PAS_9; pfam13426 1167006000193 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000194 putative active site [active] 1167006000195 heme pocket [chemical binding]; other site 1167006000196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006000197 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 1167006000198 dimer interface [polypeptide binding]; other site 1167006000199 phosphorylation site [posttranslational modification] 1167006000200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000201 ATP binding site [chemical binding]; other site 1167006000202 G-X-G motif; other site 1167006000203 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006000204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000205 active site 1167006000206 phosphorylation site [posttranslational modification] 1167006000207 intermolecular recognition site; other site 1167006000208 dimerization interface [polypeptide binding]; other site 1167006000209 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006000210 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006000211 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 1167006000212 dimerization interface [polypeptide binding]; other site 1167006000213 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1167006000214 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1167006000215 putative ligand binding site [chemical binding]; other site 1167006000216 putative NAD binding site [chemical binding]; other site 1167006000217 putative catalytic site [active] 1167006000218 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1167006000219 L-serine binding site [chemical binding]; other site 1167006000220 ACT domain interface; other site 1167006000221 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006000222 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1167006000223 Zn binding site [ion binding]; other site 1167006000224 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1167006000225 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 1167006000226 hypothetical protein; Validated; Region: PRK02101 1167006000227 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 1167006000228 dihydropteroate synthase; Region: DHPS; TIGR01496 1167006000229 substrate binding pocket [chemical binding]; other site 1167006000230 dimer interface [polypeptide binding]; other site 1167006000231 inhibitor binding site; inhibition site 1167006000232 FtsH Extracellular; Region: FtsH_ext; pfam06480 1167006000233 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1167006000234 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 1167006000235 Walker A motif; other site 1167006000236 ATP binding site [chemical binding]; other site 1167006000237 Walker B motif; other site 1167006000238 arginine finger; other site 1167006000239 Peptidase family M41; Region: Peptidase_M41; pfam01434 1167006000240 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1167006000241 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006000242 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1167006000243 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1167006000244 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006000245 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006000246 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 1167006000247 IMP binding site; other site 1167006000248 dimer interface [polypeptide binding]; other site 1167006000249 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1167006000250 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1167006000251 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1167006000252 catalytic site [active] 1167006000253 subunit interface [polypeptide binding]; other site 1167006000254 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 1167006000255 active site 1167006000256 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1167006000257 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1167006000258 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006000259 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006000260 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1167006000261 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1167006000262 active site 1167006000263 HIGH motif; other site 1167006000264 dimer interface [polypeptide binding]; other site 1167006000265 KMSKS motif; other site 1167006000266 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1167006000267 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1167006000268 nucleotide binding site [chemical binding]; other site 1167006000269 NEF interaction site [polypeptide binding]; other site 1167006000270 SBD interface [polypeptide binding]; other site 1167006000271 GrpE; Region: GrpE; pfam01025 1167006000272 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 1167006000273 dimer interface [polypeptide binding]; other site 1167006000274 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1167006000275 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1167006000276 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 1167006000277 FeS/SAM binding site; other site 1167006000278 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1167006000279 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1167006000280 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 1167006000281 substrate binding site [chemical binding]; other site 1167006000282 active site 1167006000283 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006000284 Zn2+ binding site [ion binding]; other site 1167006000285 Mg2+ binding site [ion binding]; other site 1167006000286 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1167006000287 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1167006000288 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 1167006000289 putative substrate translocation pore; other site 1167006000290 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1167006000291 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1167006000292 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 1167006000293 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006000294 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1167006000295 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1167006000296 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1167006000297 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 1167006000298 DNA binding site [nucleotide binding] 1167006000299 active site 1167006000300 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1167006000301 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 1167006000302 ribonuclease PH; Reviewed; Region: rph; PRK00173 1167006000303 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1167006000304 oligomer interface [polypeptide binding]; other site 1167006000305 RNA binding site [nucleotide binding]; other site 1167006000306 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1167006000307 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1167006000308 acyl-activating enzyme (AAE) consensus motif; other site 1167006000309 AMP binding site [chemical binding]; other site 1167006000310 active site 1167006000311 CoA binding site [chemical binding]; other site 1167006000312 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1167006000313 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1167006000314 Walker A/P-loop; other site 1167006000315 ATP binding site [chemical binding]; other site 1167006000316 Q-loop/lid; other site 1167006000317 ABC transporter signature motif; other site 1167006000318 Walker B; other site 1167006000319 D-loop; other site 1167006000320 H-loop/switch region; other site 1167006000321 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1167006000322 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1167006000323 Walker A/P-loop; other site 1167006000324 ATP binding site [chemical binding]; other site 1167006000325 Q-loop/lid; other site 1167006000326 ABC transporter signature motif; other site 1167006000327 Walker B; other site 1167006000328 D-loop; other site 1167006000329 H-loop/switch region; other site 1167006000330 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1167006000331 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 1167006000332 TM-ABC transporter signature motif; other site 1167006000333 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1167006000334 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 1167006000335 TM-ABC transporter signature motif; other site 1167006000336 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1167006000337 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1167006000338 putative ligand binding site [chemical binding]; other site 1167006000339 ACT domain-containing protein [General function prediction only]; Region: COG4747 1167006000340 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 1167006000341 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 1167006000342 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1167006000343 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1167006000344 acyl-activating enzyme (AAE) consensus motif; other site 1167006000345 AMP binding site [chemical binding]; other site 1167006000346 active site 1167006000347 CoA binding site [chemical binding]; other site 1167006000348 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 1167006000349 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1167006000350 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 1167006000351 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1167006000352 dimer interface [polypeptide binding]; other site 1167006000353 PYR/PP interface [polypeptide binding]; other site 1167006000354 TPP binding site [chemical binding]; other site 1167006000355 substrate binding site [chemical binding]; other site 1167006000356 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1167006000357 TPP-binding site; other site 1167006000358 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1167006000359 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1167006000360 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1167006000361 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1167006000362 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1167006000363 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 1167006000364 HDOD domain; Region: HDOD; pfam08668 1167006000365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006000366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006000367 metal binding site [ion binding]; metal-binding site 1167006000368 active site 1167006000369 I-site; other site 1167006000370 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1167006000371 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006000372 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006000373 ABC transporter; Region: ABC_tran_2; pfam12848 1167006000374 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006000375 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006000376 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 1167006000377 FeS/SAM binding site; other site 1167006000378 ribonuclease III; Reviewed; Region: rnc; PRK00102 1167006000379 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 1167006000380 dimerization interface [polypeptide binding]; other site 1167006000381 active site 1167006000382 metal binding site [ion binding]; metal-binding site 1167006000383 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 1167006000384 dsRNA binding site [nucleotide binding]; other site 1167006000385 TPR repeat; Region: TPR_11; pfam13414 1167006000386 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 1167006000387 binding surface 1167006000388 TPR motif; other site 1167006000389 TPR repeat; Region: TPR_11; pfam13414 1167006000390 serine O-acetyltransferase; Region: cysE; TIGR01172 1167006000391 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 1167006000392 trimer interface [polypeptide binding]; other site 1167006000393 active site 1167006000394 substrate binding site [chemical binding]; other site 1167006000395 CoA binding site [chemical binding]; other site 1167006000396 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1167006000397 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 1167006000398 dimer interface [polypeptide binding]; other site 1167006000399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006000400 catalytic residue [active] 1167006000401 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1167006000402 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 1167006000403 FeS/SAM binding site; other site 1167006000404 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1167006000405 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1167006000406 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006000407 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 1167006000408 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006000409 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1167006000410 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1167006000411 active site 1167006000412 Zn binding site [ion binding]; other site 1167006000413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1167006000414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006000415 Coenzyme A binding pocket [chemical binding]; other site 1167006000416 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1167006000417 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1167006000418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1167006000419 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1167006000420 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006000421 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006000422 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1167006000423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1167006000424 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1167006000425 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1167006000426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1167006000427 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006000428 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1167006000429 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006000430 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006000431 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000432 putative active site [active] 1167006000433 heme pocket [chemical binding]; other site 1167006000434 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 1167006000435 dimer interface [polypeptide binding]; other site 1167006000436 phosphorylation site [posttranslational modification] 1167006000437 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000438 ATP binding site [chemical binding]; other site 1167006000439 Mg2+ binding site [ion binding]; other site 1167006000440 G-X-G motif; other site 1167006000441 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006000442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000443 active site 1167006000444 phosphorylation site [posttranslational modification] 1167006000445 intermolecular recognition site; other site 1167006000446 dimerization interface [polypeptide binding]; other site 1167006000447 PAS domain S-box; Region: sensory_box; TIGR00229 1167006000448 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000449 putative active site [active] 1167006000450 heme pocket [chemical binding]; other site 1167006000451 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 1167006000452 dimer interface [polypeptide binding]; other site 1167006000453 phosphorylation site [posttranslational modification] 1167006000454 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000455 ATP binding site [chemical binding]; other site 1167006000456 Mg2+ binding site [ion binding]; other site 1167006000457 G-X-G motif; other site 1167006000458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000459 active site 1167006000460 phosphorylation site [posttranslational modification] 1167006000461 intermolecular recognition site; other site 1167006000462 dimerization interface [polypeptide binding]; other site 1167006000463 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1167006000464 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1167006000465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006000466 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1167006000467 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 1167006000468 FeS/SAM binding site; other site 1167006000469 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1167006000470 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1167006000471 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006000472 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 1167006000473 FeS/SAM binding site; other site 1167006000474 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1167006000475 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1167006000476 putative acyl-acceptor binding pocket; other site 1167006000477 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1167006000478 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 1167006000479 dimer interface [polypeptide binding]; other site 1167006000480 active site 1167006000481 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1167006000482 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006000483 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000484 putative active site [active] 1167006000485 heme pocket [chemical binding]; other site 1167006000486 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 1167006000487 dimer interface [polypeptide binding]; other site 1167006000488 phosphorylation site [posttranslational modification] 1167006000489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000490 ATP binding site [chemical binding]; other site 1167006000491 G-X-G motif; other site 1167006000492 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1167006000493 putative acyl-acceptor binding pocket; other site 1167006000494 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1167006000495 Ligand binding site; other site 1167006000496 Putative Catalytic site; other site 1167006000497 DXD motif; other site 1167006000498 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1167006000499 DAK2 domain; Region: Dak2; cl03685 1167006000500 EDD domain protein, DegV family; Region: DegV; TIGR00762 1167006000501 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1167006000502 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1167006000503 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1167006000504 AMP binding site [chemical binding]; other site 1167006000505 active site 1167006000506 acyl-activating enzyme (AAE) consensus motif; other site 1167006000507 CoA binding site [chemical binding]; other site 1167006000508 B12 binding domain; Region: B12-binding; pfam02310 1167006000509 B12 binding site [chemical binding]; other site 1167006000510 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006000511 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1167006000512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006000513 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1167006000514 NAD(P) binding site [chemical binding]; other site 1167006000515 active site 1167006000516 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1167006000517 active site 2 [active] 1167006000518 active site 1 [active] 1167006000519 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006000520 B12 binding site [chemical binding]; other site 1167006000521 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006000522 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 1167006000523 FeS/SAM binding site; other site 1167006000524 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1167006000525 HAMP domain; Region: HAMP; pfam00672 1167006000526 PAS domain S-box; Region: sensory_box; TIGR00229 1167006000527 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1167006000528 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000529 putative active site [active] 1167006000530 heme pocket [chemical binding]; other site 1167006000531 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 1167006000532 dimer interface [polypeptide binding]; other site 1167006000533 phosphorylation site [posttranslational modification] 1167006000534 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000535 ATP binding site [chemical binding]; other site 1167006000536 Mg2+ binding site [ion binding]; other site 1167006000537 G-X-G motif; other site 1167006000538 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006000539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000540 active site 1167006000541 phosphorylation site [posttranslational modification] 1167006000542 intermolecular recognition site; other site 1167006000543 dimerization interface [polypeptide binding]; other site 1167006000544 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1167006000545 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1167006000546 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 1167006000547 dimer interface [polypeptide binding]; other site 1167006000548 active site 1167006000549 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 1167006000550 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006000551 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 1167006000552 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006000553 FeS/SAM binding site; other site 1167006000554 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1167006000555 active site 2 [active] 1167006000556 active site 1 [active] 1167006000557 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1167006000558 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 1167006000559 FeS/SAM binding site; other site 1167006000560 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 1167006000561 FeS/SAM binding site; other site 1167006000562 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1167006000563 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 1167006000564 dimer interface [polypeptide binding]; other site 1167006000565 active site 1167006000566 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1167006000567 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 1167006000568 dimer interface [polypeptide binding]; other site 1167006000569 active site 1167006000570 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 1167006000571 active site 1167006000572 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 1167006000573 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; cl01298 1167006000574 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006000575 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006000576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000577 putative active site [active] 1167006000578 heme pocket [chemical binding]; other site 1167006000579 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 1167006000580 dimer interface [polypeptide binding]; other site 1167006000581 phosphorylation site [posttranslational modification] 1167006000582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000583 ATP binding site [chemical binding]; other site 1167006000584 Mg2+ binding site [ion binding]; other site 1167006000585 G-X-G motif; other site 1167006000586 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006000587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000588 active site 1167006000589 phosphorylation site [posttranslational modification] 1167006000590 intermolecular recognition site; other site 1167006000591 dimerization interface [polypeptide binding]; other site 1167006000592 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 1167006000593 substrate binding pocket [chemical binding]; other site 1167006000594 membrane-bound complex binding site; other site 1167006000595 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1167006000596 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1167006000597 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1167006000598 putative [4Fe-4S] binding site [ion binding]; other site 1167006000599 putative molybdopterin cofactor binding site [chemical binding]; other site 1167006000600 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1167006000601 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1167006000602 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1167006000603 NodB motif; other site 1167006000604 active site 1167006000605 catalytic site [active] 1167006000606 metal binding site [ion binding]; metal-binding site 1167006000607 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1167006000608 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 1167006000609 active site 1167006000610 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1167006000611 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1167006000612 exonuclease I; Provisional; Region: sbcB; PRK11779 1167006000613 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1167006000614 active site 1167006000615 catalytic site [active] 1167006000616 substrate binding site [chemical binding]; other site 1167006000617 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1167006000618 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006000619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000620 active site 1167006000621 phosphorylation site [posttranslational modification] 1167006000622 intermolecular recognition site; other site 1167006000623 dimerization interface [polypeptide binding]; other site 1167006000624 Heme NO binding associated; Region: HNOBA; pfam07701 1167006000625 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1167006000626 cyclase homology domain; Region: CHD; cd07302 1167006000627 nucleotidyl binding site; other site 1167006000628 metal binding site [ion binding]; metal-binding site 1167006000629 dimer interface [polypeptide binding]; other site 1167006000630 Ion channel; Region: Ion_trans_2; pfam07885 1167006000631 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1167006000632 TrkA-N domain; Region: TrkA_N; pfam02254 1167006000633 TrkA-C domain; Region: TrkA_C; pfam02080 1167006000634 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1167006000635 TrkA-N domain; Region: TrkA_N; pfam02254 1167006000636 TrkA-C domain; Region: TrkA_C; pfam02080 1167006000637 PilZ domain; Region: PilZ; pfam07238 1167006000638 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1167006000639 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1167006000640 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1167006000641 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 1167006000642 putative FMN binding site [chemical binding]; other site 1167006000643 Protein of unknown function DUF45; Region: DUF45; pfam01863 1167006000644 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006000645 active site residue [active] 1167006000646 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1167006000647 diiron binding motif [ion binding]; other site 1167006000648 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 1167006000649 dimerization interface [polypeptide binding]; other site 1167006000650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006000651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006000652 dimer interface [polypeptide binding]; other site 1167006000653 putative CheW interface [polypeptide binding]; other site 1167006000654 EamA-like transporter family; Region: EamA; pfam00892 1167006000655 EamA-like transporter family; Region: EamA; pfam00892 1167006000656 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006000657 Predicted permeases [General function prediction only]; Region: COG0679 1167006000658 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006000659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006000660 metal binding site [ion binding]; metal-binding site 1167006000661 active site 1167006000662 I-site; other site 1167006000663 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1167006000664 Protein of unknown function, DUF; Region: DUF413; cl10479 1167006000665 CHAD domain; Region: CHAD; pfam05235 1167006000666 CARDB; Region: CARDB; pfam07705 1167006000667 CARDB; Region: CARDB; pfam07705 1167006000668 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1167006000669 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 1167006000670 dimerization interface [polypeptide binding]; other site 1167006000671 active site 1167006000672 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1167006000673 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1167006000674 HIGH motif; other site 1167006000675 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1167006000676 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1167006000677 active site 1167006000678 KMSKS motif; other site 1167006000679 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1167006000680 tRNA binding surface [nucleotide binding]; other site 1167006000681 anticodon binding site; other site 1167006000682 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1167006000683 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1167006000684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006000685 Zn2+ binding site [ion binding]; other site 1167006000686 Mg2+ binding site [ion binding]; other site 1167006000687 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1167006000688 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1167006000689 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1167006000690 Cysteine-rich domain; Region: CCG; pfam02754 1167006000691 Cysteine-rich domain; Region: CCG; pfam02754 1167006000692 peptide chain release factor 2; Provisional; Region: PRK05589 1167006000693 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1167006000694 RF-1 domain; Region: RF-1; pfam00472 1167006000695 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1167006000696 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1167006000697 putative active site [active] 1167006000698 catalytic triad [active] 1167006000699 putative dimer interface [polypeptide binding]; other site 1167006000700 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006000701 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 1167006000702 Transporter associated domain; Region: CorC_HlyC; smart01091 1167006000703 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1167006000704 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006000705 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006000706 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1167006000707 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1167006000708 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1167006000709 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1167006000710 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1167006000711 PilZ domain; Region: PilZ; pfam07238 1167006000712 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1167006000713 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 1167006000714 non-specific DNA binding site [nucleotide binding]; other site 1167006000715 salt bridge; other site 1167006000716 sequence-specific DNA binding site [nucleotide binding]; other site 1167006000717 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1167006000718 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 1167006000719 ATP binding site [chemical binding]; other site 1167006000720 Mg++ binding site [ion binding]; other site 1167006000721 motif III; other site 1167006000722 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 1167006000723 nucleotide binding region [chemical binding]; other site 1167006000724 ATP-binding site [chemical binding]; other site 1167006000725 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006000726 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 1167006000727 substrate binding pocket [chemical binding]; other site 1167006000728 membrane-bound complex binding site; other site 1167006000729 hinge residues; other site 1167006000730 PAS domain S-box; Region: sensory_box; TIGR00229 1167006000731 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000732 putative active site [active] 1167006000733 heme pocket [chemical binding]; other site 1167006000734 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006000735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006000736 metal binding site [ion binding]; metal-binding site 1167006000737 active site 1167006000738 I-site; other site 1167006000739 PilZ domain; Region: PilZ; pfam07238 1167006000740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006000741 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 1167006000742 substrate binding pocket [chemical binding]; other site 1167006000743 membrane-bound complex binding site; other site 1167006000744 hinge residues; other site 1167006000745 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000746 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006000747 putative active site [active] 1167006000748 heme pocket [chemical binding]; other site 1167006000749 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006000750 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000751 putative active site [active] 1167006000752 heme pocket [chemical binding]; other site 1167006000753 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 1167006000754 dimer interface [polypeptide binding]; other site 1167006000755 phosphorylation site [posttranslational modification] 1167006000756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000757 ATP binding site [chemical binding]; other site 1167006000758 Mg2+ binding site [ion binding]; other site 1167006000759 G-X-G motif; other site 1167006000760 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006000761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000762 active site 1167006000763 phosphorylation site [posttranslational modification] 1167006000764 intermolecular recognition site; other site 1167006000765 dimerization interface [polypeptide binding]; other site 1167006000766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1167006000767 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1167006000768 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1167006000769 putative dimerization interface [polypeptide binding]; other site 1167006000770 ketol-acid reductoisomerase; Validated; Region: PRK05225 1167006000771 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1167006000772 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1167006000773 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1167006000774 Sodium Bile acid symporter family; Region: SBF; cl17470 1167006000775 GAF domain; Region: GAF; cl17456 1167006000776 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006000777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006000778 metal binding site [ion binding]; metal-binding site 1167006000779 active site 1167006000780 I-site; other site 1167006000781 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1167006000782 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 1167006000783 active site 1167006000784 dimer interface [polypeptide binding]; other site 1167006000785 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1167006000786 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 1167006000787 active site 1167006000788 FMN binding site [chemical binding]; other site 1167006000789 substrate binding site [chemical binding]; other site 1167006000790 3Fe-4S cluster binding site [ion binding]; other site 1167006000791 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 1167006000792 domain interface; other site 1167006000793 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1167006000794 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 1167006000795 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1167006000796 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006000797 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1167006000798 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006000799 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1167006000800 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1167006000801 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1167006000802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006000803 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1167006000804 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 1167006000805 active site 1167006000806 catalytic residues [active] 1167006000807 DNA binding site [nucleotide binding] 1167006000808 Int/Topo IB signature motif; other site 1167006000809 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1167006000810 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 1167006000811 homodimer interface [polypeptide binding]; other site 1167006000812 oligonucleotide binding site [chemical binding]; other site 1167006000813 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1167006000814 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1167006000815 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1167006000816 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 1167006000817 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006000818 catalytic residue [active] 1167006000819 MltA specific insert domain; Region: MltA; smart00925 1167006000820 3D domain; Region: 3D; pfam06725 1167006000821 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 1167006000822 S-adenosylmethionine binding site [chemical binding]; other site 1167006000823 NlpC/P60 family; Region: NLPC_P60; pfam00877 1167006000824 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1167006000825 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1167006000826 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 1167006000827 hinge; other site 1167006000828 active site 1167006000829 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1167006000830 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1167006000831 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1167006000832 shikimate binding site; other site 1167006000833 NAD(P) binding site [chemical binding]; other site 1167006000834 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1167006000835 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1167006000836 active site 1167006000837 catalytic residue [active] 1167006000838 dimer interface [polypeptide binding]; other site 1167006000839 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1167006000840 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1167006000841 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1167006000842 heterodimer interface [polypeptide binding]; other site 1167006000843 active site 1167006000844 FMN binding site [chemical binding]; other site 1167006000845 homodimer interface [polypeptide binding]; other site 1167006000846 substrate binding site [chemical binding]; other site 1167006000847 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1167006000848 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1167006000849 FAD binding pocket [chemical binding]; other site 1167006000850 FAD binding motif [chemical binding]; other site 1167006000851 phosphate binding motif [ion binding]; other site 1167006000852 beta-alpha-beta structure motif; other site 1167006000853 NAD binding pocket [chemical binding]; other site 1167006000854 Iron coordination center [ion binding]; other site 1167006000855 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1167006000856 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1167006000857 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1167006000858 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1167006000859 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1167006000860 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006000861 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006000862 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006000863 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1167006000864 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1167006000865 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 1167006000866 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1167006000867 C-terminal peptidase (prc); Region: prc; TIGR00225 1167006000868 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 1167006000869 protein binding site [polypeptide binding]; other site 1167006000870 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1167006000871 Catalytic dyad [active] 1167006000872 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1167006000873 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1167006000874 homodimer interface [polypeptide binding]; other site 1167006000875 chemical substrate binding site [chemical binding]; other site 1167006000876 oligomer interface [polypeptide binding]; other site 1167006000877 metal binding site [ion binding]; metal-binding site 1167006000878 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1167006000879 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1167006000880 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1167006000881 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1167006000882 phosphopeptide binding site; other site 1167006000883 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1167006000884 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 1167006000885 ATP binding site [chemical binding]; other site 1167006000886 Walker A motif; other site 1167006000887 hexamer interface [polypeptide binding]; other site 1167006000888 Walker B motif; other site 1167006000889 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1167006000890 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1167006000891 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1167006000892 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1167006000893 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 1167006000894 binding surface 1167006000895 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006000896 TPR motif; other site 1167006000897 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1167006000898 TadE-like protein; Region: TadE; pfam07811 1167006000899 PilZ domain; Region: PilZ; pfam07238 1167006000900 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1167006000901 G1 box; other site 1167006000902 GTP/Mg2+ binding site [chemical binding]; other site 1167006000903 G2 box; other site 1167006000904 Switch I region; other site 1167006000905 G3 box; other site 1167006000906 Switch II region; other site 1167006000907 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1167006000908 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1167006000909 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006000910 EamA-like transporter family; Region: EamA; pfam00892 1167006000911 EamA-like transporter family; Region: EamA; pfam00892 1167006000912 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 1167006000913 Pleckstrin homology-like domain; Region: PH-like; cl17171 1167006000914 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006000915 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 1167006000916 dimerization interface [polypeptide binding]; other site 1167006000917 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006000918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006000919 dimer interface [polypeptide binding]; other site 1167006000920 putative CheW interface [polypeptide binding]; other site 1167006000921 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1167006000922 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006000923 putative active site [active] 1167006000924 heme pocket [chemical binding]; other site 1167006000925 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006000926 putative active site [active] 1167006000927 heme pocket [chemical binding]; other site 1167006000928 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 1167006000929 dimer interface [polypeptide binding]; other site 1167006000930 phosphorylation site [posttranslational modification] 1167006000931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000932 ATP binding site [chemical binding]; other site 1167006000933 Mg2+ binding site [ion binding]; other site 1167006000934 G-X-G motif; other site 1167006000935 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006000936 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006000937 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 1167006000938 dimer interface [polypeptide binding]; other site 1167006000939 phosphorylation site [posttranslational modification] 1167006000940 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006000941 ATP binding site [chemical binding]; other site 1167006000942 Mg2+ binding site [ion binding]; other site 1167006000943 G-X-G motif; other site 1167006000944 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006000945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006000946 active site 1167006000947 phosphorylation site [posttranslational modification] 1167006000948 intermolecular recognition site; other site 1167006000949 dimerization interface [polypeptide binding]; other site 1167006000950 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1167006000951 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1167006000952 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1167006000953 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1167006000954 Transglycosylase; Region: Transgly; pfam00912 1167006000955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1167006000956 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 1167006000957 binding surface 1167006000958 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006000959 TPR motif; other site 1167006000960 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 1167006000961 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1167006000962 active site 1 [active] 1167006000963 dimer interface [polypeptide binding]; other site 1167006000964 hexamer interface [polypeptide binding]; other site 1167006000965 active site 2 [active] 1167006000966 Cupin domain; Region: Cupin_2; pfam07883 1167006000967 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1167006000968 Sulphur transport; Region: Sulf_transp; pfam04143 1167006000969 Sulphur transport; Region: Sulf_transp; pfam04143 1167006000970 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1167006000971 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 1167006000972 Tim44-like domain; Region: Tim44; pfam04280 1167006000973 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1167006000974 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006000975 B12 binding site [chemical binding]; other site 1167006000976 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006000977 flavoprotein, HI0933 family; Region: TIGR00275 1167006000978 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1167006000979 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1167006000980 shikimate kinase; Reviewed; Region: aroK; PRK00131 1167006000981 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 1167006000982 ADP binding site [chemical binding]; other site 1167006000983 magnesium binding site [ion binding]; other site 1167006000984 putative shikimate binding site; other site 1167006000985 hypothetical protein; Provisional; Region: PRK09256 1167006000986 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1167006000987 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1167006000988 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 1167006000989 RNase_H superfamily; Region: RNase_H_2; pfam13482 1167006000990 active site 1167006000991 substrate binding site [chemical binding]; other site 1167006000992 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1167006000993 HDOD domain; Region: HDOD; pfam08668 1167006000994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006000995 Zn2+ binding site [ion binding]; other site 1167006000996 Mg2+ binding site [ion binding]; other site 1167006000997 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1167006000998 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1167006000999 putative ATP binding site [chemical binding]; other site 1167006001000 putative substrate interface [chemical binding]; other site 1167006001001 CAAX protease self-immunity; Region: Abi; cl00558 1167006001002 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 1167006001003 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1167006001004 active site 1167006001005 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1167006001006 elongation factor G; Reviewed; Region: PRK12740 1167006001007 G1 box; other site 1167006001008 putative GEF interaction site [polypeptide binding]; other site 1167006001009 GTP/Mg2+ binding site [chemical binding]; other site 1167006001010 Switch I region; other site 1167006001011 G2 box; other site 1167006001012 G3 box; other site 1167006001013 Switch II region; other site 1167006001014 G4 box; other site 1167006001015 G5 box; other site 1167006001016 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 1167006001017 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 1167006001018 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 1167006001019 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 1167006001020 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 1167006001021 molybdopterin cofactor binding site; other site 1167006001022 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1167006001023 molybdopterin cofactor binding site; other site 1167006001024 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 1167006001025 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1167006001026 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1167006001027 FAD binding pocket [chemical binding]; other site 1167006001028 FAD binding motif [chemical binding]; other site 1167006001029 phosphate binding motif [ion binding]; other site 1167006001030 beta-alpha-beta structure motif; other site 1167006001031 NAD binding pocket [chemical binding]; other site 1167006001032 Iron coordination center [ion binding]; other site 1167006001033 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1167006001034 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 1167006001035 catalytic loop [active] 1167006001036 iron binding site [ion binding]; other site 1167006001037 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001039 active site 1167006001040 phosphorylation site [posttranslational modification] 1167006001041 intermolecular recognition site; other site 1167006001042 dimerization interface [polypeptide binding]; other site 1167006001043 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 1167006001044 domain interfaces; other site 1167006001045 pyruvate kinase; Provisional; Region: PRK05826 1167006001046 active site 1167006001047 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006001048 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 1167006001049 ligand binding site [chemical binding]; other site 1167006001050 flexible hinge region; other site 1167006001051 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001053 active site 1167006001054 phosphorylation site [posttranslational modification] 1167006001055 intermolecular recognition site; other site 1167006001056 dimerization interface [polypeptide binding]; other site 1167006001057 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006001058 Hemerythrin; Region: Hemerythrin; cd12107 1167006001059 Fe binding site [ion binding]; other site 1167006001060 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006001061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006001062 metal binding site [ion binding]; metal-binding site 1167006001063 active site 1167006001064 I-site; other site 1167006001065 PAS domain S-box; Region: sensory_box; TIGR00229 1167006001066 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001067 putative active site [active] 1167006001068 heme pocket [chemical binding]; other site 1167006001069 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006001070 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001071 putative active site [active] 1167006001072 heme pocket [chemical binding]; other site 1167006001073 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 1167006001074 dimer interface [polypeptide binding]; other site 1167006001075 phosphorylation site [posttranslational modification] 1167006001076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001077 ATP binding site [chemical binding]; other site 1167006001078 G-X-G motif; other site 1167006001079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006001080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001081 active site 1167006001082 phosphorylation site [posttranslational modification] 1167006001083 intermolecular recognition site; other site 1167006001084 dimerization interface [polypeptide binding]; other site 1167006001085 Omptin family; Region: Omptin; cl01886 1167006001086 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006001087 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 1167006001088 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1167006001089 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 1167006001090 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1167006001091 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1167006001092 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 1167006001093 putative active site [active] 1167006001094 phosphogluconate dehydratase; Validated; Region: PRK09054 1167006001095 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1167006001096 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1167006001097 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1167006001098 active site 1167006001099 intersubunit interface [polypeptide binding]; other site 1167006001100 catalytic residue [active] 1167006001101 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1167006001102 active site 1167006001103 phosphate binding residues; other site 1167006001104 catalytic residues [active] 1167006001105 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 1167006001106 homodimer interface [polypeptide binding]; other site 1167006001107 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1167006001108 active site pocket [active] 1167006001109 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1167006001110 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1167006001111 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1167006001112 pyruvate kinase; Provisional; Region: PRK05826 1167006001113 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 1167006001114 domain interfaces; other site 1167006001115 active site 1167006001116 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1167006001117 propionate/acetate kinase; Provisional; Region: PRK12379 1167006001118 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1167006001119 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1167006001120 dimer interface [polypeptide binding]; other site 1167006001121 active site 1167006001122 heme binding site [chemical binding]; other site 1167006001123 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1167006001124 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006001125 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1167006001126 binuclear metal center [ion binding]; other site 1167006001127 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 1167006001128 iron binding site [ion binding]; other site 1167006001129 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006001130 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1167006001131 binuclear metal center [ion binding]; other site 1167006001132 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1167006001133 iron binding site [ion binding]; other site 1167006001134 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1167006001135 metal binding site 2 [ion binding]; metal-binding site 1167006001136 putative DNA binding helix; other site 1167006001137 metal binding site 1 [ion binding]; metal-binding site 1167006001138 dimer interface [polypeptide binding]; other site 1167006001139 structural Zn2+ binding site [ion binding]; other site 1167006001140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001141 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006001142 putative active site [active] 1167006001143 heme pocket [chemical binding]; other site 1167006001144 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001145 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006001146 putative active site [active] 1167006001147 heme pocket [chemical binding]; other site 1167006001148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006001149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001150 ATP binding site [chemical binding]; other site 1167006001151 Mg2+ binding site [ion binding]; other site 1167006001152 G-X-G motif; other site 1167006001153 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001155 active site 1167006001156 phosphorylation site [posttranslational modification] 1167006001157 intermolecular recognition site; other site 1167006001158 dimerization interface [polypeptide binding]; other site 1167006001159 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1167006001160 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006001161 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1167006001162 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1167006001163 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1167006001164 catalytic triad [active] 1167006001165 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 1167006001166 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 1167006001167 active site 1167006001168 catalytic residues [active] 1167006001169 metal binding site [ion binding]; metal-binding site 1167006001170 Nif-specific regulatory protein; Region: nifA; TIGR01817 1167006001171 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006001172 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 1167006001173 Walker A motif; other site 1167006001174 ATP binding site [chemical binding]; other site 1167006001175 Walker B motif; other site 1167006001176 arginine finger; other site 1167006001177 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006001178 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006001179 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1167006001180 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006001181 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 1167006001182 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1167006001183 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 1167006001184 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1167006001185 Nucleotide-binding sites [chemical binding]; other site 1167006001186 Walker A motif; other site 1167006001187 Switch I region of nucleotide binding site; other site 1167006001188 Fe4S4 binding sites [ion binding]; other site 1167006001189 Switch II region of nucleotide binding site; other site 1167006001190 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1167006001191 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006001192 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1167006001193 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006001194 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 1167006001195 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1167006001196 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1167006001197 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1167006001198 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1167006001199 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1167006001200 dimer interface [polypeptide binding]; other site 1167006001201 [2Fe-2S] cluster binding site [ion binding]; other site 1167006001202 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006001203 ArsC family; Region: ArsC; pfam03960 1167006001204 putative acetyltransferase; Provisional; Region: PRK03624 1167006001205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006001206 Coenzyme A binding pocket [chemical binding]; other site 1167006001207 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 1167006001208 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 1167006001209 Ligand Binding Site [chemical binding]; other site 1167006001210 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1167006001211 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1167006001212 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1167006001213 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1167006001214 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1167006001215 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 1167006001216 FeS/SAM binding site; other site 1167006001217 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1167006001218 Predicted membrane protein [Function unknown]; Region: COG1971 1167006001219 Domain of unknown function DUF; Region: DUF204; pfam02659 1167006001220 Domain of unknown function DUF; Region: DUF204; pfam02659 1167006001221 Predicted membrane protein [Function unknown]; Region: COG1238 1167006001222 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 1167006001223 active site 1167006001224 catalytic triad [active] 1167006001225 oxyanion hole [active] 1167006001226 switch loop; other site 1167006001227 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1167006001228 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006001229 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006001230 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006001231 Walker A/P-loop; other site 1167006001232 ATP binding site [chemical binding]; other site 1167006001233 Q-loop/lid; other site 1167006001234 ABC transporter signature motif; other site 1167006001235 Walker B; other site 1167006001236 D-loop; other site 1167006001237 H-loop/switch region; other site 1167006001238 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006001239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006001240 metal binding site [ion binding]; metal-binding site 1167006001241 active site 1167006001242 I-site; other site 1167006001243 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006001244 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 1167006001245 dimer interface [polypeptide binding]; other site 1167006001246 phosphorylation site [posttranslational modification] 1167006001247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001248 ATP binding site [chemical binding]; other site 1167006001249 Mg2+ binding site [ion binding]; other site 1167006001250 G-X-G motif; other site 1167006001251 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1167006001252 catalytic core [active] 1167006001253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006001254 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 1167006001255 dimerization interface [polypeptide binding]; other site 1167006001256 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 1167006001257 dimer interface [polypeptide binding]; other site 1167006001258 phosphorylation site [posttranslational modification] 1167006001259 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001260 ATP binding site [chemical binding]; other site 1167006001261 Mg2+ binding site [ion binding]; other site 1167006001262 G-X-G motif; other site 1167006001263 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001265 active site 1167006001266 phosphorylation site [posttranslational modification] 1167006001267 intermolecular recognition site; other site 1167006001268 dimerization interface [polypeptide binding]; other site 1167006001269 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 1167006001270 putative binding surface; other site 1167006001271 active site 1167006001272 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006001273 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1167006001274 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 1167006001275 N-terminal plug; other site 1167006001276 ligand-binding site [chemical binding]; other site 1167006001277 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1167006001278 hydrophobic ligand binding site; other site 1167006001279 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1167006001280 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 1167006001281 ATP binding site [chemical binding]; other site 1167006001282 Mg++ binding site [ion binding]; other site 1167006001283 motif III; other site 1167006001284 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 1167006001285 nucleotide binding region [chemical binding]; other site 1167006001286 ATP-binding site [chemical binding]; other site 1167006001287 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 1167006001288 DNA-binding site [nucleotide binding]; DNA binding site 1167006001289 RNA-binding motif; other site 1167006001290 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 1167006001291 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1167006001292 catalytic residues [active] 1167006001293 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1167006001294 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1167006001295 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006001296 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006001297 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006001298 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006001299 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1167006001300 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1167006001301 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006001302 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 1167006001303 ligand binding site [chemical binding]; other site 1167006001304 flexible hinge region; other site 1167006001305 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006001306 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 1167006001307 NAD synthetase; Provisional; Region: PRK13981 1167006001308 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1167006001309 multimer interface [polypeptide binding]; other site 1167006001310 active site 1167006001311 catalytic triad [active] 1167006001312 protein interface 1 [polypeptide binding]; other site 1167006001313 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 1167006001314 homodimer interface [polypeptide binding]; other site 1167006001315 NAD binding pocket [chemical binding]; other site 1167006001316 ATP binding pocket [chemical binding]; other site 1167006001317 Mg binding site [ion binding]; other site 1167006001318 active-site loop [active] 1167006001319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006001320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006001321 metal binding site [ion binding]; metal-binding site 1167006001322 active site 1167006001323 I-site; other site 1167006001324 PilZ domain; Region: PilZ; pfam07238 1167006001325 HEAT repeats; Region: HEAT_2; pfam13646 1167006001326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006001327 Zn2+ binding site [ion binding]; other site 1167006001328 Mg2+ binding site [ion binding]; other site 1167006001329 YceG-like family; Region: YceG; pfam02618 1167006001330 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1167006001331 dimerization interface [polypeptide binding]; other site 1167006001332 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1167006001333 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1167006001334 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 1167006001335 Walker A motif; other site 1167006001336 ATP binding site [chemical binding]; other site 1167006001337 Walker B motif; other site 1167006001338 arginine finger; other site 1167006001339 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1167006001340 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 1167006001341 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 1167006001342 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 1167006001343 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 1167006001344 P loop nucleotide binding; other site 1167006001345 switch II; other site 1167006001346 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 1167006001347 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 1167006001348 P loop nucleotide binding; other site 1167006001349 switch II; other site 1167006001350 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1167006001351 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1167006001352 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1167006001353 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1167006001354 Peptidase family U32; Region: Peptidase_U32; pfam01136 1167006001355 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1167006001356 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 1167006001357 Ligand Binding Site [chemical binding]; other site 1167006001358 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1167006001359 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1167006001360 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 1167006001361 FeS/SAM binding site; other site 1167006001362 competence damage-inducible protein A; Provisional; Region: PRK00549 1167006001363 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 1167006001364 MPT binding site; other site 1167006001365 Competence-damaged protein; Region: CinA; pfam02464 1167006001366 recombinase A; Provisional; Region: recA; PRK09354 1167006001367 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 1167006001368 hexamer interface [polypeptide binding]; other site 1167006001369 Walker A motif; other site 1167006001370 ATP binding site [chemical binding]; other site 1167006001371 Walker B motif; other site 1167006001372 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1167006001373 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1167006001374 active site 1167006001375 catalytic triad [active] 1167006001376 dimer interface [polypeptide binding]; other site 1167006001377 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1167006001378 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1167006001379 active site 1167006001380 nucleotide binding site [chemical binding]; other site 1167006001381 HIGH motif; other site 1167006001382 KMSKS motif; other site 1167006001383 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1167006001384 Ferritin-like domain; Region: Ferritin; pfam00210 1167006001385 ferroxidase diiron center [ion binding]; other site 1167006001386 SCP_GAPR-1_like: SCP-like extracellular protein domain, golgi-associated plant pathogenesis related protein (GAPR)-like sub-family. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian...; Region: SCP_GAPR-1_like; cd05382 1167006001387 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006001388 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 1167006001389 ligand binding site [chemical binding]; other site 1167006001390 flexible hinge region; other site 1167006001391 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006001392 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1167006001393 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1167006001394 ligand binding site [chemical binding]; other site 1167006001395 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006001396 PAS domain; Region: PAS_9; pfam13426 1167006001397 PAS fold; Region: PAS; pfam00989 1167006001398 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001399 putative active site [active] 1167006001400 heme pocket [chemical binding]; other site 1167006001401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006001402 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 1167006001403 dimer interface [polypeptide binding]; other site 1167006001404 phosphorylation site [posttranslational modification] 1167006001405 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001406 ATP binding site [chemical binding]; other site 1167006001407 G-X-G motif; other site 1167006001408 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001410 active site 1167006001411 phosphorylation site [posttranslational modification] 1167006001412 intermolecular recognition site; other site 1167006001413 dimerization interface [polypeptide binding]; other site 1167006001414 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1167006001415 AAA domain; Region: AAA_30; pfam13604 1167006001416 Family description; Region: UvrD_C_2; pfam13538 1167006001417 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1167006001418 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1167006001419 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1167006001420 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1167006001421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1167006001422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006001423 Coenzyme A binding pocket [chemical binding]; other site 1167006001424 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006001425 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006001426 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006001427 putative active site [active] 1167006001428 heme pocket [chemical binding]; other site 1167006001429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001430 ATP binding site [chemical binding]; other site 1167006001431 Mg2+ binding site [ion binding]; other site 1167006001432 G-X-G motif; other site 1167006001433 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1167006001434 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1167006001435 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1167006001436 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006001437 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006001438 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1167006001439 putative active site [active] 1167006001440 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1167006001441 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006001442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006001443 Walker A/P-loop; other site 1167006001444 ATP binding site [chemical binding]; other site 1167006001445 Q-loop/lid; other site 1167006001446 ABC transporter signature motif; other site 1167006001447 Walker B; other site 1167006001448 D-loop; other site 1167006001449 H-loop/switch region; other site 1167006001450 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1167006001451 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1167006001452 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006001453 PLA2_like: Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids (PC or phosphatidylethanolamine), usually in a...; Region: PLA2_like; cd00618 1167006001454 primary metal binding site; other site 1167006001455 catalytic residues [active] 1167006001456 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1167006001457 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1167006001458 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1167006001459 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1167006001460 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 1167006001461 nucleophilic elbow; other site 1167006001462 catalytic triad; other site 1167006001463 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1167006001464 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 1167006001465 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1167006001466 GEMM cis-regulatory element; IMG reference gene:2512880064; UWK_00415 1167006001467 PEP-CTERM motif; Region: VPEP; pfam07589 1167006001468 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1167006001469 Rhomboid family; Region: Rhomboid; pfam01694 1167006001470 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1167006001471 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1167006001472 conserved cys residue [active] 1167006001473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1167006001474 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 1167006001475 Ligand Binding Site [chemical binding]; other site 1167006001476 AsmA family; Region: AsmA; pfam05170 1167006001477 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1167006001478 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1167006001479 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 1167006001480 nucleotide binding pocket [chemical binding]; other site 1167006001481 K-X-D-G motif; other site 1167006001482 catalytic site [active] 1167006001483 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1167006001484 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1167006001485 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 1167006001486 Dimer interface [polypeptide binding]; other site 1167006001487 BRCT sequence motif; other site 1167006001488 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1167006001489 active site 1 [active] 1167006001490 dimer interface [polypeptide binding]; other site 1167006001491 hexamer interface [polypeptide binding]; other site 1167006001492 active site 2 [active] 1167006001493 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1167006001494 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1167006001495 tRNA; other site 1167006001496 putative tRNA binding site [nucleotide binding]; other site 1167006001497 putative NADP binding site [chemical binding]; other site 1167006001498 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1167006001499 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1167006001500 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1167006001501 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1167006001502 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 1167006001503 S-adenosylmethionine binding site [chemical binding]; other site 1167006001504 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 1167006001505 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1167006001506 catalytic residues [active] 1167006001507 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1167006001508 SurA N-terminal domain; Region: SurA_N; pfam09312 1167006001509 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1167006001510 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1167006001511 Helix-turn-helix domain; Region: HTH_25; pfam13413 1167006001512 non-specific DNA binding site [nucleotide binding]; other site 1167006001513 salt bridge; other site 1167006001514 sequence-specific DNA binding site [nucleotide binding]; other site 1167006001515 DNA repair protein RecO; Region: reco; TIGR00613 1167006001516 Recombination protein O N terminal; Region: RecO_N; pfam11967 1167006001517 Recombination protein O C terminal; Region: RecO_C; pfam02565 1167006001518 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1167006001519 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1167006001520 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 1167006001521 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1167006001522 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006001523 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 1167006001524 S-adenosylmethionine binding site [chemical binding]; other site 1167006001525 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006001526 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 1167006001527 S-adenosylmethionine binding site [chemical binding]; other site 1167006001528 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1167006001529 nucleotide binding site/active site [active] 1167006001530 HIT family signature motif; other site 1167006001531 catalytic residue [active] 1167006001532 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1167006001533 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006001534 ABC transporter; Region: ABC_tran_2; pfam12848 1167006001535 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006001536 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1167006001537 Peptidase family M23; Region: Peptidase_M23; pfam01551 1167006001538 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1167006001539 transcription factor S, archaeal; Region: TFS_arch; TIGR01384 1167006001540 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006001541 DsrC like protein; Region: DsrC; pfam04358 1167006001542 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1167006001543 SurA N-terminal domain; Region: SurA_N_3; cl07813 1167006001544 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1167006001545 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1167006001546 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 1167006001547 ATP binding site [chemical binding]; other site 1167006001548 putative Mg++ binding site [ion binding]; other site 1167006001549 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 1167006001550 nucleotide binding region [chemical binding]; other site 1167006001551 ATP-binding site [chemical binding]; other site 1167006001552 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1167006001553 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 1167006001554 active site 1167006001555 SAM binding site [chemical binding]; other site 1167006001556 homodimer interface [polypeptide binding]; other site 1167006001557 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1167006001558 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 1167006001559 active site 1167006001560 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 1167006001561 dimer interface [polypeptide binding]; other site 1167006001562 active site 1167006001563 adenylate kinase; Provisional; Region: PRK14529 1167006001564 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 1167006001565 AMP-binding site [chemical binding]; other site 1167006001566 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1167006001567 homoserine dehydrogenase; Provisional; Region: PRK06349 1167006001568 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1167006001569 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1167006001570 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 1167006001571 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 1167006001572 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 1167006001573 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 1167006001574 active site 1167006001575 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1167006001576 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1167006001577 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1167006001578 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1167006001579 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006001580 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006001581 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1167006001582 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1167006001583 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1167006001584 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1167006001585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006001586 NAD(P) binding site [chemical binding]; other site 1167006001587 active site 1167006001588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006001589 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1167006001590 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 1167006001591 substrate binding pocket [chemical binding]; other site 1167006001592 RmuC family; Region: RmuC; pfam02646 1167006001593 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1167006001594 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 1167006001595 Walker A motif; other site 1167006001596 ATP binding site [chemical binding]; other site 1167006001597 Walker B motif; other site 1167006001598 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1167006001599 Clp amino terminal domain; Region: Clp_N; pfam02861 1167006001600 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 1167006001601 Walker A motif; other site 1167006001602 ATP binding site [chemical binding]; other site 1167006001603 Walker B motif; other site 1167006001604 arginine finger; other site 1167006001605 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 1167006001606 Walker A motif; other site 1167006001607 ATP binding site [chemical binding]; other site 1167006001608 Walker B motif; other site 1167006001609 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1167006001610 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1167006001611 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 1167006001612 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006001613 EamA-like transporter family; Region: EamA; pfam00892 1167006001614 EamA-like transporter family; Region: EamA; pfam00892 1167006001615 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006001616 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1167006001617 dinuclear metal binding motif [ion binding]; other site 1167006001618 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 1167006001619 iron binding site [ion binding]; other site 1167006001620 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1167006001621 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1167006001622 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 1167006001623 catalytic residues [active] 1167006001624 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1167006001625 active site 1167006001626 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 1167006001627 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1167006001628 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1167006001629 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006001630 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 1167006001631 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 1167006001632 S-adenosylmethionine binding site [chemical binding]; other site 1167006001633 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 1167006001634 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1167006001635 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006001636 Cysteine-rich domain; Region: CCG; pfam02754 1167006001637 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1167006001638 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1167006001639 CPxP motif; other site 1167006001640 DsrE/DsrF-like family; Region: DrsE; pfam02635 1167006001641 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1167006001642 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1167006001643 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 1167006001644 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 1167006001645 Walker A motif; other site 1167006001646 ATP binding site [chemical binding]; other site 1167006001647 Walker B motif; other site 1167006001648 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006001649 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 1167006001650 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1167006001651 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 1167006001652 RNA binding site [nucleotide binding]; other site 1167006001653 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 1167006001654 RNA binding site [nucleotide binding]; other site 1167006001655 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 1167006001656 RNA binding site [nucleotide binding]; other site 1167006001657 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 1167006001658 RNA binding site [nucleotide binding]; other site 1167006001659 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 1167006001660 RNA binding site [nucleotide binding]; other site 1167006001661 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1167006001662 RNA binding site [nucleotide binding]; other site 1167006001663 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 1167006001664 IHF dimer interface [polypeptide binding]; other site 1167006001665 IHF - DNA interface [nucleotide binding]; other site 1167006001666 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1167006001667 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1167006001668 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 1167006001669 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 1167006001670 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 1167006001671 active site 1167006001672 GMP synthase; Reviewed; Region: guaA; PRK00074 1167006001673 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1167006001674 AMP/PPi binding site [chemical binding]; other site 1167006001675 candidate oxyanion hole; other site 1167006001676 catalytic triad [active] 1167006001677 potential glutamine specificity residues [chemical binding]; other site 1167006001678 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 1167006001679 ATP Binding subdomain [chemical binding]; other site 1167006001680 Ligand Binding sites [chemical binding]; other site 1167006001681 Dimerization subdomain; other site 1167006001682 phosphate acetyltransferase; Reviewed; Region: PRK05632 1167006001683 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 1167006001684 DRTGG domain; Region: DRTGG; pfam07085 1167006001685 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1167006001686 Hemerythrin; Region: Hemerythrin; cd12107 1167006001687 Fe binding site [ion binding]; other site 1167006001688 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1167006001689 aspartate racemase; Region: asp_race; TIGR00035 1167006001690 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1167006001691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1167006001692 DNA-binding site [nucleotide binding]; DNA binding site 1167006001693 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 1167006001694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006001695 homodimer interface [polypeptide binding]; other site 1167006001696 catalytic residue [active] 1167006001697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1167006001698 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 1167006001699 dimerization interface [polypeptide binding]; other site 1167006001700 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1167006001701 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 1167006001702 dimer interface [polypeptide binding]; other site 1167006001703 conserved gate region; other site 1167006001704 putative PBP binding loops; other site 1167006001705 ABC-ATPase subunit interface; other site 1167006001706 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1167006001707 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1167006001708 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1167006001709 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1167006001710 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1167006001711 active site 1167006001712 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1167006001713 active site 1167006001714 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1167006001715 Sodium Bile acid symporter family; Region: SBF; cl17470 1167006001716 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 1167006001717 dimerization interface [polypeptide binding]; other site 1167006001718 putative DNA binding site [nucleotide binding]; other site 1167006001719 putative Zn2+ binding site [ion binding]; other site 1167006001720 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1167006001721 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 1167006001722 Protein of unknown function, DUF486; Region: DUF486; cl01236 1167006001723 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1167006001724 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1167006001725 HAMP domain; Region: HAMP; pfam00672 1167006001726 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006001727 GAF domain; Region: GAF_2; pfam13185 1167006001728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006001729 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 1167006001730 dimer interface [polypeptide binding]; other site 1167006001731 phosphorylation site [posttranslational modification] 1167006001732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001733 ATP binding site [chemical binding]; other site 1167006001734 Mg2+ binding site [ion binding]; other site 1167006001735 G-X-G motif; other site 1167006001736 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001738 active site 1167006001739 phosphorylation site [posttranslational modification] 1167006001740 intermolecular recognition site; other site 1167006001741 dimerization interface [polypeptide binding]; other site 1167006001742 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006001743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001744 active site 1167006001745 phosphorylation site [posttranslational modification] 1167006001746 intermolecular recognition site; other site 1167006001747 dimerization interface [polypeptide binding]; other site 1167006001748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006001749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001750 active site 1167006001751 phosphorylation site [posttranslational modification] 1167006001752 intermolecular recognition site; other site 1167006001753 dimerization interface [polypeptide binding]; other site 1167006001754 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006001755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001756 active site 1167006001757 phosphorylation site [posttranslational modification] 1167006001758 intermolecular recognition site; other site 1167006001759 dimerization interface [polypeptide binding]; other site 1167006001760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006001761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006001762 metal binding site [ion binding]; metal-binding site 1167006001763 active site 1167006001764 I-site; other site 1167006001765 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1167006001766 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1167006001767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006001768 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006001769 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006001770 Walker A/P-loop; other site 1167006001771 ATP binding site [chemical binding]; other site 1167006001772 Q-loop/lid; other site 1167006001773 ABC transporter signature motif; other site 1167006001774 Walker B; other site 1167006001775 D-loop; other site 1167006001776 H-loop/switch region; other site 1167006001777 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 1167006001778 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1167006001779 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006001780 ligand binding site [chemical binding]; other site 1167006001781 Omptin family; Region: Omptin; cl01886 1167006001782 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 1167006001783 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1167006001784 putative ADP-binding pocket [chemical binding]; other site 1167006001785 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 1167006001786 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 1167006001787 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1167006001788 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1167006001789 trehalose synthase; Region: treS_nterm; TIGR02456 1167006001790 active site 1167006001791 catalytic site [active] 1167006001792 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1167006001793 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1167006001794 putative substrate binding site [chemical binding]; other site 1167006001795 putative ATP binding site [chemical binding]; other site 1167006001796 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1167006001797 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1167006001798 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1167006001799 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 1167006001800 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 1167006001801 Divalent cation transporter; Region: MgtE; cl00786 1167006001802 CHASE4 domain; Region: CHASE4; pfam05228 1167006001803 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1167006001804 Histidine kinase; Region: HisKA_3; pfam07730 1167006001805 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001806 ATP binding site [chemical binding]; other site 1167006001807 Mg2+ binding site [ion binding]; other site 1167006001808 G-X-G motif; other site 1167006001809 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006001810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001811 active site 1167006001812 phosphorylation site [posttranslational modification] 1167006001813 intermolecular recognition site; other site 1167006001814 dimerization interface [polypeptide binding]; other site 1167006001815 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 1167006001816 DNA binding residues [nucleotide binding] 1167006001817 dimerization interface [polypeptide binding]; other site 1167006001818 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1167006001819 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 1167006001820 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 1167006001821 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1167006001822 NHL repeat; Region: NHL; pfam01436 1167006001823 NHL repeat; Region: NHL; pfam01436 1167006001824 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006001825 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001826 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006001827 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006001828 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1167006001829 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 1167006001830 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001831 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1167006001832 NHL repeat; Region: NHL; pfam01436 1167006001833 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006001834 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 1167006001835 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006001836 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001837 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006001838 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001839 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001840 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001841 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001842 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1167006001843 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 1167006001844 TPR motif; other site 1167006001845 binding surface 1167006001846 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1167006001847 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 1167006001848 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1167006001849 catalytic residues [active] 1167006001850 TPR repeat; Region: TPR_11; pfam13414 1167006001851 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 1167006001852 TPR motif; other site 1167006001853 TPR repeat; Region: TPR_11; pfam13414 1167006001854 binding surface 1167006001855 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 1167006001856 TPR motif; other site 1167006001857 binding surface 1167006001858 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006001859 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 1167006001860 doubled CXXCH domain; Region: paired_CXXCH_1; TIGR01905 1167006001861 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1167006001862 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 1167006001863 putative dimer interface [polypeptide binding]; other site 1167006001864 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1167006001865 glutathione synthetase; Provisional; Region: PRK12458 1167006001866 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1167006001867 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1167006001868 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 1167006001869 agmatinase; Region: agmatinase; TIGR01230 1167006001870 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1167006001871 putative active site [active] 1167006001872 Mn binding site [ion binding]; other site 1167006001873 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 1167006001874 arginine decarboxylase; Provisional; Region: PRK05354 1167006001875 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1167006001876 dimer interface [polypeptide binding]; other site 1167006001877 active site 1167006001878 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1167006001879 catalytic residues [active] 1167006001880 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1167006001881 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1167006001882 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1167006001883 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1167006001884 dimer interface [polypeptide binding]; other site 1167006001885 active site 1167006001886 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1167006001887 catalytic residues [active] 1167006001888 substrate binding site [chemical binding]; other site 1167006001889 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1167006001890 Citrate synthase; Region: Citrate_synt; pfam00285 1167006001891 oxalacetate binding site [chemical binding]; other site 1167006001892 citrylCoA binding site [chemical binding]; other site 1167006001893 coenzyme A binding site [chemical binding]; other site 1167006001894 catalytic triad [active] 1167006001895 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1167006001896 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1167006001897 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006001898 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1167006001899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006001900 Coenzyme A binding pocket [chemical binding]; other site 1167006001901 SET domain; Region: SET; pfam00856 1167006001902 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1167006001903 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1167006001904 PhoU domain; Region: PhoU; pfam01895 1167006001905 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1167006001906 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006001907 Beta-Casp domain; Region: Beta-Casp; smart01027 1167006001908 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1167006001909 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1167006001910 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 1167006001911 oligomer interface [polypeptide binding]; other site 1167006001912 metal binding site [ion binding]; metal-binding site 1167006001913 metal binding site [ion binding]; metal-binding site 1167006001914 Cl binding site [ion binding]; other site 1167006001915 aspartate ring; other site 1167006001916 basic sphincter; other site 1167006001917 putative hydrophobic gate; other site 1167006001918 periplasmic entrance; other site 1167006001919 Domain of unknown function (DUF389); Region: DUF389; cl00781 1167006001920 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1167006001921 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006001922 hypothetical protein; Provisional; Region: PRK04164 1167006001923 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1167006001924 PAS fold; Region: PAS_4; pfam08448 1167006001925 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 1167006001926 dimer interface [polypeptide binding]; other site 1167006001927 phosphorylation site [posttranslational modification] 1167006001928 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006001929 ATP binding site [chemical binding]; other site 1167006001930 Mg2+ binding site [ion binding]; other site 1167006001931 G-X-G motif; other site 1167006001932 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006001933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001934 active site 1167006001935 phosphorylation site [posttranslational modification] 1167006001936 intermolecular recognition site; other site 1167006001937 dimerization interface [polypeptide binding]; other site 1167006001938 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1167006001939 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006001940 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1167006001941 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1167006001942 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1167006001943 DNA-directed RNA polymerase subunit B'; Validated; Region: PRK07225 1167006001944 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006001945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006001946 active site 1167006001947 phosphorylation site [posttranslational modification] 1167006001948 intermolecular recognition site; other site 1167006001949 dimerization interface [polypeptide binding]; other site 1167006001950 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 1167006001951 Walker A motif; other site 1167006001952 ATP binding site [chemical binding]; other site 1167006001953 Walker B motif; other site 1167006001954 arginine finger; other site 1167006001955 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 1167006001956 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006001957 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1167006001958 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006001959 LabA_like proteins; Region: LabA; cd10911 1167006001960 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1167006001961 putative metal binding site [ion binding]; other site 1167006001962 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1167006001963 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006001964 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006001965 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1167006001966 AAA domain; Region: AAA_17; pfam13207 1167006001967 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1167006001968 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1167006001969 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 1167006001970 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1167006001971 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 1167006001972 IHF dimer interface [polypeptide binding]; other site 1167006001973 IHF - DNA interface [nucleotide binding]; other site 1167006001974 Ferredoxin [Energy production and conversion]; Region: COG1146 1167006001975 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006001976 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 1167006001977 active site residue [active] 1167006001978 Glucokinase; Region: Glucokinase; pfam02685 1167006001979 glucokinase, proteobacterial type; Region: glk; TIGR00749 1167006001980 HAMP domain; Region: HAMP; pfam00672 1167006001981 dimerization interface [polypeptide binding]; other site 1167006001982 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006001983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006001984 dimer interface [polypeptide binding]; other site 1167006001985 putative CheW interface [polypeptide binding]; other site 1167006001986 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 1167006001987 active site residue [active] 1167006001988 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006001989 Phosphotransferase enzyme family; Region: APH; pfam01636 1167006001990 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1167006001991 active site 1167006001992 ATP binding site [chemical binding]; other site 1167006001993 substrate binding site [chemical binding]; other site 1167006001994 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1167006001995 Predicted permeases [General function prediction only]; Region: COG0730 1167006001996 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006001997 GAF domain; Region: GAF; pfam01590 1167006001998 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006001999 GAF domain; Region: GAF_2; pfam13185 1167006002000 PAS fold; Region: PAS_4; pfam08448 1167006002001 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006002002 putative active site [active] 1167006002003 heme pocket [chemical binding]; other site 1167006002004 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1167006002005 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1167006002006 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 1167006002007 molybdopterin cofactor binding site; other site 1167006002008 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1167006002009 molybdopterin cofactor binding site; other site 1167006002010 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002012 active site 1167006002013 phosphorylation site [posttranslational modification] 1167006002014 intermolecular recognition site; other site 1167006002015 dimerization interface [polypeptide binding]; other site 1167006002016 FliP family; Region: FliP; cl00593 1167006002017 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1167006002018 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006002019 putative active site [active] 1167006002020 heme pocket [chemical binding]; other site 1167006002021 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 1167006002022 dimer interface [polypeptide binding]; other site 1167006002023 phosphorylation site [posttranslational modification] 1167006002024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002025 ATP binding site [chemical binding]; other site 1167006002026 Mg2+ binding site [ion binding]; other site 1167006002027 G-X-G motif; other site 1167006002028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006002029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002030 active site 1167006002031 phosphorylation site [posttranslational modification] 1167006002032 intermolecular recognition site; other site 1167006002033 dimerization interface [polypeptide binding]; other site 1167006002034 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 1167006002035 Walker A motif; other site 1167006002036 ATP binding site [chemical binding]; other site 1167006002037 Walker B motif; other site 1167006002038 arginine finger; other site 1167006002039 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1167006002040 active site 1167006002041 catalytic residues [active] 1167006002042 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1167006002043 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1167006002044 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1167006002045 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1167006002046 Preprotein translocase subunit; Region: YajC; pfam02699 1167006002047 Protein of unknown function; Region: DUF3971; pfam13116 1167006002048 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 1167006002049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1167006002050 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006002051 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1167006002052 active site 1167006002053 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1167006002054 active site 1167006002055 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 1167006002056 Rubredoxin; Region: Rubredoxin; pfam00301 1167006002057 iron binding site [ion binding]; other site 1167006002058 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1167006002059 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1167006002060 putative ADP-ribose binding site [chemical binding]; other site 1167006002061 putative active site [active] 1167006002062 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1167006002063 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1167006002064 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1167006002065 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 1167006002066 dimerization interface [polypeptide binding]; other site 1167006002067 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006002068 dimer interface [polypeptide binding]; other site 1167006002069 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1167006002070 putative CheW interface [polypeptide binding]; other site 1167006002071 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006002072 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1167006002073 DXD motif; other site 1167006002074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006002075 Coenzyme A binding pocket [chemical binding]; other site 1167006002076 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1167006002077 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1167006002078 putative active site [active] 1167006002079 catalytic triad [active] 1167006002080 putative dimer interface [polypeptide binding]; other site 1167006002081 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1167006002082 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 1167006002083 non-specific DNA binding site [nucleotide binding]; other site 1167006002084 salt bridge; other site 1167006002085 sequence-specific DNA binding site [nucleotide binding]; other site 1167006002086 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1167006002087 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1167006002088 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1167006002089 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1167006002090 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 1167006002091 Active Sites [active] 1167006002092 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1167006002093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002094 Walker A/P-loop; other site 1167006002095 ATP binding site [chemical binding]; other site 1167006002096 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1167006002097 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1167006002098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002099 AAA domain; Region: AAA_23; pfam13476 1167006002100 Walker A/P-loop; other site 1167006002101 ATP binding site [chemical binding]; other site 1167006002102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002103 AAA domain; Region: AAA_21; pfam13304 1167006002104 ABC transporter signature motif; other site 1167006002105 Walker B; other site 1167006002106 D-loop; other site 1167006002107 H-loop/switch region; other site 1167006002108 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006002109 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006002110 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 1167006002111 Walker A motif; other site 1167006002112 ATP binding site [chemical binding]; other site 1167006002113 Walker B motif; other site 1167006002114 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006002115 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006002116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006002117 Integrase core domain; Region: rve; pfam00665 1167006002118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006002119 putative transposase OrfB; Reviewed; Region: PHA02517 1167006002120 HTH-like domain; Region: HTH_21; pfam13276 1167006002121 Integrase core domain; Region: rve; pfam00665 1167006002122 Integrase core domain; Region: rve_3; pfam13683 1167006002123 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1167006002124 integrase; Provisional; Region: PRK09692 1167006002125 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 1167006002126 active site 1167006002127 Int/Topo IB signature motif; other site 1167006002128 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 1167006002129 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1167006002130 active site 1167006002131 DNA binding site [nucleotide binding] 1167006002132 Int/Topo IB signature motif; other site 1167006002133 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 1167006002134 ATP binding site [chemical binding]; other site 1167006002135 putative Mg++ binding site [ion binding]; other site 1167006002136 putative transposase OrfB; Reviewed; Region: PHA02517 1167006002137 HTH-like domain; Region: HTH_21; pfam13276 1167006002138 Integrase core domain; Region: rve; pfam00665 1167006002139 Integrase core domain; Region: rve_3; pfam13683 1167006002140 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1167006002141 Antirestriction protein (ArdA); Region: ArdA; cl01953 1167006002142 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1167006002143 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1167006002144 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 1167006002145 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006002146 catalytic residue [active] 1167006002147 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1167006002148 active site 1167006002149 intersubunit interactions; other site 1167006002150 catalytic residue [active] 1167006002151 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1167006002152 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 1167006002153 catalytic center binding site [active] 1167006002154 ATP binding site [chemical binding]; other site 1167006002155 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1167006002156 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1167006002157 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1167006002158 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1167006002159 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1167006002160 dimer interface [polypeptide binding]; other site 1167006002161 active site 1167006002162 catalytic residue [active] 1167006002163 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1167006002164 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1167006002165 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1167006002166 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1167006002167 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1167006002168 active site 1167006002169 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1167006002170 substrate binding site [chemical binding]; other site 1167006002171 catalytic residues [active] 1167006002172 dimer interface [polypeptide binding]; other site 1167006002173 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1167006002174 Interdomain contacts; other site 1167006002175 Cytokine receptor motif; other site 1167006002176 argininosuccinate lyase; Provisional; Region: PRK00855 1167006002177 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1167006002178 active sites [active] 1167006002179 tetramer interface [polypeptide binding]; other site 1167006002180 argininosuccinate synthase; Provisional; Region: PRK13820 1167006002181 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 1167006002182 ANP binding site [chemical binding]; other site 1167006002183 Substrate Binding Site II [chemical binding]; other site 1167006002184 Substrate Binding Site I [chemical binding]; other site 1167006002185 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1167006002186 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1167006002187 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1167006002188 acetylornithine aminotransferase; Provisional; Region: PRK02627 1167006002189 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 1167006002190 inhibitor-cofactor binding pocket; inhibition site 1167006002191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006002192 catalytic residue [active] 1167006002193 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 1167006002194 homohexameric interface [polypeptide binding]; other site 1167006002195 feedback inhibition sensing region; other site 1167006002196 nucleotide binding site [chemical binding]; other site 1167006002197 N-acetyl-L-glutamate binding site [chemical binding]; other site 1167006002198 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1167006002199 OstA-like protein; Region: OstA; pfam03968 1167006002200 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1167006002201 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1167006002202 Walker A/P-loop; other site 1167006002203 ATP binding site [chemical binding]; other site 1167006002204 Q-loop/lid; other site 1167006002205 ABC transporter signature motif; other site 1167006002206 Walker B; other site 1167006002207 D-loop; other site 1167006002208 H-loop/switch region; other site 1167006002209 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1167006002210 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1167006002211 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1167006002212 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1167006002213 Predicted transcriptional regulator [Transcription]; Region: COG2378 1167006002214 WYL domain; Region: WYL; pfam13280 1167006002215 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1167006002216 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1167006002217 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1167006002218 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1167006002219 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1167006002220 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1167006002221 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1167006002222 putative ligand binding site [chemical binding]; other site 1167006002223 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1167006002224 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 1167006002225 dimerization interface [polypeptide binding]; other site 1167006002226 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006002227 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 1167006002228 dimer interface [polypeptide binding]; other site 1167006002229 phosphorylation site [posttranslational modification] 1167006002230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002231 ATP binding site [chemical binding]; other site 1167006002232 Mg2+ binding site [ion binding]; other site 1167006002233 G-X-G motif; other site 1167006002234 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002236 active site 1167006002237 phosphorylation site [posttranslational modification] 1167006002238 intermolecular recognition site; other site 1167006002239 dimerization interface [polypeptide binding]; other site 1167006002240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002241 ATP binding site [chemical binding]; other site 1167006002242 Mg2+ binding site [ion binding]; other site 1167006002243 G-X-G motif; other site 1167006002244 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 1167006002245 active site 1167006002246 catalytic site [active] 1167006002247 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1167006002248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002249 active site 1167006002250 phosphorylation site [posttranslational modification] 1167006002251 intermolecular recognition site; other site 1167006002252 dimerization interface [polypeptide binding]; other site 1167006002253 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 1167006002254 DNA binding site [nucleotide binding] 1167006002255 Putative addiction module component; Region: Unstab_antitox; pfam09720 1167006002256 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1167006002257 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1167006002258 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 1167006002259 Cl- selectivity filter; other site 1167006002260 Cl- binding residues [ion binding]; other site 1167006002261 pore gating glutamate residue; other site 1167006002262 dimer interface [polypeptide binding]; other site 1167006002263 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006002264 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1167006002265 TrkA-C domain; Region: TrkA_C; pfam02080 1167006002266 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 1167006002267 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1167006002268 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1167006002269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002270 active site 1167006002271 phosphorylation site [posttranslational modification] 1167006002272 intermolecular recognition site; other site 1167006002273 dimerization interface [polypeptide binding]; other site 1167006002274 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006002275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006002276 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002277 ATP binding site [chemical binding]; other site 1167006002278 Mg2+ binding site [ion binding]; other site 1167006002279 G-X-G motif; other site 1167006002280 pyruvate kinase; Provisional; Region: PRK06354 1167006002281 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 1167006002282 domain interfaces; other site 1167006002283 active site 1167006002284 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1167006002285 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1167006002286 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 1167006002287 putative ligand binding site [chemical binding]; other site 1167006002288 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 1167006002289 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 1167006002290 dimer interface [polypeptide binding]; other site 1167006002291 phosphorylation site [posttranslational modification] 1167006002292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002293 ATP binding site [chemical binding]; other site 1167006002294 Mg2+ binding site [ion binding]; other site 1167006002295 G-X-G motif; other site 1167006002296 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1167006002297 active site 1167006002298 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1167006002299 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 1167006002300 S-adenosylmethionine binding site [chemical binding]; other site 1167006002301 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 1167006002302 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1167006002303 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1167006002304 Sulfatase; Region: Sulfatase; pfam00884 1167006002305 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1167006002306 DNA topoisomerase III; Provisional; Region: PRK07726 1167006002307 active site 1167006002308 putative metal-binding site [ion binding]; other site 1167006002309 putative interdomain interaction site [polypeptide binding]; other site 1167006002310 putative nucleotide binding site [chemical binding]; other site 1167006002311 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 1167006002312 domain I; other site 1167006002313 DNA binding groove [nucleotide binding] 1167006002314 phosphate binding site [ion binding]; other site 1167006002315 domain II; other site 1167006002316 domain III; other site 1167006002317 nucleotide binding site [chemical binding]; other site 1167006002318 catalytic site [active] 1167006002319 domain IV; other site 1167006002320 PilZ domain; Region: PilZ; pfam07238 1167006002321 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1167006002322 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 1167006002323 putative substrate translocation pore; other site 1167006002324 Predicted permeases [General function prediction only]; Region: COG0679 1167006002325 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 1167006002326 putative binding site; other site 1167006002327 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 1167006002328 putative binding site; other site 1167006002329 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1167006002330 Bacterial SH3 domain; Region: SH3_3; cl17532 1167006002331 TPR repeat; Region: TPR_11; pfam13414 1167006002332 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 1167006002333 binding surface 1167006002334 TPR motif; other site 1167006002335 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006002336 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006002337 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006002338 putative active site [active] 1167006002339 heme pocket [chemical binding]; other site 1167006002340 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 1167006002341 dimer interface [polypeptide binding]; other site 1167006002342 phosphorylation site [posttranslational modification] 1167006002343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002344 ATP binding site [chemical binding]; other site 1167006002345 Mg2+ binding site [ion binding]; other site 1167006002346 G-X-G motif; other site 1167006002347 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002349 active site 1167006002350 phosphorylation site [posttranslational modification] 1167006002351 intermolecular recognition site; other site 1167006002352 dimerization interface [polypeptide binding]; other site 1167006002353 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006002354 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006002355 metal binding site [ion binding]; metal-binding site 1167006002356 active site 1167006002357 I-site; other site 1167006002358 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 1167006002359 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 1167006002360 dimerization interface [polypeptide binding]; other site 1167006002361 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 1167006002362 dimer interface [polypeptide binding]; other site 1167006002363 phosphorylation site [posttranslational modification] 1167006002364 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002365 ATP binding site [chemical binding]; other site 1167006002366 Mg2+ binding site [ion binding]; other site 1167006002367 G-X-G motif; other site 1167006002368 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006002369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002370 active site 1167006002371 phosphorylation site [posttranslational modification] 1167006002372 intermolecular recognition site; other site 1167006002373 dimerization interface [polypeptide binding]; other site 1167006002374 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002376 active site 1167006002377 phosphorylation site [posttranslational modification] 1167006002378 intermolecular recognition site; other site 1167006002379 dimerization interface [polypeptide binding]; other site 1167006002380 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1167006002381 putative binding surface; other site 1167006002382 active site 1167006002383 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1167006002384 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1167006002385 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 1167006002386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006002387 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 1167006002388 dimer interface [polypeptide binding]; other site 1167006002389 phosphorylation site [posttranslational modification] 1167006002390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002391 ATP binding site [chemical binding]; other site 1167006002392 Mg2+ binding site [ion binding]; other site 1167006002393 G-X-G motif; other site 1167006002394 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006002395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002396 active site 1167006002397 phosphorylation site [posttranslational modification] 1167006002398 intermolecular recognition site; other site 1167006002399 dimerization interface [polypeptide binding]; other site 1167006002400 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1167006002401 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1167006002402 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006002403 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006002404 ABC transporter; Region: ABC_tran_2; pfam12848 1167006002405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006002406 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1167006002407 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1167006002408 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1167006002409 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 1167006002410 dimerization interface [polypeptide binding]; other site 1167006002411 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1167006002412 cyclase homology domain; Region: CHD; cd07302 1167006002413 nucleotidyl binding site; other site 1167006002414 metal binding site [ion binding]; metal-binding site 1167006002415 dimer interface [polypeptide binding]; other site 1167006002416 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1167006002417 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1167006002418 putative acyl-acceptor binding pocket; other site 1167006002419 TPR repeat; Region: TPR_11; pfam13414 1167006002420 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 1167006002421 TPR motif; other site 1167006002422 binding surface 1167006002423 Oxygen tolerance; Region: BatD; pfam13584 1167006002424 Aerotolerance regulator N-terminal; Region: BatA; cl06567 1167006002425 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1167006002426 metal ion-dependent adhesion site (MIDAS); other site 1167006002427 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 1167006002428 TPR motif; other site 1167006002429 binding surface 1167006002430 TPR repeat; Region: TPR_11; pfam13414 1167006002431 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1167006002432 metal ion-dependent adhesion site (MIDAS); other site 1167006002433 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1167006002434 Protein of unknown function DUF58; Region: DUF58; pfam01882 1167006002435 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 1167006002436 metal ion-dependent adhesion site (MIDAS); other site 1167006002437 MoxR-like ATPases [General function prediction only]; Region: COG0714 1167006002438 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 1167006002439 Walker A motif; other site 1167006002440 ATP binding site [chemical binding]; other site 1167006002441 Walker B motif; other site 1167006002442 arginine finger; other site 1167006002443 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006002444 Dot/Icm secretion system protein (dot_icm_IcmQ); Region: Dot_icm_IcmQ; cl09711 1167006002445 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 1167006002446 dimer interface [polypeptide binding]; other site 1167006002447 phosphorylation site [posttranslational modification] 1167006002448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002449 ATP binding site [chemical binding]; other site 1167006002450 Mg2+ binding site [ion binding]; other site 1167006002451 G-X-G motif; other site 1167006002452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002453 active site 1167006002454 phosphorylation site [posttranslational modification] 1167006002455 intermolecular recognition site; other site 1167006002456 dimerization interface [polypeptide binding]; other site 1167006002457 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1167006002458 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006002459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002460 Walker A/P-loop; other site 1167006002461 ATP binding site [chemical binding]; other site 1167006002462 Q-loop/lid; other site 1167006002463 ABC transporter signature motif; other site 1167006002464 Walker B; other site 1167006002465 D-loop; other site 1167006002466 H-loop/switch region; other site 1167006002467 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1167006002468 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006002469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002470 Walker A/P-loop; other site 1167006002471 ATP binding site [chemical binding]; other site 1167006002472 Q-loop/lid; other site 1167006002473 ABC transporter signature motif; other site 1167006002474 Walker B; other site 1167006002475 D-loop; other site 1167006002476 H-loop/switch region; other site 1167006002477 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1167006002478 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 1167006002479 N-terminal plug; other site 1167006002480 ligand-binding site [chemical binding]; other site 1167006002481 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1167006002482 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 1167006002483 active site 1167006002484 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1167006002485 active site 1167006002486 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 1167006002487 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1167006002488 intersubunit interface [polypeptide binding]; other site 1167006002489 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1167006002490 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1167006002491 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1167006002492 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1167006002493 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1167006002494 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006002495 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 1167006002496 Ligand binding site; other site 1167006002497 DXD motif; other site 1167006002498 Sulfatase; Region: Sulfatase; cl17466 1167006002499 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 1167006002500 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006002501 catalytic residue [active] 1167006002502 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006002503 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 1167006002504 Hemerythrin-like domain; Region: Hr-like; cd12108 1167006002505 Fe binding site [ion binding]; other site 1167006002506 PAS domain; Region: PAS_10; pfam13596 1167006002507 hybrid cluster protein; Provisional; Region: PRK05290 1167006002508 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 1167006002509 ACS interaction site; other site 1167006002510 CODH interaction site; other site 1167006002511 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1167006002512 hybrid metal cluster; other site 1167006002513 Cupin domain; Region: Cupin_2; cl17218 1167006002514 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1167006002515 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006002516 division inhibitor protein; Provisional; Region: slmA; PRK09480 1167006002517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006002518 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1167006002519 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1167006002520 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1167006002521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1167006002522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002523 active site 1167006002524 phosphorylation site [posttranslational modification] 1167006002525 intermolecular recognition site; other site 1167006002526 dimerization interface [polypeptide binding]; other site 1167006002527 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 1167006002528 DNA binding site [nucleotide binding] 1167006002529 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006002530 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 1167006002531 dimerization interface [polypeptide binding]; other site 1167006002532 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 1167006002533 dimer interface [polypeptide binding]; other site 1167006002534 phosphorylation site [posttranslational modification] 1167006002535 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002536 ATP binding site [chemical binding]; other site 1167006002537 Mg2+ binding site [ion binding]; other site 1167006002538 G-X-G motif; other site 1167006002539 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; cl17302 1167006002540 EF-hand domain pair; Region: EF_hand_5; pfam13499 1167006002541 Ca2+ binding site [ion binding]; other site 1167006002542 HPP family; Region: HPP; pfam04982 1167006002543 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 1167006002544 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006002545 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 1167006002546 division inhibitor protein; Provisional; Region: slmA; PRK09480 1167006002547 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006002548 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006002549 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006002550 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006002551 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006002552 FtsX-like permease family; Region: FtsX; pfam02687 1167006002553 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006002554 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006002555 Walker A/P-loop; other site 1167006002556 ATP binding site [chemical binding]; other site 1167006002557 Q-loop/lid; other site 1167006002558 ABC transporter signature motif; other site 1167006002559 Walker B; other site 1167006002560 D-loop; other site 1167006002561 H-loop/switch region; other site 1167006002562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1167006002563 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1167006002564 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 1167006002565 triosephosphate isomerase; Provisional; Region: PRK14565 1167006002566 substrate binding site [chemical binding]; other site 1167006002567 dimer interface [polypeptide binding]; other site 1167006002568 catalytic triad [active] 1167006002569 Phosphoglycerate kinase; Region: PGK; pfam00162 1167006002570 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 1167006002571 substrate binding site [chemical binding]; other site 1167006002572 hinge regions; other site 1167006002573 ADP binding site [chemical binding]; other site 1167006002574 catalytic site [active] 1167006002575 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1167006002576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006002577 Coenzyme A binding pocket [chemical binding]; other site 1167006002578 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1167006002579 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1167006002580 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1167006002581 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1167006002582 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 1167006002583 Ligand Binding Site [chemical binding]; other site 1167006002584 dihydroorotase; Validated; Region: pyrC; PRK09357 1167006002585 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 1167006002586 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 1167006002587 active site 1167006002588 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1167006002589 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1167006002590 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1167006002591 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1167006002592 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 1167006002593 Catalytic site [active] 1167006002594 Competence protein A; Region: Competence_A; pfam11104 1167006002595 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1167006002596 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1167006002597 Pilus assembly protein, PilO; Region: PilO; cl01234 1167006002598 AMIN domain; Region: AMIN; pfam11741 1167006002599 AMIN domain; Region: AMIN; pfam11741 1167006002600 TPR repeat; Region: TPR_11; pfam13414 1167006002601 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 1167006002602 binding surface 1167006002603 TPR motif; other site 1167006002604 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 1167006002605 TPR motif; other site 1167006002606 binding surface 1167006002607 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1167006002608 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1167006002609 preprotein translocase subunit SecB; Validated; Region: PRK05751 1167006002610 SecA binding site; other site 1167006002611 Preprotein binding site; other site 1167006002612 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1167006002613 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1167006002614 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1167006002615 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1167006002616 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1167006002617 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 1167006002618 dimer interface [polypeptide binding]; other site 1167006002619 motif 1; other site 1167006002620 active site 1167006002621 motif 2; other site 1167006002622 motif 3; other site 1167006002623 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1167006002624 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1167006002625 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1167006002626 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1167006002627 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1167006002628 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1167006002629 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1167006002630 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1167006002631 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1167006002632 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1167006002633 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1167006002634 putative NAD(P) binding site [chemical binding]; other site 1167006002635 homodimer interface [polypeptide binding]; other site 1167006002636 homotetramer interface [polypeptide binding]; other site 1167006002637 active site 1167006002638 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1167006002639 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 1167006002640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006002641 catalytic residue [active] 1167006002642 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1167006002643 catalytic triad [active] 1167006002644 Outer membrane efflux protein; Region: OEP; pfam02321 1167006002645 Outer membrane efflux protein; Region: OEP; pfam02321 1167006002646 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006002647 Protein export membrane protein; Region: SecD_SecF; cl14618 1167006002648 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006002649 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006002650 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006002651 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1167006002652 MarR family; Region: MarR; pfam01047 1167006002653 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 1167006002654 HSP70 interaction site [polypeptide binding]; other site 1167006002655 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1167006002656 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 1167006002657 active site 1167006002658 catalytic residues [active] 1167006002659 metal binding site [ion binding]; metal-binding site 1167006002660 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1167006002661 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1167006002662 putative active site [active] 1167006002663 substrate binding site [chemical binding]; other site 1167006002664 putative cosubstrate binding site; other site 1167006002665 catalytic site [active] 1167006002666 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1167006002667 substrate binding site [chemical binding]; other site 1167006002668 Protein of unknown function DUF111; Region: DUF111; pfam01969 1167006002669 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1167006002670 tetramer interfaces [polypeptide binding]; other site 1167006002671 binuclear metal-binding site [ion binding]; other site 1167006002672 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1167006002673 ThiC-associated domain; Region: ThiC-associated; pfam13667 1167006002674 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1167006002675 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 1167006002676 dimer interface [polypeptide binding]; other site 1167006002677 substrate binding site [chemical binding]; other site 1167006002678 ATP binding site [chemical binding]; other site 1167006002679 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 1167006002680 NMT1/THI5 like; Region: NMT1; pfam09084 1167006002681 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1167006002682 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 1167006002683 dimer interface [polypeptide binding]; other site 1167006002684 conserved gate region; other site 1167006002685 putative PBP binding loops; other site 1167006002686 ABC-ATPase subunit interface; other site 1167006002687 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1167006002688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006002689 Walker A/P-loop; other site 1167006002690 ATP binding site [chemical binding]; other site 1167006002691 Q-loop/lid; other site 1167006002692 ABC transporter signature motif; other site 1167006002693 Walker B; other site 1167006002694 D-loop; other site 1167006002695 H-loop/switch region; other site 1167006002696 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1167006002697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 1167006002698 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006002699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002700 active site 1167006002701 phosphorylation site [posttranslational modification] 1167006002702 intermolecular recognition site; other site 1167006002703 dimerization interface [polypeptide binding]; other site 1167006002704 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 1167006002705 Walker A motif; other site 1167006002706 ATP binding site [chemical binding]; other site 1167006002707 Walker B motif; other site 1167006002708 arginine finger; other site 1167006002709 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006002710 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 1167006002711 dimerization interface [polypeptide binding]; other site 1167006002712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1167006002713 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 1167006002714 dimer interface [polypeptide binding]; other site 1167006002715 phosphorylation site [posttranslational modification] 1167006002716 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002717 ATP binding site [chemical binding]; other site 1167006002718 Mg2+ binding site [ion binding]; other site 1167006002719 G-X-G motif; other site 1167006002720 hydrogenase 4 subunit B; Validated; Region: PRK06521 1167006002721 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006002722 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1167006002723 NADH dehydrogenase; Region: NADHdh; cl00469 1167006002724 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1167006002725 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006002726 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1167006002727 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1167006002728 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1167006002729 hydrogenase 4 subunit H; Validated; Region: PRK08222 1167006002730 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 1167006002731 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_cladeC; cd03378 1167006002732 active site clefts [active] 1167006002733 zinc binding site [ion binding]; other site 1167006002734 dimer interface [polypeptide binding]; other site 1167006002735 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1167006002736 methionine aminopeptidase; Provisional; Region: PRK12318 1167006002737 SEC-C motif; Region: SEC-C; pfam02810 1167006002738 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 1167006002739 active site 1167006002740 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1167006002741 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1167006002742 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1167006002743 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1167006002744 integron integrase; Region: integrase_gron; TIGR02249 1167006002745 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1167006002746 Int/Topo IB signature motif; other site 1167006002747 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1167006002748 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1167006002749 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1167006002750 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1167006002751 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 1167006002752 inhibitor-cofactor binding pocket; inhibition site 1167006002753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006002754 catalytic residue [active] 1167006002755 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1167006002756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006002757 NAD(P) binding site [chemical binding]; other site 1167006002758 active site 1167006002759 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1167006002760 Peptidase family U32; Region: Peptidase_U32; cl03113 1167006002761 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006002762 MOSC domain; Region: MOSC; pfam03473 1167006002763 PAS domain S-box; Region: sensory_box; TIGR00229 1167006002764 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006002765 putative active site [active] 1167006002766 heme pocket [chemical binding]; other site 1167006002767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006002768 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 1167006002769 dimer interface [polypeptide binding]; other site 1167006002770 phosphorylation site [posttranslational modification] 1167006002771 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002772 ATP binding site [chemical binding]; other site 1167006002773 Mg2+ binding site [ion binding]; other site 1167006002774 G-X-G motif; other site 1167006002775 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002777 active site 1167006002778 phosphorylation site [posttranslational modification] 1167006002779 intermolecular recognition site; other site 1167006002780 dimerization interface [polypeptide binding]; other site 1167006002781 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006002782 threonine dehydratase; Provisional; Region: PRK08198 1167006002783 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 1167006002784 tetramer interface [polypeptide binding]; other site 1167006002785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006002786 catalytic residue [active] 1167006002787 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1167006002788 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 1167006002789 anti sigma factor interaction site; other site 1167006002790 regulatory phosphorylation site [posttranslational modification]; other site 1167006002791 PilZ domain; Region: PilZ; pfam07238 1167006002792 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 1167006002793 active site 1167006002794 dimer interface [polypeptide binding]; other site 1167006002795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006002796 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 1167006002797 NAD(P) binding site [chemical binding]; other site 1167006002798 active site 1167006002799 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1167006002800 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1167006002801 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1167006002802 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1167006002803 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1167006002804 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1167006002805 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1167006002806 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1167006002807 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1167006002808 metal binding site 2 [ion binding]; metal-binding site 1167006002809 putative DNA binding helix; other site 1167006002810 metal binding site 1 [ion binding]; metal-binding site 1167006002811 dimer interface [polypeptide binding]; other site 1167006002812 structural Zn2+ binding site [ion binding]; other site 1167006002813 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006002814 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1167006002815 binuclear metal center [ion binding]; other site 1167006002816 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1167006002817 iron binding site [ion binding]; other site 1167006002818 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1167006002819 Rubredoxin; Region: Rubredoxin; pfam00301 1167006002820 iron binding site [ion binding]; other site 1167006002821 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 1167006002822 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1167006002823 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1167006002824 Walker A/P-loop; other site 1167006002825 ATP binding site [chemical binding]; other site 1167006002826 Q-loop/lid; other site 1167006002827 ABC transporter signature motif; other site 1167006002828 Walker B; other site 1167006002829 D-loop; other site 1167006002830 H-loop/switch region; other site 1167006002831 PBP superfamily domain; Region: PBP_like_2; cl17296 1167006002832 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1167006002833 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1167006002834 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 1167006002835 dimer interface [polypeptide binding]; other site 1167006002836 conserved gate region; other site 1167006002837 putative PBP binding loops; other site 1167006002838 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 1167006002839 ABC-ATPase subunit interface; other site 1167006002840 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1167006002841 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1167006002842 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 1167006002843 dimer interface [polypeptide binding]; other site 1167006002844 conserved gate region; other site 1167006002845 putative PBP binding loops; other site 1167006002846 ABC-ATPase subunit interface; other site 1167006002847 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1167006002848 PhoU domain; Region: PhoU; pfam01895 1167006002849 PhoU domain; Region: PhoU; pfam01895 1167006002850 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1167006002851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002852 active site 1167006002853 phosphorylation site [posttranslational modification] 1167006002854 intermolecular recognition site; other site 1167006002855 dimerization interface [polypeptide binding]; other site 1167006002856 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 1167006002857 DNA binding site [nucleotide binding] 1167006002858 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 1167006002859 dimerization interface [polypeptide binding]; other site 1167006002860 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1167006002861 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 1167006002862 dimer interface [polypeptide binding]; other site 1167006002863 phosphorylation site [posttranslational modification] 1167006002864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002865 ATP binding site [chemical binding]; other site 1167006002866 Mg2+ binding site [ion binding]; other site 1167006002867 G-X-G motif; other site 1167006002868 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 1167006002869 flagellin; Provisional; Region: PRK12802 1167006002870 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1167006002871 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1167006002872 5-oxoprolinase; Region: PLN02666 1167006002873 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1167006002874 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1167006002875 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1167006002876 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1167006002877 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1167006002878 SelR domain; Region: SelR; pfam01641 1167006002879 CTP synthetase; Validated; Region: pyrG; PRK05380 1167006002880 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 1167006002881 Catalytic site [active] 1167006002882 active site 1167006002883 UTP binding site [chemical binding]; other site 1167006002884 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1167006002885 active site 1167006002886 putative oxyanion hole; other site 1167006002887 catalytic triad [active] 1167006002888 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1167006002889 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1167006002890 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1167006002891 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1167006002892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1167006002893 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1167006002894 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1167006002895 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1167006002896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1167006002897 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1167006002898 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1167006002899 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 1167006002900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1167006002901 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 1167006002902 dimerization interface [polypeptide binding]; other site 1167006002903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006002904 putative active site [active] 1167006002905 heme pocket [chemical binding]; other site 1167006002906 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 1167006002907 dimer interface [polypeptide binding]; other site 1167006002908 phosphorylation site [posttranslational modification] 1167006002909 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002910 ATP binding site [chemical binding]; other site 1167006002911 Mg2+ binding site [ion binding]; other site 1167006002912 G-X-G motif; other site 1167006002913 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006002914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002915 active site 1167006002916 phosphorylation site [posttranslational modification] 1167006002917 intermolecular recognition site; other site 1167006002918 dimerization interface [polypeptide binding]; other site 1167006002919 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 1167006002920 dimer interface [polypeptide binding]; other site 1167006002921 phosphorylation site [posttranslational modification] 1167006002922 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006002923 ATP binding site [chemical binding]; other site 1167006002924 Mg2+ binding site [ion binding]; other site 1167006002925 G-X-G motif; other site 1167006002926 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006002927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006002928 active site 1167006002929 phosphorylation site [posttranslational modification] 1167006002930 intermolecular recognition site; other site 1167006002931 dimerization interface [polypeptide binding]; other site 1167006002932 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1167006002933 homodimer interaction site [polypeptide binding]; other site 1167006002934 cofactor binding site; other site 1167006002935 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006002936 PAS fold; Region: PAS_4; pfam08448 1167006002937 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006002938 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 1167006002939 DNA binding residues [nucleotide binding] 1167006002940 dimerization interface [polypeptide binding]; other site 1167006002941 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1167006002942 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 1167006002943 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1167006002944 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1167006002945 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1167006002946 putative active site [active] 1167006002947 metal binding site [ion binding]; metal-binding site 1167006002948 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 1167006002949 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006002950 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1167006002951 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1167006002952 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1167006002953 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1167006002954 catalytic residues [active] 1167006002955 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 1167006002956 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1167006002957 photolyase PhrII; Region: phr2; TIGR00591 1167006002958 DNA photolyase; Region: DNA_photolyase; pfam00875 1167006002959 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 1167006002960 active site 1167006002961 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1167006002962 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1167006002963 DNA binding residues [nucleotide binding] 1167006002964 B12 binding domain; Region: B12-binding_2; pfam02607 1167006002965 B12 binding domain; Region: B12-binding; pfam02310 1167006002966 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1167006002967 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 1167006002968 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1167006002969 TIGR01777 family protein; Region: yfcH 1167006002970 putative NAD(P) binding site [chemical binding]; other site 1167006002971 putative active site [active] 1167006002972 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1167006002973 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 1167006002974 metal ion-dependent adhesion site (MIDAS); other site 1167006002975 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1167006002976 nickel responsive regulator; Provisional; Region: PRK04460 1167006002977 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1167006002978 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1167006002979 cobalt transport protein CbiM; Validated; Region: PRK06265 1167006002980 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1167006002981 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1167006002982 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1167006002983 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1167006002984 Walker A/P-loop; other site 1167006002985 ATP binding site [chemical binding]; other site 1167006002986 Q-loop/lid; other site 1167006002987 ABC transporter signature motif; other site 1167006002988 Walker B; other site 1167006002989 D-loop; other site 1167006002990 H-loop/switch region; other site 1167006002991 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 1167006002992 active site 1167006002993 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006002994 EamA-like transporter family; Region: EamA; pfam00892 1167006002995 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1167006002996 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1167006002997 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006002998 active site 1167006002999 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1167006003000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1167006003001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1167006003002 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 1167006003003 putative dimerization interface [polypeptide binding]; other site 1167006003004 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006003005 active site residue [active] 1167006003006 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006003007 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006003008 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 1167006003009 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1167006003010 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1167006003011 putative FMN binding site [chemical binding]; other site 1167006003012 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 1167006003013 CheW-like domain; Region: CheW; pfam01584 1167006003014 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; cd00588 1167006003015 PAS domain; Region: PAS; smart00091 1167006003016 PAS domain; Region: PAS_9; pfam13426 1167006003017 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003018 PAS domain; Region: PAS_9; pfam13426 1167006003019 putative active site [active] 1167006003020 heme pocket [chemical binding]; other site 1167006003021 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003022 PAS domain; Region: PAS_9; pfam13426 1167006003023 putative active site [active] 1167006003024 heme pocket [chemical binding]; other site 1167006003025 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003026 PAS domain; Region: PAS_9; pfam13426 1167006003027 putative active site [active] 1167006003028 heme pocket [chemical binding]; other site 1167006003029 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003030 PAS domain; Region: PAS_9; pfam13426 1167006003031 putative active site [active] 1167006003032 heme pocket [chemical binding]; other site 1167006003033 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003034 PAS domain; Region: PAS_9; pfam13426 1167006003035 putative active site [active] 1167006003036 heme pocket [chemical binding]; other site 1167006003037 PAS fold; Region: PAS_4; pfam08448 1167006003038 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003039 putative active site [active] 1167006003040 heme pocket [chemical binding]; other site 1167006003041 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006003042 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006003043 dimer interface [polypeptide binding]; other site 1167006003044 putative CheW interface [polypeptide binding]; other site 1167006003045 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1167006003046 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1167006003047 Coenzyme A binding pocket [chemical binding]; other site 1167006003048 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1167006003049 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1167006003050 active site 1167006003051 Zn binding site [ion binding]; other site 1167006003052 Flagellin N-methylase; Region: FliB; pfam03692 1167006003053 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1167006003054 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1167006003055 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 1167006003056 ATP binding site [chemical binding]; other site 1167006003057 Mg++ binding site [ion binding]; other site 1167006003058 motif III; other site 1167006003059 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 1167006003060 nucleotide binding region [chemical binding]; other site 1167006003061 ATP-binding site [chemical binding]; other site 1167006003062 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1167006003063 nudix motif; other site 1167006003064 AMMECR1; Region: AMMECR1; pfam01871 1167006003065 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 1167006003066 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 1167006003067 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 1167006003068 dimer interface [polypeptide binding]; other site 1167006003069 active site 1167006003070 CoA binding pocket [chemical binding]; other site 1167006003071 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1167006003072 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 1167006003073 dimer interface [polypeptide binding]; other site 1167006003074 conserved gate region; other site 1167006003075 putative PBP binding loops; other site 1167006003076 ABC-ATPase subunit interface; other site 1167006003077 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006003078 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006003079 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 1167006003080 putative FMN binding site [chemical binding]; other site 1167006003081 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 1167006003082 metabolite-proton symporter; Region: 2A0106; TIGR00883 1167006003083 putative substrate translocation pore; other site 1167006003084 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1167006003085 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1167006003086 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1167006003087 PLD-like domain; Region: PLDc_2; pfam13091 1167006003088 putative active site [active] 1167006003089 catalytic site [active] 1167006003090 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1167006003091 PLD-like domain; Region: PLDc_2; pfam13091 1167006003092 putative active site [active] 1167006003093 catalytic site [active] 1167006003094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006003095 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003096 putative active site [active] 1167006003097 heme pocket [chemical binding]; other site 1167006003098 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003099 ATP binding site [chemical binding]; other site 1167006003100 Mg2+ binding site [ion binding]; other site 1167006003101 G-X-G motif; other site 1167006003102 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1167006003103 TrkA-N domain; Region: TrkA_N; pfam02254 1167006003104 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1167006003105 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1167006003106 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1167006003107 core domain interface [polypeptide binding]; other site 1167006003108 delta subunit interface [polypeptide binding]; other site 1167006003109 epsilon subunit interface [polypeptide binding]; other site 1167006003110 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 1167006003111 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1167006003112 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 1167006003113 Walker A motif; other site 1167006003114 ATP binding site [chemical binding]; other site 1167006003115 Walker B motif; other site 1167006003116 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1167006003117 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1167006003118 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 1167006003119 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 1167006003120 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1167006003121 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 1167006003122 F1/F0 ATPase, Methanosarcina type, subunit 2; Region: F1F0_chp_2; TIGR03165 1167006003123 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 1167006003124 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 1167006003125 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1167006003126 gamma subunit interface [polypeptide binding]; other site 1167006003127 epsilon subunit interface [polypeptide binding]; other site 1167006003128 LBP interface [polypeptide binding]; other site 1167006003129 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 1167006003130 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1167006003131 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 1167006003132 alpha subunit interaction interface [polypeptide binding]; other site 1167006003133 Walker A motif; other site 1167006003134 ATP binding site [chemical binding]; other site 1167006003135 Walker B motif; other site 1167006003136 inhibitor binding site; inhibition site 1167006003137 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1167006003138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003139 active site 1167006003140 phosphorylation site [posttranslational modification] 1167006003141 intermolecular recognition site; other site 1167006003142 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003143 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006003144 putative active site [active] 1167006003145 heme pocket [chemical binding]; other site 1167006003146 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003147 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006003148 putative active site [active] 1167006003149 heme pocket [chemical binding]; other site 1167006003150 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003151 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006003152 putative active site [active] 1167006003153 heme pocket [chemical binding]; other site 1167006003154 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 1167006003155 dimer interface [polypeptide binding]; other site 1167006003156 phosphorylation site [posttranslational modification] 1167006003157 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003158 ATP binding site [chemical binding]; other site 1167006003159 Mg2+ binding site [ion binding]; other site 1167006003160 G-X-G motif; other site 1167006003161 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006003162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003163 active site 1167006003164 phosphorylation site [posttranslational modification] 1167006003165 intermolecular recognition site; other site 1167006003166 dimerization interface [polypeptide binding]; other site 1167006003167 BON domain; Region: BON; pfam04972 1167006003168 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1167006003169 BON domain; Region: BON; pfam04972 1167006003170 BON domain; Region: BON; pfam04972 1167006003171 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1167006003172 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1167006003173 putative homodimer interface [polypeptide binding]; other site 1167006003174 putative active site pocket [active] 1167006003175 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1167006003176 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 1167006003177 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003178 PAS domain; Region: PAS_9; pfam13426 1167006003179 putative active site [active] 1167006003180 heme pocket [chemical binding]; other site 1167006003181 PAS domain S-box; Region: sensory_box; TIGR00229 1167006003182 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003183 putative active site [active] 1167006003184 heme pocket [chemical binding]; other site 1167006003185 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1167006003186 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 1167006003187 Walker A motif; other site 1167006003188 ATP binding site [chemical binding]; other site 1167006003189 Walker B motif; other site 1167006003190 arginine finger; other site 1167006003191 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1167006003192 HAMP domain; Region: HAMP; pfam00672 1167006003193 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006003194 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006003195 dimer interface [polypeptide binding]; other site 1167006003196 putative CheW interface [polypeptide binding]; other site 1167006003197 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006003198 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006003199 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 1167006003200 dimerization interface [polypeptide binding]; other site 1167006003201 histidine kinase; Provisional; Region: PRK13557 1167006003202 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003203 putative active site [active] 1167006003204 heme pocket [chemical binding]; other site 1167006003205 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 1167006003206 dimer interface [polypeptide binding]; other site 1167006003207 phosphorylation site [posttranslational modification] 1167006003208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003209 ATP binding site [chemical binding]; other site 1167006003210 Mg2+ binding site [ion binding]; other site 1167006003211 G-X-G motif; other site 1167006003212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003213 active site 1167006003214 phosphorylation site [posttranslational modification] 1167006003215 intermolecular recognition site; other site 1167006003216 dimerization interface [polypeptide binding]; other site 1167006003217 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1167006003218 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 1167006003219 dimerization interface [polypeptide binding]; other site 1167006003220 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006003221 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003222 putative active site [active] 1167006003223 heme pocket [chemical binding]; other site 1167006003224 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 1167006003225 dimer interface [polypeptide binding]; other site 1167006003226 phosphorylation site [posttranslational modification] 1167006003227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003228 ATP binding site [chemical binding]; other site 1167006003229 Mg2+ binding site [ion binding]; other site 1167006003230 G-X-G motif; other site 1167006003231 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 1167006003232 membrane-bound complex binding site; other site 1167006003233 hinge residues; other site 1167006003234 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006003235 GAF domain; Region: GAF_3; pfam13492 1167006003236 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 1167006003237 dimer interface [polypeptide binding]; other site 1167006003238 phosphorylation site [posttranslational modification] 1167006003239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003240 ATP binding site [chemical binding]; other site 1167006003241 Mg2+ binding site [ion binding]; other site 1167006003242 G-X-G motif; other site 1167006003243 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006003244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003245 active site 1167006003246 phosphorylation site [posttranslational modification] 1167006003247 intermolecular recognition site; other site 1167006003248 dimerization interface [polypeptide binding]; other site 1167006003249 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 1167006003250 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006003251 substrate binding pocket [chemical binding]; other site 1167006003252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003253 ATP binding site [chemical binding]; other site 1167006003254 Mg2+ binding site [ion binding]; other site 1167006003255 G-X-G motif; other site 1167006003256 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006003257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003258 active site 1167006003259 phosphorylation site [posttranslational modification] 1167006003260 intermolecular recognition site; other site 1167006003261 dimerization interface [polypeptide binding]; other site 1167006003262 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 1167006003263 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1167006003264 putative substrate translocation pore; other site 1167006003265 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 1167006003266 short chain dehydrogenase; Validated; Region: PRK06182 1167006003267 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1167006003268 NADP binding site [chemical binding]; other site 1167006003269 active site 1167006003270 steroid binding site; other site 1167006003271 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1167006003272 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 1167006003273 active site 1167006003274 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 1167006003275 dihydroorotase; Provisional; Region: PRK05451 1167006003276 active site 1167006003277 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006003278 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1167006003279 PhoU domain; Region: PhoU; pfam01895 1167006003280 PhoU domain; Region: PhoU; pfam01895 1167006003281 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1167006003282 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1167006003283 Walker A/P-loop; other site 1167006003284 ATP binding site [chemical binding]; other site 1167006003285 Q-loop/lid; other site 1167006003286 ABC transporter signature motif; other site 1167006003287 Walker B; other site 1167006003288 D-loop; other site 1167006003289 H-loop/switch region; other site 1167006003290 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1167006003291 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 1167006003292 dimer interface [polypeptide binding]; other site 1167006003293 conserved gate region; other site 1167006003294 putative PBP binding loops; other site 1167006003295 ABC-ATPase subunit interface; other site 1167006003296 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1167006003297 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 1167006003298 dimer interface [polypeptide binding]; other site 1167006003299 conserved gate region; other site 1167006003300 putative PBP binding loops; other site 1167006003301 ABC-ATPase subunit interface; other site 1167006003302 PBP superfamily domain; Region: PBP_like_2; cl17296 1167006003303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1167006003304 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1167006003305 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1167006003306 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1167006003307 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1167006003308 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006003309 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 1167006003310 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006003311 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1167006003312 Domain of unknown function (DUF362); Region: DUF362; pfam04015 1167006003313 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1167006003314 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006003315 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006003316 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1167006003317 Protein of unknown function DUF58; Region: DUF58; pfam01882 1167006003318 MoxR-like ATPases [General function prediction only]; Region: COG0714 1167006003319 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 1167006003320 Walker A motif; other site 1167006003321 ATP binding site [chemical binding]; other site 1167006003322 Walker B motif; other site 1167006003323 arginine finger; other site 1167006003324 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1167006003325 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1167006003326 aspartate kinase; Validated; Region: PRK09181 1167006003327 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1167006003328 nucleotide binding site [chemical binding]; other site 1167006003329 substrate binding site [chemical binding]; other site 1167006003330 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 1167006003331 allosteric regulatory residue; other site 1167006003332 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 1167006003333 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 1167006003334 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1167006003335 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 1167006003336 inhibitor-cofactor binding pocket; inhibition site 1167006003337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006003338 catalytic residue [active] 1167006003339 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1167006003340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006003341 Coenzyme A binding pocket [chemical binding]; other site 1167006003342 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 1167006003343 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006003344 FeS/SAM binding site; other site 1167006003345 Predicted permeases [General function prediction only]; Region: COG0701 1167006003346 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1167006003347 Metal binding protein ZntC. 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: ZntC; cd01018 1167006003348 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1167006003349 putative metal binding residues [ion binding]; other site 1167006003350 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1167006003351 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1167006003352 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1167006003353 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 1167006003354 ABC-ATPase subunit interface; other site 1167006003355 dimer interface [polypeptide binding]; other site 1167006003356 putative PBP binding regions; other site 1167006003357 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1167006003358 metal binding site 2 [ion binding]; metal-binding site 1167006003359 putative DNA binding helix; other site 1167006003360 metal binding site 1 [ion binding]; metal-binding site 1167006003361 dimer interface [polypeptide binding]; other site 1167006003362 structural Zn2+ binding site [ion binding]; other site 1167006003363 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1167006003364 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1167006003365 TIGR03032 family protein; Region: TIGR03032 1167006003366 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 1167006003367 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006003368 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006003369 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006003370 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006003371 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1167006003372 TrkA-N domain; Region: TrkA_N; pfam02254 1167006003373 TrkA-C domain; Region: TrkA_C; pfam02080 1167006003374 TrkA-N domain; Region: TrkA_N; pfam02254 1167006003375 TrkA-C domain; Region: TrkA_C; pfam02080 1167006003376 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1167006003377 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1167006003378 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 1167006003379 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1167006003380 active site 1167006003381 catalytic tetrad [active] 1167006003382 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1167006003383 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1167006003384 acyl-activating enzyme (AAE) consensus motif; other site 1167006003385 putative AMP binding site [chemical binding]; other site 1167006003386 putative active site [active] 1167006003387 putative CoA binding site [chemical binding]; other site 1167006003388 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1167006003389 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1167006003390 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1167006003391 putative acyl-acceptor binding pocket; other site 1167006003392 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006003393 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 1167006003394 S-adenosylmethionine binding site [chemical binding]; other site 1167006003395 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1167006003396 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006003397 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 1167006003398 substrate binding pocket [chemical binding]; other site 1167006003399 membrane-bound complex binding site; other site 1167006003400 hinge residues; other site 1167006003401 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1167006003402 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 1167006003403 dimer interface [polypeptide binding]; other site 1167006003404 conserved gate region; other site 1167006003405 putative PBP binding loops; other site 1167006003406 ABC-ATPase subunit interface; other site 1167006003407 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; cd01292 1167006003408 active site 1167006003409 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006003410 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1167006003411 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1167006003412 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 1167006003413 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 1167006003414 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1167006003415 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 1167006003416 DNA binding residues [nucleotide binding] 1167006003417 dimerization interface [polypeptide binding]; other site 1167006003418 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1167006003419 Autoinducer synthetase; Region: Autoind_synth; cl17404 1167006003420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003421 active site 1167006003422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006003423 phosphorylation site [posttranslational modification] 1167006003424 intermolecular recognition site; other site 1167006003425 dimerization interface [polypeptide binding]; other site 1167006003426 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 1167006003427 dimer interface [polypeptide binding]; other site 1167006003428 phosphorylation site [posttranslational modification] 1167006003429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003430 ATP binding site [chemical binding]; other site 1167006003431 Mg2+ binding site [ion binding]; other site 1167006003432 G-X-G motif; other site 1167006003433 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006003434 Protein export membrane protein; Region: SecD_SecF; cl14618 1167006003435 Protein export membrane protein; Region: SecD_SecF; cl14618 1167006003436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006003437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006003438 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006003439 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1167006003440 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1167006003441 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1167006003442 Walker A/P-loop; other site 1167006003443 ATP binding site [chemical binding]; other site 1167006003444 Q-loop/lid; other site 1167006003445 ABC transporter signature motif; other site 1167006003446 Walker B; other site 1167006003447 D-loop; other site 1167006003448 H-loop/switch region; other site 1167006003449 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 1167006003450 dimer interface [polypeptide binding]; other site 1167006003451 conserved gate region; other site 1167006003452 putative PBP binding loops; other site 1167006003453 ABC-ATPase subunit interface; other site 1167006003454 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006003455 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 1167006003456 substrate binding pocket [chemical binding]; other site 1167006003457 membrane-bound complex binding site; other site 1167006003458 hinge residues; other site 1167006003459 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1167006003460 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006003461 ligand binding site [chemical binding]; other site 1167006003462 cytidylate kinase; Provisional; Region: cmk; PRK00023 1167006003463 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1167006003464 active site 1167006003465 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 1167006003466 CMP-binding site; other site 1167006003467 The sites determining sugar specificity; other site 1167006003468 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1167006003469 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 1167006003470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006003471 homodimer interface [polypeptide binding]; other site 1167006003472 catalytic residue [active] 1167006003473 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1167006003474 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1167006003475 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1167006003476 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1167006003477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003478 active site 1167006003479 phosphorylation site [posttranslational modification] 1167006003480 intermolecular recognition site; other site 1167006003481 dimerization interface [polypeptide binding]; other site 1167006003482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006003483 Zn2+ binding site [ion binding]; other site 1167006003484 Mg2+ binding site [ion binding]; other site 1167006003485 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1167006003486 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1167006003487 active site 1167006003488 Zn binding site [ion binding]; other site 1167006003489 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1167006003490 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1167006003491 Sulphur transport; Region: Sulf_transp; pfam04143 1167006003492 Sulphur transport; Region: Sulf_transp; pfam04143 1167006003493 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 1167006003494 CPxP motif; other site 1167006003495 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1167006003496 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1167006003497 Beta-lactamase; Region: Beta-lactamase; pfam00144 1167006003498 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 1167006003499 DNA polymerase III subunit beta; Validated; Region: PRK05643 1167006003500 putative DNA binding surface [nucleotide binding]; other site 1167006003501 dimer interface [polypeptide binding]; other site 1167006003502 beta-clamp/clamp loader binding surface; other site 1167006003503 beta-clamp/translesion DNA polymerase binding surface; other site 1167006003504 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1167006003505 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003506 Mg2+ binding site [ion binding]; other site 1167006003507 G-X-G motif; other site 1167006003508 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 1167006003509 anchoring element; other site 1167006003510 dimer interface [polypeptide binding]; other site 1167006003511 ATP binding site [chemical binding]; other site 1167006003512 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 1167006003513 active site 1167006003514 putative metal-binding site [ion binding]; other site 1167006003515 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1167006003516 DNA gyrase subunit A; Validated; Region: PRK05560 1167006003517 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 1167006003518 CAP-like domain; other site 1167006003519 active site 1167006003520 primary dimer interface [polypeptide binding]; other site 1167006003521 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003522 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003523 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003524 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003525 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003526 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1167006003527 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1167006003528 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1167006003529 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1167006003530 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1167006003531 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 1167006003532 active site 1167006003533 dimerization interface [polypeptide binding]; other site 1167006003534 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 1167006003535 Ligand Binding Site [chemical binding]; other site 1167006003536 Nif-specific regulatory protein; Region: nifA; TIGR01817 1167006003537 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006003538 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 1167006003539 Walker A motif; other site 1167006003540 ATP binding site [chemical binding]; other site 1167006003541 Walker B motif; other site 1167006003542 arginine finger; other site 1167006003543 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006003544 Bacterial SH3 domain; Region: SH3_3; pfam08239 1167006003545 Bacterial SH3 domain; Region: SH3_4; pfam06347 1167006003546 Domain of unknown function DUF77; Region: DUF77; pfam01910 1167006003547 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006003548 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006003549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006003550 Integrase core domain; Region: rve; pfam00665 1167006003551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006003552 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006003553 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006003554 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 1167006003555 Walker A motif; other site 1167006003556 ATP binding site [chemical binding]; other site 1167006003557 Walker B motif; other site 1167006003558 Domain of unknown function DUF77; Region: DUF77; cl00307 1167006003559 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1167006003560 ParB-like nuclease domain; Region: ParBc; pfam02195 1167006003561 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1167006003562 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 1167006003563 P-loop; other site 1167006003564 Magnesium ion binding site [ion binding]; other site 1167006003565 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 1167006003566 Magnesium ion binding site [ion binding]; other site 1167006003567 L-aspartate oxidase; Provisional; Region: PRK09077 1167006003568 L-aspartate oxidase; Provisional; Region: PRK06175 1167006003569 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1167006003570 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1167006003571 ACT domain; Region: ACT_6; pfam13740 1167006003572 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1167006003573 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1167006003574 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1167006003575 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1167006003576 GatB domain; Region: GatB_Yqey; smart00845 1167006003577 DNA repair protein radc; Region: radc; TIGR00608 1167006003578 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1167006003579 MPN+ (JAMM) motif; other site 1167006003580 Zinc-binding site [ion binding]; other site 1167006003581 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1167006003582 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 1167006003583 FeS/SAM binding site; other site 1167006003584 HemN C-terminal domain; Region: HemN_C; pfam06969 1167006003585 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006003586 Zn2+ binding site [ion binding]; other site 1167006003587 Mg2+ binding site [ion binding]; other site 1167006003588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006003589 Zn2+ binding site [ion binding]; other site 1167006003590 Mg2+ binding site [ion binding]; other site 1167006003591 PAS domain; Region: PAS_9; pfam13426 1167006003592 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006003593 putative active site [active] 1167006003594 heme pocket [chemical binding]; other site 1167006003595 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006003596 GAF domain; Region: GAF; pfam01590 1167006003597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006003598 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 1167006003599 dimer interface [polypeptide binding]; other site 1167006003600 phosphorylation site [posttranslational modification] 1167006003601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003602 ATP binding site [chemical binding]; other site 1167006003603 Mg2+ binding site [ion binding]; other site 1167006003604 G-X-G motif; other site 1167006003605 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006003606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003607 active site 1167006003608 phosphorylation site [posttranslational modification] 1167006003609 intermolecular recognition site; other site 1167006003610 dimerization interface [polypeptide binding]; other site 1167006003611 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006003612 PEGA domain; Region: PEGA; pfam08308 1167006003613 DsrE/DsrF-like family; Region: DrsE; pfam02635 1167006003614 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1167006003615 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1167006003616 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1167006003617 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1167006003618 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1167006003619 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1167006003620 HAMP domain; Region: HAMP; pfam00672 1167006003621 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1167006003622 cyclase homology domain; Region: CHD; cd07302 1167006003623 nucleotidyl binding site; other site 1167006003624 metal binding site [ion binding]; metal-binding site 1167006003625 dimer interface [polypeptide binding]; other site 1167006003626 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1167006003627 DNA repair protein RadA; Provisional; Region: PRK11823 1167006003628 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1167006003629 Walker A motif/ATP binding site; other site 1167006003630 ATP binding site [chemical binding]; other site 1167006003631 Walker B motif; other site 1167006003632 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1167006003633 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 1167006003634 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006003635 FeS/SAM binding site; other site 1167006003636 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006003637 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 1167006003638 S-adenosylmethionine binding site [chemical binding]; other site 1167006003639 PEP-CTERM motif; Region: VPEP; pfam07589 1167006003640 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1167006003641 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1167006003642 RNA/DNA hybrid binding site [nucleotide binding]; other site 1167006003643 active site 1167006003644 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1167006003645 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1167006003646 putative metal binding site [ion binding]; other site 1167006003647 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1167006003648 Uncharacterized conserved protein [Function unknown]; Region: COG2013 1167006003649 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1167006003650 RNA methyltransferase, RsmE family; Region: TIGR00046 1167006003651 PilZ domain; Region: PilZ; pfam07238 1167006003652 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1167006003653 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 1167006003654 S-adenosylmethionine binding site [chemical binding]; other site 1167006003655 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 1167006003656 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1167006003657 catalytic loop [active] 1167006003658 iron binding site [ion binding]; other site 1167006003659 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1167006003660 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1167006003661 substrate binding pocket [chemical binding]; other site 1167006003662 dimer interface [polypeptide binding]; other site 1167006003663 inhibitor binding site; inhibition site 1167006003664 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1167006003665 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1167006003666 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006003667 active site residue [active] 1167006003668 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 1167006003669 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1167006003670 anti sigma factor interaction site; other site 1167006003671 regulatory phosphorylation site [posttranslational modification]; other site 1167006003672 PilZ domain; Region: PilZ; pfam07238 1167006003673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1167006003674 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1167006003675 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006003676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003677 active site 1167006003678 phosphorylation site [posttranslational modification] 1167006003679 intermolecular recognition site; other site 1167006003680 dimerization interface [polypeptide binding]; other site 1167006003681 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1167006003682 DsrE/DsrF-like family; Region: DrsE; cl00672 1167006003683 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 1167006003684 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1167006003685 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1167006003686 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1167006003687 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 1167006003688 dimer interface [polypeptide binding]; other site 1167006003689 anticodon binding site; other site 1167006003690 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 1167006003691 homodimer interface [polypeptide binding]; other site 1167006003692 motif 1; other site 1167006003693 active site 1167006003694 motif 2; other site 1167006003695 GAD domain; Region: GAD; pfam02938 1167006003696 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 1167006003697 motif 3; other site 1167006003698 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1167006003699 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 1167006003700 dimer interface [polypeptide binding]; other site 1167006003701 motif 1; other site 1167006003702 active site 1167006003703 motif 2; other site 1167006003704 motif 3; other site 1167006003705 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 1167006003706 anticodon binding site; other site 1167006003707 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1167006003708 active site 1167006003709 NTP binding site [chemical binding]; other site 1167006003710 metal binding triad [ion binding]; metal-binding site 1167006003711 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1167006003712 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1167006003713 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 1167006003714 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006003715 dimer interface [polypeptide binding]; other site 1167006003716 putative CheW interface [polypeptide binding]; other site 1167006003717 Hemerythrin; Region: Hemerythrin; cd12107 1167006003718 Fe binding site [ion binding]; other site 1167006003719 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1167006003720 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1167006003721 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1167006003722 hydrogenase 2 large subunit; Provisional; Region: PRK10467 1167006003723 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1167006003724 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 1167006003725 Acylphosphatase; Region: Acylphosphatase; pfam00708 1167006003726 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1167006003727 HypF finger; Region: zf-HYPF; pfam07503 1167006003728 HypF finger; Region: zf-HYPF; pfam07503 1167006003729 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1167006003730 HupF/HypC family; Region: HupF_HypC; pfam01455 1167006003731 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1167006003732 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1167006003733 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 1167006003734 dimerization interface [polypeptide binding]; other site 1167006003735 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1167006003736 ATP binding site [chemical binding]; other site 1167006003737 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 1167006003738 nickel binding site [ion binding]; other site 1167006003739 putative substrate-binding site; other site 1167006003740 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1167006003741 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1167006003742 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 1167006003743 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 1167006003744 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1167006003745 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 1167006003746 domain interfaces; other site 1167006003747 active site 1167006003748 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1167006003749 putative catalytic site [active] 1167006003750 putative metal binding site [ion binding]; other site 1167006003751 putative phosphate binding site [ion binding]; other site 1167006003752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006003753 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 1167006003754 dimer interface [polypeptide binding]; other site 1167006003755 phosphorylation site [posttranslational modification] 1167006003756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003757 ATP binding site [chemical binding]; other site 1167006003758 Mg2+ binding site [ion binding]; other site 1167006003759 G-X-G motif; other site 1167006003760 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1167006003761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003762 active site 1167006003763 phosphorylation site [posttranslational modification] 1167006003764 intermolecular recognition site; other site 1167006003765 dimerization interface [polypeptide binding]; other site 1167006003766 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 1167006003767 DNA binding site [nucleotide binding] 1167006003768 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1167006003769 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1167006003770 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1167006003771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006003772 Coenzyme A binding pocket [chemical binding]; other site 1167006003773 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006003774 DMAP1-binding Domain; Region: DMAP_binding; pfam06464 1167006003775 Phosphotransferase enzyme family; Region: APH; pfam01636 1167006003776 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1167006003777 active site 1167006003778 substrate binding site [chemical binding]; other site 1167006003779 ATP binding site [chemical binding]; other site 1167006003780 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1167006003781 radical SAM/SPASM domain protein, ACGX system; Region: rSAM_ACGX; TIGR04340 1167006003782 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 1167006003783 FeS/SAM binding site; other site 1167006003784 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1167006003785 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1167006003786 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1167006003787 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1167006003788 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1167006003789 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1167006003790 NAD(P) binding site [chemical binding]; other site 1167006003791 catalytic residues [active] 1167006003792 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1167006003793 active site 1167006003794 NAD binding site [chemical binding]; other site 1167006003795 metal binding site [ion binding]; metal-binding site 1167006003796 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 1167006003797 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1167006003798 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 1167006003799 P-loop; other site 1167006003800 Magnesium ion binding site [ion binding]; other site 1167006003801 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1167006003802 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1167006003803 hexamer interface [polypeptide binding]; other site 1167006003804 ligand binding site [chemical binding]; other site 1167006003805 putative active site [active] 1167006003806 NAD(P) binding site [chemical binding]; other site 1167006003807 enolase; Provisional; Region: eno; PRK00077 1167006003808 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 1167006003809 dimer interface [polypeptide binding]; other site 1167006003810 metal binding site [ion binding]; metal-binding site 1167006003811 substrate binding pocket [chemical binding]; other site 1167006003812 Cytochrome c; Region: Cytochrom_C; cl11414 1167006003813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1167006003814 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 1167006003815 dimerization interface [polypeptide binding]; other site 1167006003816 putative DNA binding site [nucleotide binding]; other site 1167006003817 putative Zn2+ binding site [ion binding]; other site 1167006003818 Predicted permeases [General function prediction only]; Region: COG0701 1167006003819 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1167006003820 Outer membrane efflux protein; Region: OEP; pfam02321 1167006003821 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006003822 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006003823 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006003824 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 1167006003825 catalytic residues [active] 1167006003826 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1167006003827 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1167006003828 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006003829 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 1167006003830 ligand binding site [chemical binding]; other site 1167006003831 flexible hinge region; other site 1167006003832 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1167006003833 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1167006003834 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 1167006003835 S-adenosylmethionine binding site [chemical binding]; other site 1167006003836 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1167006003837 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1167006003838 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 1167006003839 molybdopterin cofactor binding site; other site 1167006003840 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1167006003841 molybdopterin cofactor binding site; other site 1167006003842 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1167006003843 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006003844 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006003845 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 1167006003846 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 1167006003847 heme-binding residues [chemical binding]; other site 1167006003848 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006003849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006003850 active site 1167006003851 phosphorylation site [posttranslational modification] 1167006003852 intermolecular recognition site; other site 1167006003853 dimerization interface [polypeptide binding]; other site 1167006003854 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 1167006003855 Walker A motif; other site 1167006003856 ATP binding site [chemical binding]; other site 1167006003857 Walker B motif; other site 1167006003858 arginine finger; other site 1167006003859 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1167006003860 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 1167006003861 dimerization interface [polypeptide binding]; other site 1167006003862 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 1167006003863 dimer interface [polypeptide binding]; other site 1167006003864 phosphorylation site [posttranslational modification] 1167006003865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006003866 ATP binding site [chemical binding]; other site 1167006003867 Mg2+ binding site [ion binding]; other site 1167006003868 G-X-G motif; other site 1167006003869 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006003870 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1167006003871 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 1167006003872 putative dimer interface [polypeptide binding]; other site 1167006003873 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1167006003874 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 1167006003875 putative dimer interface [polypeptide binding]; other site 1167006003876 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1167006003877 active site 1167006003878 substrate binding site [chemical binding]; other site 1167006003879 catalytic site [active] 1167006003880 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1167006003881 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 1167006003882 ATP binding site [chemical binding]; other site 1167006003883 putative Mg++ binding site [ion binding]; other site 1167006003884 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 1167006003885 nucleotide binding region [chemical binding]; other site 1167006003886 ATP-binding site [chemical binding]; other site 1167006003887 DNA helicase II; Region: uvrD; TIGR01075 1167006003888 Part of AAA domain; Region: AAA_19; pfam13245 1167006003889 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1167006003890 Family description; Region: UvrD_C_2; pfam13538 1167006003891 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1167006003892 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1167006003893 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1167006003894 ABC1 family; Region: ABC1; pfam03109 1167006003895 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1167006003896 active site 1167006003897 ATP binding site [chemical binding]; other site 1167006003898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1167006003899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006003900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 1167006003901 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 1167006003902 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1167006003903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 1167006003904 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 1167006003905 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1167006003906 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1167006003907 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 1167006003908 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1167006003909 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1167006003910 HTH-like domain; Region: HTH_21; pfam13276 1167006003911 Integrase core domain; Region: rve; pfam00665 1167006003912 Integrase core domain; Region: rve_3; pfam13683 1167006003913 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1167006003914 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1167006003915 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1167006003916 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1167006003917 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1167006003918 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006003919 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006003920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006003921 Integrase core domain; Region: rve; pfam00665 1167006003922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006003923 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006003924 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006003925 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 1167006003926 Walker A motif; other site 1167006003927 ATP binding site [chemical binding]; other site 1167006003928 Walker B motif; other site 1167006003929 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 1167006003930 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 1167006003931 SmpB-tmRNA interface; other site 1167006003932 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1167006003933 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1167006003934 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1167006003935 Walker A motif; other site 1167006003936 ATP binding site [chemical binding]; other site 1167006003937 Walker B motif; other site 1167006003938 phosphoribosylformylglycinamidine synthase; Provisional; Region: PLN03206 1167006003939 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 1167006003940 dimerization interface [polypeptide binding]; other site 1167006003941 ATP binding site [chemical binding]; other site 1167006003942 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 1167006003943 dimerization interface [polypeptide binding]; other site 1167006003944 ATP binding site [chemical binding]; other site 1167006003945 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1167006003946 putative active site [active] 1167006003947 catalytic triad [active] 1167006003948 Protein of unknown function (DUF808); Region: DUF808; cl01002 1167006003949 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1167006003950 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006003951 CHASE4 domain; Region: CHASE4; cl01308 1167006003952 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006003953 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006003954 metal binding site [ion binding]; metal-binding site 1167006003955 active site 1167006003956 I-site; other site 1167006003957 endonuclease IV; Provisional; Region: PRK01060 1167006003958 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1167006003959 AP (apurinic/apyrimidinic) site pocket; other site 1167006003960 DNA interaction; other site 1167006003961 Metal-binding active site; metal-binding site 1167006003962 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1167006003963 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1167006003964 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1167006003965 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1167006003966 Putative zinc ribbon domain; Region: DUF164; pfam02591 1167006003967 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1167006003968 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1167006003969 substrate binding site; other site 1167006003970 dimer interface; other site 1167006003971 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 1167006003972 homotrimer interaction site [polypeptide binding]; other site 1167006003973 zinc binding site [ion binding]; other site 1167006003974 CDP-binding sites; other site 1167006003975 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 1167006003976 peptidase T-like protein; Region: PepT-like; TIGR01883 1167006003977 metal binding site [ion binding]; metal-binding site 1167006003978 putative dimer interface [polypeptide binding]; other site 1167006003979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1167006003980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006003981 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006003982 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006003983 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006003984 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006003985 Protein export membrane protein; Region: SecD_SecF; cl14618 1167006003986 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1167006003987 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1167006003988 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 1167006003989 putative ATP binding site [chemical binding]; other site 1167006003990 dimerization interface [polypeptide binding]; other site 1167006003991 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 1167006003992 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 1167006003993 active site 1167006003994 tetramer interface [polypeptide binding]; other site 1167006003995 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006003996 active site 1167006003997 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1167006003998 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1167006003999 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1167006004000 active site 1167006004001 Zn binding site [ion binding]; other site 1167006004002 PBP superfamily domain; Region: PBP_like_2; pfam12849 1167006004003 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 1167006004004 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 1167006004005 Walker A motif; other site 1167006004006 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1167006004007 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1167006004008 active site 1167006004009 catalytic site [active] 1167006004010 metal binding site [ion binding]; metal-binding site 1167006004011 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1167006004012 Sulfatase; Region: Sulfatase; pfam00884 1167006004013 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006004014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004015 active site 1167006004016 phosphorylation site [posttranslational modification] 1167006004017 intermolecular recognition site; other site 1167006004018 dimerization interface [polypeptide binding]; other site 1167006004019 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 1167006004020 Walker A motif; other site 1167006004021 ATP binding site [chemical binding]; other site 1167006004022 Walker B motif; other site 1167006004023 arginine finger; other site 1167006004024 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006004025 PBP superfamily domain; Region: PBP_like_2; cl17296 1167006004026 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1167006004027 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 1167006004028 dimerization interface [polypeptide binding]; other site 1167006004029 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004030 ATP binding site [chemical binding]; other site 1167006004031 Mg2+ binding site [ion binding]; other site 1167006004032 G-X-G motif; other site 1167006004033 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1167006004034 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 1167006004035 putative Zn2+ binding site [ion binding]; other site 1167006004036 putative DNA binding site [nucleotide binding]; other site 1167006004037 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1167006004038 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1167006004039 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1167006004040 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1167006004041 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 1167006004042 motif II; other site 1167006004043 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1167006004044 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006004045 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004046 putative active site [active] 1167006004047 heme pocket [chemical binding]; other site 1167006004048 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 1167006004049 dimer interface [polypeptide binding]; other site 1167006004050 phosphorylation site [posttranslational modification] 1167006004051 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004052 ATP binding site [chemical binding]; other site 1167006004053 G-X-G motif; other site 1167006004054 prephenate dehydrogenase; Provisional; Region: PRK08655 1167006004055 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 1167006004056 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1167006004057 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1167006004058 4Fe-4S binding domain; Region: Fer4; cl02805 1167006004059 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 1167006004060 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006004061 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006004062 Ferredoxin [Energy production and conversion]; Region: COG1146 1167006004063 PilZ domain; Region: PilZ; pfam07238 1167006004064 SapC; Region: SapC; pfam07277 1167006004065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006004066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004067 active site 1167006004068 phosphorylation site [posttranslational modification] 1167006004069 intermolecular recognition site; other site 1167006004070 dimerization interface [polypeptide binding]; other site 1167006004071 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 1167006004072 DNA binding residues [nucleotide binding] 1167006004073 dimerization interface [polypeptide binding]; other site 1167006004074 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1167006004075 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1167006004076 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1167006004077 Histidine kinase; Region: HisKA_3; pfam07730 1167006004078 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004079 ATP binding site [chemical binding]; other site 1167006004080 Mg2+ binding site [ion binding]; other site 1167006004081 G-X-G motif; other site 1167006004082 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1167006004083 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1167006004084 putative ligand binding site [chemical binding]; other site 1167006004085 GAF domain; Region: GAF; pfam01590 1167006004086 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006004087 PAS domain S-box; Region: sensory_box; TIGR00229 1167006004088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004089 putative active site [active] 1167006004090 heme pocket [chemical binding]; other site 1167006004091 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 1167006004092 dimer interface [polypeptide binding]; other site 1167006004093 phosphorylation site [posttranslational modification] 1167006004094 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004095 ATP binding site [chemical binding]; other site 1167006004096 Mg2+ binding site [ion binding]; other site 1167006004097 G-X-G motif; other site 1167006004098 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006004099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004100 active site 1167006004101 phosphorylation site [posttranslational modification] 1167006004102 intermolecular recognition site; other site 1167006004103 dimerization interface [polypeptide binding]; other site 1167006004104 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 1167006004105 ACS interaction site; other site 1167006004106 CODH interaction site; other site 1167006004107 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 1167006004108 cubane metal cluster (B-cluster) [ion binding]; other site 1167006004109 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 1167006004110 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006004111 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 1167006004112 ligand binding site [chemical binding]; other site 1167006004113 flexible hinge region; other site 1167006004114 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 1167006004115 putative switch regulator; other site 1167006004116 non-specific DNA interactions [nucleotide binding]; other site 1167006004117 DNA binding site [nucleotide binding] 1167006004118 sequence specific DNA binding site [nucleotide binding]; other site 1167006004119 putative cAMP binding site [chemical binding]; other site 1167006004120 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1167006004121 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1167006004122 active site 1167006004123 SAM binding site [chemical binding]; other site 1167006004124 homodimer interface [polypeptide binding]; other site 1167006004125 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1167006004126 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 1167006004127 active site 1167006004128 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1167006004129 active site 1167006004130 N-terminal domain interface [polypeptide binding]; other site 1167006004131 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004133 active site 1167006004134 phosphorylation site [posttranslational modification] 1167006004135 intermolecular recognition site; other site 1167006004136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006004137 dimerization interface [polypeptide binding]; other site 1167006004138 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 1167006004139 dimer interface [polypeptide binding]; other site 1167006004140 phosphorylation site [posttranslational modification] 1167006004141 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004142 ATP binding site [chemical binding]; other site 1167006004143 Mg2+ binding site [ion binding]; other site 1167006004144 G-X-G motif; other site 1167006004145 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006004146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004147 active site 1167006004148 phosphorylation site [posttranslational modification] 1167006004149 intermolecular recognition site; other site 1167006004150 dimerization interface [polypeptide binding]; other site 1167006004151 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004153 active site 1167006004154 phosphorylation site [posttranslational modification] 1167006004155 intermolecular recognition site; other site 1167006004156 dimerization interface [polypeptide binding]; other site 1167006004157 PAS domain; Region: PAS; smart00091 1167006004158 PAS domain; Region: PAS_9; pfam13426 1167006004159 putative active site [active] 1167006004160 heme pocket [chemical binding]; other site 1167006004161 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004162 ATP binding site [chemical binding]; other site 1167006004163 Mg2+ binding site [ion binding]; other site 1167006004164 G-X-G motif; other site 1167006004165 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004166 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004167 active site 1167006004168 phosphorylation site [posttranslational modification] 1167006004169 intermolecular recognition site; other site 1167006004170 dimerization interface [polypeptide binding]; other site 1167006004171 HDOD domain; Region: HDOD; pfam08668 1167006004172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006004173 Zn2+ binding site [ion binding]; other site 1167006004174 Mg2+ binding site [ion binding]; other site 1167006004175 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1167006004176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004177 active site 1167006004178 phosphorylation site [posttranslational modification] 1167006004179 intermolecular recognition site; other site 1167006004180 dimerization interface [polypeptide binding]; other site 1167006004181 HD domain; Region: HD_5; pfam13487 1167006004182 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1167006004183 metal-binding site 1167006004184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1167006004185 YheO-like PAS domain; Region: PAS_6; pfam08348 1167006004186 HTH domain; Region: HTH_22; pfam13309 1167006004187 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1167006004188 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 1167006004189 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006004190 catalytic residue [active] 1167006004191 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1167006004192 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006004193 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1167006004194 homotrimer interaction site [polypeptide binding]; other site 1167006004195 putative active site [active] 1167006004196 peptidase; Reviewed; Region: PRK13004 1167006004197 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1167006004198 putative metal binding site [ion binding]; other site 1167006004199 putative dimer interface [polypeptide binding]; other site 1167006004200 carbamate kinase; Reviewed; Region: PRK12686 1167006004201 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1167006004202 putative substrate binding site [chemical binding]; other site 1167006004203 nucleotide binding site [chemical binding]; other site 1167006004204 nucleotide binding site [chemical binding]; other site 1167006004205 homodimer interface [polypeptide binding]; other site 1167006004206 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1167006004207 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1167006004208 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1167006004209 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1167006004210 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1167006004211 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1167006004212 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1167006004213 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1167006004214 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1167006004215 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 1167006004216 active site 1167006004217 phenylhydantoinase; Validated; Region: PRK08323 1167006004218 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1167006004219 tetramer interface [polypeptide binding]; other site 1167006004220 active site 1167006004221 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1167006004222 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 1167006004223 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1167006004224 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006004225 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 1167006004226 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 1167006004227 xanthine permease; Region: pbuX; TIGR03173 1167006004228 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 1167006004229 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1167006004230 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1167006004231 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 1167006004232 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1167006004233 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 1167006004234 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 1167006004235 catalytic loop [active] 1167006004236 iron binding site [ion binding]; other site 1167006004237 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1167006004238 guanine deaminase; Provisional; Region: PRK09228 1167006004239 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1167006004240 active site 1167006004241 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1167006004242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1167006004243 Walker A/P-loop; other site 1167006004244 ATP binding site [chemical binding]; other site 1167006004245 Q-loop/lid; other site 1167006004246 ABC transporter signature motif; other site 1167006004247 Walker B; other site 1167006004248 D-loop; other site 1167006004249 H-loop/switch region; other site 1167006004250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1167006004251 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006004252 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1167006004253 TM-ABC transporter signature motif; other site 1167006004254 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006004255 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1167006004256 TM-ABC transporter signature motif; other site 1167006004257 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1167006004258 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1167006004259 putative ligand binding site [chemical binding]; other site 1167006004260 threonine synthase; Validated; Region: PRK07591 1167006004261 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1167006004262 homodimer interface [polypeptide binding]; other site 1167006004263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006004264 catalytic residue [active] 1167006004265 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1167006004266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006004267 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1167006004268 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1167006004269 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1167006004270 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 1167006004271 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 1167006004272 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1167006004273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1167006004274 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1167006004275 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006004276 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1167006004277 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006004278 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1167006004279 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004280 PAS domain; Region: PAS_9; pfam13426 1167006004281 putative active site [active] 1167006004282 heme pocket [chemical binding]; other site 1167006004283 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006004284 GAF domain; Region: GAF_3; pfam13492 1167006004285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006004286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006004287 metal binding site [ion binding]; metal-binding site 1167006004288 active site 1167006004289 I-site; other site 1167006004290 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006004291 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 1167006004292 substrate binding pocket [chemical binding]; other site 1167006004293 membrane-bound complex binding site; other site 1167006004294 hinge residues; other site 1167006004295 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006004296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004297 putative active site [active] 1167006004298 heme pocket [chemical binding]; other site 1167006004299 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 1167006004300 dimer interface [polypeptide binding]; other site 1167006004301 phosphorylation site [posttranslational modification] 1167006004302 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004303 ATP binding site [chemical binding]; other site 1167006004304 Mg2+ binding site [ion binding]; other site 1167006004305 G-X-G motif; other site 1167006004306 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006004307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004308 active site 1167006004309 phosphorylation site [posttranslational modification] 1167006004310 intermolecular recognition site; other site 1167006004311 dimerization interface [polypeptide binding]; other site 1167006004312 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1167006004313 ZIP Zinc transporter; Region: Zip; pfam02535 1167006004314 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1167006004315 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 1167006004316 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 1167006004317 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1167006004318 FAD binding pocket [chemical binding]; other site 1167006004319 FAD binding motif [chemical binding]; other site 1167006004320 phosphate binding motif [ion binding]; other site 1167006004321 beta-alpha-beta structure motif; other site 1167006004322 NAD binding pocket [chemical binding]; other site 1167006004323 Iron coordination center [ion binding]; other site 1167006004324 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1167006004325 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 1167006004326 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1167006004327 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1167006004328 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1167006004329 mercuric reductase; Validated; Region: PRK06370 1167006004330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1167006004331 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006004332 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1167006004333 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1167006004334 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1167006004335 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006004336 active site 1167006004337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006004338 active site 1167006004339 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 1167006004340 active site 1167006004341 metal-binding site [ion binding] 1167006004342 nucleotide-binding site [chemical binding]; other site 1167006004343 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1167006004344 active site 1167006004345 dimer interface [polypeptide binding]; other site 1167006004346 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 1167006004347 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 1167006004348 Ligand Binding Site [chemical binding]; other site 1167006004349 Molecular Tunnel; other site 1167006004350 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 1167006004351 anti sigma factor interaction site; other site 1167006004352 regulatory phosphorylation site [posttranslational modification]; other site 1167006004353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1167006004354 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1167006004355 ATP binding site [chemical binding]; other site 1167006004356 Mg2+ binding site [ion binding]; other site 1167006004357 G-X-G motif; other site 1167006004358 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 1167006004359 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1167006004360 DXD motif; other site 1167006004361 PilZ domain; Region: PilZ; pfam07238 1167006004362 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 1167006004363 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1167006004364 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1167006004365 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 1167006004366 TPR motif; other site 1167006004367 binding surface 1167006004368 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1167006004369 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004371 active site 1167006004372 phosphorylation site [posttranslational modification] 1167006004373 intermolecular recognition site; other site 1167006004374 dimerization interface [polypeptide binding]; other site 1167006004375 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1167006004376 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1167006004377 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1167006004378 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006004379 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006004380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006004381 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1167006004382 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1167006004383 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1167006004384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006004385 catalytic residue [active] 1167006004386 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1167006004387 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1167006004388 putative active site [active] 1167006004389 catalytic triad [active] 1167006004390 putative dimer interface [polypeptide binding]; other site 1167006004391 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 1167006004392 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1167006004393 ATP binding site [chemical binding]; other site 1167006004394 substrate interface [chemical binding]; other site 1167006004395 Ubiquitin-like proteins; Region: UBQ; cl00155 1167006004396 charged pocket; other site 1167006004397 hydrophobic patch; other site 1167006004398 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1167006004399 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1167006004400 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1167006004401 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1167006004402 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006004403 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004404 putative active site [active] 1167006004405 heme pocket [chemical binding]; other site 1167006004406 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 1167006004407 dimer interface [polypeptide binding]; other site 1167006004408 phosphorylation site [posttranslational modification] 1167006004409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004410 ATP binding site [chemical binding]; other site 1167006004411 G-X-G motif; other site 1167006004412 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004414 active site 1167006004415 phosphorylation site [posttranslational modification] 1167006004416 intermolecular recognition site; other site 1167006004417 dimerization interface [polypeptide binding]; other site 1167006004418 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 1167006004419 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 1167006004420 dimer interface [polypeptide binding]; other site 1167006004421 putative functional site; other site 1167006004422 putative MPT binding site; other site 1167006004423 PBP superfamily domain; Region: PBP_like; pfam12727 1167006004424 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1167006004425 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 1167006004426 dimer interface [polypeptide binding]; other site 1167006004427 putative functional site; other site 1167006004428 putative MPT binding site; other site 1167006004429 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1167006004430 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1167006004431 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 1167006004432 homodimer interface [polypeptide binding]; other site 1167006004433 substrate-cofactor binding pocket; other site 1167006004434 catalytic residue [active] 1167006004435 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 1167006004436 oligomerisation interface [polypeptide binding]; other site 1167006004437 mobile loop; other site 1167006004438 roof hairpin; other site 1167006004439 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1167006004440 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 1167006004441 ring oligomerisation interface [polypeptide binding]; other site 1167006004442 ATP/Mg binding site [chemical binding]; other site 1167006004443 stacking interactions; other site 1167006004444 hinge regions; other site 1167006004445 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1167006004446 cyclase homology domain; Region: CHD; cd07302 1167006004447 nucleotidyl binding site; other site 1167006004448 metal binding site [ion binding]; metal-binding site 1167006004449 dimer interface [polypeptide binding]; other site 1167006004450 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1167006004451 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1167006004452 phosphopeptide binding site; other site 1167006004453 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1167006004454 FMN binding site [chemical binding]; other site 1167006004455 dimer interface [polypeptide binding]; other site 1167006004456 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 1167006004457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1167006004458 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1167006004459 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1167006004460 active site 1167006004461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006004462 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 1167006004463 dimerization interface [polypeptide binding]; other site 1167006004464 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 1167006004465 dimer interface [polypeptide binding]; other site 1167006004466 phosphorylation site [posttranslational modification] 1167006004467 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004468 ATP binding site [chemical binding]; other site 1167006004469 Mg2+ binding site [ion binding]; other site 1167006004470 G-X-G motif; other site 1167006004471 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1167006004472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004473 active site 1167006004474 phosphorylation site [posttranslational modification] 1167006004475 intermolecular recognition site; other site 1167006004476 dimerization interface [polypeptide binding]; other site 1167006004477 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 1167006004478 DNA binding site [nucleotide binding] 1167006004479 putative metal dependent hydrolase; Provisional; Region: PRK11598 1167006004480 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1167006004481 Sulfatase; Region: Sulfatase; pfam00884 1167006004482 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 1167006004483 active site 1167006004484 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006004485 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 1167006004486 dimerization interface [polypeptide binding]; other site 1167006004487 PAS domain S-box; Region: sensory_box; TIGR00229 1167006004488 PAS domain; Region: PAS; smart00091 1167006004489 PAS fold; Region: PAS; pfam00989 1167006004490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006004491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006004492 metal binding site [ion binding]; metal-binding site 1167006004493 active site 1167006004494 I-site; other site 1167006004495 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1167006004496 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006004497 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004498 putative active site [active] 1167006004499 heme pocket [chemical binding]; other site 1167006004500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006004501 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 1167006004502 dimer interface [polypeptide binding]; other site 1167006004503 phosphorylation site [posttranslational modification] 1167006004504 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004505 ATP binding site [chemical binding]; other site 1167006004506 Mg2+ binding site [ion binding]; other site 1167006004507 G-X-G motif; other site 1167006004508 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006004509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004510 active site 1167006004511 phosphorylation site [posttranslational modification] 1167006004512 intermolecular recognition site; other site 1167006004513 dimerization interface [polypeptide binding]; other site 1167006004514 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004515 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1167006004516 putative active site [active] 1167006004517 heme pocket [chemical binding]; other site 1167006004518 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004519 putative active site [active] 1167006004520 heme pocket [chemical binding]; other site 1167006004521 PAS domain; Region: PAS; smart00091 1167006004522 PAS fold; Region: PAS_4; pfam08448 1167006004523 PAS fold; Region: PAS_4; pfam08448 1167006004524 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006004525 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 1167006004526 DNA binding residues [nucleotide binding] 1167006004527 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006004528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006004529 dimer interface [polypeptide binding]; other site 1167006004530 putative CheW interface [polypeptide binding]; other site 1167006004531 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1167006004532 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006004533 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006004534 putative CheW interface [polypeptide binding]; other site 1167006004535 Hemerythrin; Region: Hemerythrin; cd12107 1167006004536 Fe binding site [ion binding]; other site 1167006004537 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 1167006004538 dimerization interface [polypeptide binding]; other site 1167006004539 PAS domain S-box; Region: sensory_box; TIGR00229 1167006004540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004541 putative active site [active] 1167006004542 heme pocket [chemical binding]; other site 1167006004543 PAS domain S-box; Region: sensory_box; TIGR00229 1167006004544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006004545 putative active site [active] 1167006004546 heme pocket [chemical binding]; other site 1167006004547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006004548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006004549 metal binding site [ion binding]; metal-binding site 1167006004550 active site 1167006004551 I-site; other site 1167006004552 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 1167006004553 High-affinity nickel-transport protein; Region: NicO; cl00964 1167006004554 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1167006004555 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 1167006004556 catalytic loop [active] 1167006004557 iron binding site [ion binding]; other site 1167006004558 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1167006004559 synthetase active site [active] 1167006004560 NTP binding site [chemical binding]; other site 1167006004561 metal binding site [ion binding]; metal-binding site 1167006004562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006004563 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006004564 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006004565 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1167006004566 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1167006004567 Walker A/P-loop; other site 1167006004568 ATP binding site [chemical binding]; other site 1167006004569 Q-loop/lid; other site 1167006004570 ABC transporter signature motif; other site 1167006004571 Walker B; other site 1167006004572 D-loop; other site 1167006004573 H-loop/switch region; other site 1167006004574 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1167006004575 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1167006004576 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 1167006004577 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1167006004578 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1167006004579 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1167006004580 intersubunit interface [polypeptide binding]; other site 1167006004581 active site 1167006004582 Zn2+ binding site [ion binding]; other site 1167006004583 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 1167006004584 putative ligand binding site [chemical binding]; other site 1167006004585 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1167006004586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1167006004587 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1167006004588 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006004589 EamA-like transporter family; Region: EamA; pfam00892 1167006004590 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 1167006004591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006004592 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 1167006004593 dimer interface [polypeptide binding]; other site 1167006004594 phosphorylation site [posttranslational modification] 1167006004595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004596 ATP binding site [chemical binding]; other site 1167006004597 Mg2+ binding site [ion binding]; other site 1167006004598 G-X-G motif; other site 1167006004599 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004601 active site 1167006004602 phosphorylation site [posttranslational modification] 1167006004603 intermolecular recognition site; other site 1167006004604 dimerization interface [polypeptide binding]; other site 1167006004605 GTPase RsgA; Reviewed; Region: PRK01889 1167006004606 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 1167006004607 RNA binding site [nucleotide binding]; other site 1167006004608 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1167006004609 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1167006004610 GTP/Mg2+ binding site [chemical binding]; other site 1167006004611 G4 box; other site 1167006004612 G5 box; other site 1167006004613 G1 box; other site 1167006004614 Switch I region; other site 1167006004615 G2 box; other site 1167006004616 G3 box; other site 1167006004617 Switch II region; other site 1167006004618 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1167006004619 FtsH Extracellular; Region: FtsH_ext; pfam06480 1167006004620 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1167006004621 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 1167006004622 Walker B motif; other site 1167006004623 arginine finger; other site 1167006004624 Peptidase family M41; Region: Peptidase_M41; pfam01434 1167006004625 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1167006004626 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1167006004627 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1167006004628 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1167006004629 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1167006004630 active site residues [active] 1167006004631 dimer interface [polypeptide binding]; other site 1167006004632 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1167006004633 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1167006004634 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 1167006004635 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 1167006004636 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006004637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006004638 Zn2+ binding site [ion binding]; other site 1167006004639 Mg2+ binding site [ion binding]; other site 1167006004640 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 1167006004641 Ligand Binding Site [chemical binding]; other site 1167006004642 Integral membrane protein DUF95; Region: DUF95; cl00572 1167006004643 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1167006004644 EamA-like transporter family; Region: EamA; pfam00892 1167006004645 EamA-like transporter family; Region: EamA; pfam00892 1167006004646 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1167006004647 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_cladeC; cd03378 1167006004648 active site clefts [active] 1167006004649 zinc binding site [ion binding]; other site 1167006004650 dimer interface [polypeptide binding]; other site 1167006004651 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006004652 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 1167006004653 DNA binding residues [nucleotide binding] 1167006004654 dimerization interface [polypeptide binding]; other site 1167006004655 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1167006004656 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1167006004657 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1167006004658 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 1167006004659 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1167006004660 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 1167006004661 FeS/SAM binding site; other site 1167006004662 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1167006004663 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 1167006004664 active site residue [active] 1167006004665 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1167006004666 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1167006004667 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1167006004668 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1167006004669 conserved cys residue [active] 1167006004670 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1167006004671 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006004672 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1167006004673 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1167006004674 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1167006004675 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006004676 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006004677 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1167006004678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006004679 Coenzyme A binding pocket [chemical binding]; other site 1167006004680 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 1167006004681 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1167006004682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006004683 catalytic residue [active] 1167006004684 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 1167006004685 binding surface 1167006004686 TPR motif; other site 1167006004687 TPR repeat; Region: TPR_11; pfam13414 1167006004688 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1167006004689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1167006004690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1167006004691 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1167006004692 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006004693 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 1167006004694 S-adenosylmethionine binding site [chemical binding]; other site 1167006004695 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 1167006004696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006004697 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 1167006004698 DNA binding residues [nucleotide binding] 1167006004699 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1167006004700 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1167006004701 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1167006004702 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 1167006004703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1167006004704 active site 1167006004705 catalytic tetrad [active] 1167006004706 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 1167006004707 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1167006004708 putative substrate translocation pore; other site 1167006004709 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1167006004710 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1167006004711 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 1167006004712 Walker A motif; other site 1167006004713 ATP binding site [chemical binding]; other site 1167006004714 Walker B motif; other site 1167006004715 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1167006004716 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 1167006004717 Walker A motif; other site 1167006004718 ATP binding site [chemical binding]; other site 1167006004719 Walker B motif; other site 1167006004720 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1167006004721 Peptidase family U32; Region: Peptidase_U32; pfam01136 1167006004722 Collagenase; Region: DUF3656; pfam12392 1167006004723 Peptidase family U32; Region: Peptidase_U32; cl03113 1167006004724 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1167006004725 Bacterial SH3 domain; Region: SH3_3; pfam08239 1167006004726 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 1167006004727 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 1167006004728 FeS/SAM binding site; other site 1167006004729 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1167006004730 S1 domain; Region: S1_2; pfam13509 1167006004731 S1 domain; Region: S1_2; pfam13509 1167006004732 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1167006004733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006004734 Coenzyme A binding pocket [chemical binding]; other site 1167006004735 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1167006004736 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1167006004737 NAD binding site [chemical binding]; other site 1167006004738 ligand binding site [chemical binding]; other site 1167006004739 catalytic site [active] 1167006004740 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1167006004741 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1167006004742 active site 1167006004743 catalytic site [active] 1167006004744 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1167006004745 aspartate racemase; Region: asp_race; TIGR00035 1167006004746 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1167006004747 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1167006004748 translation initiation factor Sui1; Validated; Region: PRK06824 1167006004749 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1167006004750 putative rRNA binding site [nucleotide binding]; other site 1167006004751 Uncharacterized conserved protein (DUF2293); Region: DUF2293; cl02373 1167006004752 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 1167006004753 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1167006004754 ATP binding site [chemical binding]; other site 1167006004755 Mg++ binding site [ion binding]; other site 1167006004756 motif III; other site 1167006004757 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 1167006004758 nucleotide binding region [chemical binding]; other site 1167006004759 ATP-binding site [chemical binding]; other site 1167006004760 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1167006004761 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1167006004762 Tetramer interface [polypeptide binding]; other site 1167006004763 active site 1167006004764 FMN-binding site [chemical binding]; other site 1167006004765 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1167006004766 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 1167006004767 DnaA box-binding interface [nucleotide binding]; other site 1167006004768 Predicted permeases [General function prediction only]; Region: COG0701 1167006004769 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 1167006004770 dimerization interface [polypeptide binding]; other site 1167006004771 putative DNA binding site [nucleotide binding]; other site 1167006004772 putative Zn2+ binding site [ion binding]; other site 1167006004773 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1167006004774 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 1167006004775 ATP binding site [chemical binding]; other site 1167006004776 putative Mg++ binding site [ion binding]; other site 1167006004777 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 1167006004778 nucleotide binding region [chemical binding]; other site 1167006004779 ATP-binding site [chemical binding]; other site 1167006004780 Helicase associated domain (HA2); Region: HA2; pfam04408 1167006004781 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1167006004782 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1167006004783 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 1167006004784 folate binding site [chemical binding]; other site 1167006004785 NADP+ binding site [chemical binding]; other site 1167006004786 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1167006004787 Protein of unknown function (DUF975); Region: DUF975; cl10504 1167006004788 EamA-like transporter family; Region: EamA; pfam00892 1167006004789 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006004790 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006004791 dimer interface [polypeptide binding]; other site 1167006004792 putative CheW interface [polypeptide binding]; other site 1167006004793 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1167006004794 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006004795 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1167006004796 metal binding site 2 [ion binding]; metal-binding site 1167006004797 putative DNA binding helix; other site 1167006004798 metal binding site 1 [ion binding]; metal-binding site 1167006004799 dimer interface [polypeptide binding]; other site 1167006004800 structural Zn2+ binding site [ion binding]; other site 1167006004801 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006004802 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1167006004803 binuclear metal center [ion binding]; other site 1167006004804 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1167006004805 iron binding site [ion binding]; other site 1167006004806 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1167006004807 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1167006004808 dimer interface [polypeptide binding]; other site 1167006004809 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1167006004810 catalytic triad [active] 1167006004811 peroxidatic and resolving cysteines [active] 1167006004812 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 1167006004813 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 1167006004814 non-heme iron binding site [ion binding]; other site 1167006004815 dimer interface [polypeptide binding]; other site 1167006004816 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 1167006004817 non-heme iron binding site [ion binding]; other site 1167006004818 dimer interface [polypeptide binding]; other site 1167006004819 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 1167006004820 Rubredoxin; Region: Rubredoxin; pfam00301 1167006004821 iron binding site [ion binding]; other site 1167006004822 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 1167006004823 Rubredoxin; Region: Rubredoxin; pfam00301 1167006004824 iron binding site [ion binding]; other site 1167006004825 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 1167006004826 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006004827 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1167006004828 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 1167006004829 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1167006004830 substrate binding site [chemical binding]; other site 1167006004831 ligand binding site [chemical binding]; other site 1167006004832 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 1167006004833 substrate binding site [chemical binding]; other site 1167006004834 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1167006004835 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1167006004836 putative active site [active] 1167006004837 PhoH-like protein; Region: PhoH; pfam02562 1167006004838 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1167006004839 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1167006004840 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1167006004841 active site 1167006004842 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1167006004843 NusB family; Region: NusB; pfam01029 1167006004844 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1167006004845 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006004846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004847 active site 1167006004848 phosphorylation site [posttranslational modification] 1167006004849 intermolecular recognition site; other site 1167006004850 dimerization interface [polypeptide binding]; other site 1167006004851 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004853 active site 1167006004854 phosphorylation site [posttranslational modification] 1167006004855 intermolecular recognition site; other site 1167006004856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006004857 dimerization interface [polypeptide binding]; other site 1167006004858 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 1167006004859 dimer interface [polypeptide binding]; other site 1167006004860 phosphorylation site [posttranslational modification] 1167006004861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006004862 ATP binding site [chemical binding]; other site 1167006004863 Mg2+ binding site [ion binding]; other site 1167006004864 G-X-G motif; other site 1167006004865 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006004866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006004867 active site 1167006004868 phosphorylation site [posttranslational modification] 1167006004869 intermolecular recognition site; other site 1167006004870 dimerization interface [polypeptide binding]; other site 1167006004871 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 1167006004872 putative binding surface; other site 1167006004873 active site 1167006004874 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1167006004875 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 1167006004876 substrate binding pocket [chemical binding]; other site 1167006004877 membrane-bound complex binding site; other site 1167006004878 hinge residues; other site 1167006004879 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1167006004880 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 1167006004881 conserved gate region; other site 1167006004882 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 1167006004883 dimer interface [polypeptide binding]; other site 1167006004884 conserved gate region; other site 1167006004885 putative PBP binding loops; other site 1167006004886 ABC-ATPase subunit interface; other site 1167006004887 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 1167006004888 dimer interface [polypeptide binding]; other site 1167006004889 conserved gate region; other site 1167006004890 putative PBP binding loops; other site 1167006004891 ABC-ATPase subunit interface; other site 1167006004892 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1167006004893 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1167006004894 Walker A/P-loop; other site 1167006004895 ATP binding site [chemical binding]; other site 1167006004896 Q-loop/lid; other site 1167006004897 ABC transporter signature motif; other site 1167006004898 Walker B; other site 1167006004899 D-loop; other site 1167006004900 H-loop/switch region; other site 1167006004901 GGGtGRT protein; Region: GGGtGRT; pfam14057 1167006004902 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1167006004903 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 1167006004904 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1167006004905 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 1167006004906 glycogen binding site [chemical binding]; other site 1167006004907 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006004908 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 1167006004909 DNA binding residues [nucleotide binding] 1167006004910 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1167006004911 dimer interface [polypeptide binding]; other site 1167006004912 catalytic triad [active] 1167006004913 peroxidatic and resolving cysteines [active] 1167006004914 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1167006004915 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1167006004916 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 1167006004917 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1167006004918 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1167006004919 Walker A/P-loop; other site 1167006004920 ATP binding site [chemical binding]; other site 1167006004921 Q-loop/lid; other site 1167006004922 ABC transporter signature motif; other site 1167006004923 Walker B; other site 1167006004924 D-loop; other site 1167006004925 H-loop/switch region; other site 1167006004926 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1167006004927 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 1167006004928 substrate binding pocket [chemical binding]; other site 1167006004929 membrane-bound complex binding site; other site 1167006004930 hinge residues; other site 1167006004931 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1167006004932 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 1167006004933 dimer interface [polypeptide binding]; other site 1167006004934 conserved gate region; other site 1167006004935 putative PBP binding loops; other site 1167006004936 ABC-ATPase subunit interface; other site 1167006004937 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 1167006004938 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 1167006004939 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1167006004940 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1167006004941 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1167006004942 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1167006004943 Walker A/P-loop; other site 1167006004944 ATP binding site [chemical binding]; other site 1167006004945 Q-loop/lid; other site 1167006004946 ABC transporter signature motif; other site 1167006004947 Walker B; other site 1167006004948 D-loop; other site 1167006004949 H-loop/switch region; other site 1167006004950 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1167006004951 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 1167006004952 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006004953 Walker A/P-loop; other site 1167006004954 ATP binding site [chemical binding]; other site 1167006004955 Q-loop/lid; other site 1167006004956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006004957 ABC transporter signature motif; other site 1167006004958 ABC transporter signature motif; other site 1167006004959 Walker B; other site 1167006004960 Walker B; other site 1167006004961 D-loop; other site 1167006004962 H-loop/switch region; other site 1167006004963 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1167006004964 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 1167006004965 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 1167006004966 active site 1167006004967 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1167006004968 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1167006004969 trimer interface [polypeptide binding]; other site 1167006004970 active site 1167006004971 substrate binding site [chemical binding]; other site 1167006004972 CoA binding site [chemical binding]; other site 1167006004973 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1167006004974 active site 1167006004975 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1167006004976 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1167006004977 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1167006004978 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 1167006004979 protein binding site [polypeptide binding]; other site 1167006004980 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 1167006004981 protein binding site [polypeptide binding]; other site 1167006004982 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 1167006004983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1167006004984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1167006004985 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1167006004986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006004987 Walker A/P-loop; other site 1167006004988 ATP binding site [chemical binding]; other site 1167006004989 Q-loop/lid; other site 1167006004990 ABC transporter signature motif; other site 1167006004991 Walker B; other site 1167006004992 D-loop; other site 1167006004993 H-loop/switch region; other site 1167006004994 ABC transporter; Region: ABC_tran_2; pfam12848 1167006004995 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006004996 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 1167006004997 dimer interface [polypeptide binding]; other site 1167006004998 phosphorylation site [posttranslational modification] 1167006004999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006005000 ATP binding site [chemical binding]; other site 1167006005001 Mg2+ binding site [ion binding]; other site 1167006005002 G-X-G motif; other site 1167006005003 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006005004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006005005 active site 1167006005006 phosphorylation site [posttranslational modification] 1167006005007 intermolecular recognition site; other site 1167006005008 dimerization interface [polypeptide binding]; other site 1167006005009 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006005010 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1167006005011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1167006005012 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006005013 putative active site [active] 1167006005014 heme pocket [chemical binding]; other site 1167006005015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006005016 ATP binding site [chemical binding]; other site 1167006005017 Mg2+ binding site [ion binding]; other site 1167006005018 G-X-G motif; other site 1167006005019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006005020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006005021 active site 1167006005022 phosphorylation site [posttranslational modification] 1167006005023 intermolecular recognition site; other site 1167006005024 dimerization interface [polypeptide binding]; other site 1167006005025 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006005026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006005027 active site 1167006005028 phosphorylation site [posttranslational modification] 1167006005029 intermolecular recognition site; other site 1167006005030 dimerization interface [polypeptide binding]; other site 1167006005031 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 1167006005032 DNA binding residues [nucleotide binding] 1167006005033 dimerization interface [polypeptide binding]; other site 1167006005034 Histidine kinase; Region: HisKA_3; pfam07730 1167006005035 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1167006005036 ATP binding site [chemical binding]; other site 1167006005037 Mg2+ binding site [ion binding]; other site 1167006005038 G-X-G motif; other site 1167006005039 Cache domain; Region: Cache_1; pfam02743 1167006005040 PAS domain; Region: PAS; smart00091 1167006005041 PBP superfamily domain; Region: PBP_like_2; cl17296 1167006005042 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 1167006005043 dimer interface [polypeptide binding]; other site 1167006005044 conserved gate region; other site 1167006005045 putative PBP binding loops; other site 1167006005046 ABC-ATPase subunit interface; other site 1167006005047 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 1167006005048 dimer interface [polypeptide binding]; other site 1167006005049 conserved gate region; other site 1167006005050 putative PBP binding loops; other site 1167006005051 ABC-ATPase subunit interface; other site 1167006005052 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 1167006005053 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1167006005054 Walker A/P-loop; other site 1167006005055 ATP binding site [chemical binding]; other site 1167006005056 Q-loop/lid; other site 1167006005057 ABC transporter signature motif; other site 1167006005058 Walker B; other site 1167006005059 D-loop; other site 1167006005060 H-loop/switch region; other site 1167006005061 Cupin domain; Region: Cupin_2; cl17218 1167006005062 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1167006005063 ligand binding site [chemical binding]; other site 1167006005064 active site 1167006005065 UGI interface [polypeptide binding]; other site 1167006005066 catalytic site [active] 1167006005067 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1167006005068 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1167006005069 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1167006005070 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1167006005071 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1167006005072 Walker A/P-loop; other site 1167006005073 ATP binding site [chemical binding]; other site 1167006005074 Q-loop/lid; other site 1167006005075 ABC transporter signature motif; other site 1167006005076 Walker B; other site 1167006005077 D-loop; other site 1167006005078 H-loop/switch region; other site 1167006005079 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1167006005080 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1167006005081 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1167006005082 dimer interface [polypeptide binding]; other site 1167006005083 active site 1167006005084 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1167006005085 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1167006005086 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1167006005087 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1167006005088 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1167006005089 putative active site [active] 1167006005090 dimerization interface [polypeptide binding]; other site 1167006005091 putative tRNAtyr binding site [nucleotide binding]; other site 1167006005092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006005093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006005094 metal binding site [ion binding]; metal-binding site 1167006005095 active site 1167006005096 I-site; other site 1167006005097 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006005098 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1167006005099 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 1167006005100 carboxyltransferase (CT) interaction site; other site 1167006005101 biotinylation site [posttranslational modification]; other site 1167006005102 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 1167006005103 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1167006005104 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1167006005105 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1167006005106 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1167006005107 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1167006005108 dimer interface [polypeptide binding]; other site 1167006005109 substrate binding site [chemical binding]; other site 1167006005110 metal binding site [ion binding]; metal-binding site 1167006005111 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 1167006005112 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 1167006005113 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1167006005114 Walker A; other site 1167006005115 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1167006005116 B12 binding site [chemical binding]; other site 1167006005117 cobalt ligand [ion binding]; other site 1167006005118 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1167006005119 dimer interface [polypeptide binding]; other site 1167006005120 putative tRNA-binding site [nucleotide binding]; other site 1167006005121 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1167006005122 CoA binding domain; Region: CoA_binding; pfam02629 1167006005123 CoA-ligase; Region: Ligase_CoA; pfam00549 1167006005124 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1167006005125 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1167006005126 active site 1167006005127 catalytic site [active] 1167006005128 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1167006005129 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1167006005130 CoA-ligase; Region: Ligase_CoA; pfam00549 1167006005131 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1167006005132 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1167006005133 acyl-activating enzyme (AAE) consensus motif; other site 1167006005134 putative AMP binding site [chemical binding]; other site 1167006005135 putative active site [active] 1167006005136 putative CoA binding site [chemical binding]; other site 1167006005137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1167006005138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006005139 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1167006005140 Inorganic pyrophosphatase/exopolyphosphatase [Energy production and conversion]; Region: PPX1; COG1227 1167006005141 DHHA2 domain; Region: DHHA2; pfam02833 1167006005142 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006005143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006005144 active site 1167006005145 phosphorylation site [posttranslational modification] 1167006005146 intermolecular recognition site; other site 1167006005147 dimerization interface [polypeptide binding]; other site 1167006005148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006005149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006005150 metal binding site [ion binding]; metal-binding site 1167006005151 active site 1167006005152 I-site; other site 1167006005153 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006005154 Zn2+ binding site [ion binding]; other site 1167006005155 Mg2+ binding site [ion binding]; other site 1167006005156 HDOD domain; Region: HDOD; pfam08668 1167006005157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006005158 Zn2+ binding site [ion binding]; other site 1167006005159 Mg2+ binding site [ion binding]; other site 1167006005160 Rrf2 family protein; Region: rrf2_super; TIGR00738 1167006005161 Transcriptional regulator; Region: Rrf2; pfam02082 1167006005162 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1167006005163 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1167006005164 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1167006005165 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1167006005166 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1167006005167 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 1167006005168 Walker A motif; other site 1167006005169 ATP binding site [chemical binding]; other site 1167006005170 Walker B motif; other site 1167006005171 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 1167006005172 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1167006005173 EamA-like transporter family; Region: EamA; pfam00892 1167006005174 EamA-like transporter family; Region: EamA; pfam00892 1167006005175 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 1167006005176 active site residue [active] 1167006005177 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006005178 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; cl17915 1167006005179 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1167006005180 active site 1167006005181 motif I; other site 1167006005182 motif II; other site 1167006005183 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1167006005184 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1167006005185 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 1167006005186 ATP binding site [chemical binding]; other site 1167006005187 putative Mg++ binding site [ion binding]; other site 1167006005188 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 1167006005189 nucleotide binding region [chemical binding]; other site 1167006005190 ATP-binding site [chemical binding]; other site 1167006005191 TRCF domain; Region: TRCF; pfam03461 1167006005192 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1167006005193 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1167006005194 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1167006005195 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1167006005196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1167006005197 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1167006005198 Surface antigen; Region: Bac_surface_Ag; pfam01103 1167006005199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006005200 NAD(P) binding site [chemical binding]; other site 1167006005201 active site 1167006005202 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1167006005203 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006005204 active site 1167006005205 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1167006005206 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1167006005207 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 1167006005208 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 1167006005209 DnaA box-binding interface [nucleotide binding]; other site 1167006005210 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1167006005211 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1167006005212 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1167006005213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006005214 heat shock protein 90; Provisional; Region: PRK05218 1167006005215 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1167006005216 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1167006005217 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 1167006005218 S-adenosylmethionine binding site [chemical binding]; other site 1167006005219 Predicted membrane protein [Function unknown]; Region: COG1238 1167006005220 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1167006005221 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1167006005222 active site 1167006005223 putative substrate binding pocket [chemical binding]; other site 1167006005224 GTP-binding protein YchF; Reviewed; Region: PRK09601 1167006005225 YchF GTPase; Region: YchF; cd01900 1167006005226 G1 box; other site 1167006005227 GTP/Mg2+ binding site [chemical binding]; other site 1167006005228 Switch I region; other site 1167006005229 G2 box; other site 1167006005230 Switch II region; other site 1167006005231 G3 box; other site 1167006005232 G4 box; other site 1167006005233 G5 box; other site 1167006005234 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 1167006005235 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1167006005236 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1167006005237 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1167006005238 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1167006005239 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1167006005240 active site 1167006005241 HIGH motif; other site 1167006005242 KMSKS motif; other site 1167006005243 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1167006005244 tRNA binding surface [nucleotide binding]; other site 1167006005245 anticodon binding site; other site 1167006005246 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1167006005247 dimer interface [polypeptide binding]; other site 1167006005248 putative tRNA-binding site [nucleotide binding]; other site 1167006005249 YGGT family; Region: YGGT; pfam02325 1167006005250 DivIVA protein; Region: DivIVA; pfam05103 1167006005251 DivIVA domain; Region: DivI1A_domain; TIGR03544 1167006005252 DivIVA protein; Region: DivIVA; pfam05103 1167006005253 Uncharacterized conserved protein [Function unknown]; Region: COG1872 1167006005254 triosephosphate isomerase; Provisional; Region: PRK14565 1167006005255 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 1167006005256 substrate binding site [chemical binding]; other site 1167006005257 dimer interface [polypeptide binding]; other site 1167006005258 catalytic triad [active] 1167006005259 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1167006005260 ABC1 family; Region: ABC1; pfam03109 1167006005261 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1167006005262 active site 1167006005263 ATP binding site [chemical binding]; other site 1167006005264 HDOD domain; Region: HDOD; pfam08668 1167006005265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006005266 Zn2+ binding site [ion binding]; other site 1167006005267 Mg2+ binding site [ion binding]; other site 1167006005268 Peptidase family M48; Region: Peptidase_M48; cl12018 1167006005269 DNA primase, catalytic core; Region: dnaG; TIGR01391 1167006005270 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1167006005271 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1167006005272 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 1167006005273 active site 1167006005274 metal binding site [ion binding]; metal-binding site 1167006005275 interdomain interaction site; other site 1167006005276 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1167006005277 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1167006005278 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1167006005279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006005280 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1167006005281 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 1167006005282 DNA binding residues [nucleotide binding] 1167006005283 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1167006005284 DNA protecting protein DprA; Region: dprA; TIGR00732 1167006005285 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1167006005286 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 1167006005287 substrate binding site [chemical binding]; other site 1167006005288 hexamer interface [polypeptide binding]; other site 1167006005289 metal binding site [ion binding]; metal-binding site 1167006005290 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 1167006005291 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 1167006005292 active site 1167006005293 dimer interface [polypeptide binding]; other site 1167006005294 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1167006005295 dimer interface [polypeptide binding]; other site 1167006005296 active site 1167006005297 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 1167006005298 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 1167006005299 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1167006005300 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 1167006005301 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1167006005302 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1167006005303 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1167006005304 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1167006005305 homotetramer interface [polypeptide binding]; other site 1167006005306 ligand binding site [chemical binding]; other site 1167006005307 catalytic site [active] 1167006005308 NAD binding site [chemical binding]; other site 1167006005309 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1167006005310 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1167006005311 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1167006005312 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1167006005313 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1167006005314 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 1167006005315 putative active site [active] 1167006005316 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 1167006005317 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 1167006005318 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 1167006005319 E3 interaction residues; other site 1167006005320 Ub thioester intermediate interaction residues; other site 1167006005321 active site cysteine 1167006005322 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006005323 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 1167006005324 ligand binding site [chemical binding]; other site 1167006005325 flexible hinge region; other site 1167006005326 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006005327 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1167006005328 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 1167006005329 motif II; other site 1167006005330 Flagellin N-methylase; Region: FliB; cl00497 1167006005331 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1167006005332 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1167006005333 Protein export membrane protein; Region: SecD_SecF; pfam02355 1167006005334 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1167006005335 AIR carboxylase; Region: AIRC; smart01001 1167006005336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1167006005337 Predicted kinase [General function prediction only]; Region: COG0645 1167006005338 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1167006005339 active site 1167006005340 NIL domain; Region: NIL; pfam09383 1167006005341 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006005342 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006005343 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1167006005344 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1167006005345 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1167006005346 active site 1167006005347 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 1167006005348 molybdopterin cofactor binding site; other site 1167006005349 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 1167006005350 molybdopterin cofactor binding site; other site 1167006005351 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1167006005352 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 1167006005353 catalytic loop [active] 1167006005354 iron binding site [ion binding]; other site 1167006005355 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006005356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006005357 4Fe-4S binding domain; Region: Fer4; cl02805 1167006005358 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 1167006005359 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1167006005360 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1167006005361 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1167006005362 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1167006005363 Tetratricopeptide repeat; Region: TPR_18; pfam13512 1167006005364 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 1167006005365 binding surface 1167006005366 TPR motif; other site 1167006005367 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1167006005368 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1167006005369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006005370 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 1167006005371 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1167006005372 catalytic residues [active] 1167006005373 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1167006005374 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 1167006005375 inhibitor-cofactor binding pocket; inhibition site 1167006005376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006005377 catalytic residue [active] 1167006005378 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1167006005379 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1167006005380 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 1167006005381 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1167006005382 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1167006005383 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1167006005384 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 1167006005385 FeS/SAM binding site; other site 1167006005386 TRAM domain; Region: TRAM; pfam01938 1167006005387 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 1167006005388 IHF - DNA interface [nucleotide binding]; other site 1167006005389 IHF dimer interface [polypeptide binding]; other site 1167006005390 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1167006005391 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 1167006005392 RNA binding surface [nucleotide binding]; other site 1167006005393 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1167006005394 active site 1167006005395 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1167006005396 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1167006005397 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1167006005398 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1167006005399 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1167006005400 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 1167006005401 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 1167006005402 HSP70 interaction site [polypeptide binding]; other site 1167006005403 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1167006005404 substrate binding site [polypeptide binding]; other site 1167006005405 dimer interface [polypeptide binding]; other site 1167006005406 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1167006005407 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 1167006005408 putative substrate translocation pore; other site 1167006005409 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1167006005410 active site 1167006005411 metal binding site [ion binding]; metal-binding site 1167006005412 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1167006005413 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 1167006005414 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1167006005415 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1167006005416 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 1167006005417 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1167006005418 Ankyrin repeat; Region: Ank; pfam00023 1167006005419 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1167006005420 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 1167006005421 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1167006005422 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 1167006005423 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1167006005424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006005425 Coenzyme A binding pocket [chemical binding]; other site 1167006005426 shikimate kinase; Reviewed; Region: aroK; PRK00131 1167006005427 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 1167006005428 ADP binding site [chemical binding]; other site 1167006005429 magnesium binding site [ion binding]; other site 1167006005430 putative shikimate binding site; other site 1167006005431 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1167006005432 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1167006005433 Tetramer interface [polypeptide binding]; other site 1167006005434 active site 1167006005435 FMN-binding site [chemical binding]; other site 1167006005436 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1167006005437 glycogen synthase; Provisional; Region: glgA; PRK00654 1167006005438 ADP-binding pocket [chemical binding]; other site 1167006005439 homodimer interface [polypeptide binding]; other site 1167006005440 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1167006005441 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1167006005442 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1167006005443 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1167006005444 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1167006005445 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1167006005446 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1167006005447 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1167006005448 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 1167006005449 dimerization interface [polypeptide binding]; other site 1167006005450 putative DNA binding site [nucleotide binding]; other site 1167006005451 putative Zn2+ binding site [ion binding]; other site 1167006005452 acetyl-CoA synthetase; Provisional; Region: PRK00174 1167006005453 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1167006005454 active site 1167006005455 CoA binding site [chemical binding]; other site 1167006005456 acyl-activating enzyme (AAE) consensus motif; other site 1167006005457 AMP binding site [chemical binding]; other site 1167006005458 acetate binding site [chemical binding]; other site 1167006005459 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1167006005460 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 1167006005461 ligand binding site [chemical binding]; other site 1167006005462 flexible hinge region; other site 1167006005463 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1167006005464 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1167006005465 metal binding triad; other site 1167006005466 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1167006005467 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1167006005468 active site 1167006005469 catalytic site [active] 1167006005470 substrate binding site [chemical binding]; other site 1167006005471 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1167006005472 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1167006005473 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1167006005474 Na binding site [ion binding]; other site 1167006005475 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; cl00220 1167006005476 Isochorismatase family; Region: Isochorismatase; pfam00857 1167006005477 catalytic triad [active] 1167006005478 conserved cis-peptide bond; other site 1167006005479 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1167006005480 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 1167006005481 motif 1; other site 1167006005482 active site 1167006005483 motif 2; other site 1167006005484 motif 3; other site 1167006005485 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1167006005486 DHHA1 domain; Region: DHHA1; pfam02272 1167006005487 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1167006005488 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1167006005489 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 1167006005490 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 1167006005491 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1167006005492 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1167006005493 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1167006005494 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 1167006005495 beta subunit interaction interface [polypeptide binding]; other site 1167006005496 Walker A motif; other site 1167006005497 ATP binding site [chemical binding]; other site 1167006005498 Walker B motif; other site 1167006005499 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1167006005500 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1167006005501 core domain interface [polypeptide binding]; other site 1167006005502 delta subunit interface [polypeptide binding]; other site 1167006005503 epsilon subunit interface [polypeptide binding]; other site 1167006005504 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1167006005505 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1167006005506 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 1167006005507 alpha subunit interaction interface [polypeptide binding]; other site 1167006005508 Walker A motif; other site 1167006005509 ATP binding site [chemical binding]; other site 1167006005510 Walker B motif; other site 1167006005511 inhibitor binding site; inhibition site 1167006005512 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1167006005513 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 1167006005514 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1167006005515 gamma subunit interface [polypeptide binding]; other site 1167006005516 epsilon subunit interface [polypeptide binding]; other site 1167006005517 LBP interface [polypeptide binding]; other site 1167006005518 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1167006005519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006005520 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1167006005521 AMIN domain; Region: AMIN; pfam11741 1167006005522 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1167006005523 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 1167006005524 active site 1167006005525 metal binding site [ion binding]; metal-binding site 1167006005526 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1167006005527 MutS domain I; Region: MutS_I; pfam01624 1167006005528 MutS domain II; Region: MutS_II; pfam05188 1167006005529 MutS domain III; Region: MutS_III; pfam05192 1167006005530 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1167006005531 Walker A/P-loop; other site 1167006005532 ATP binding site [chemical binding]; other site 1167006005533 Q-loop/lid; other site 1167006005534 ABC transporter signature motif; other site 1167006005535 Walker B; other site 1167006005536 D-loop; other site 1167006005537 H-loop/switch region; other site 1167006005538 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1167006005539 nucleotide binding site/active site [active] 1167006005540 HIT family signature motif; other site 1167006005541 catalytic residue [active] 1167006005542 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1167006005543 active site 1167006005544 metal binding site [ion binding]; metal-binding site 1167006005545 homotetramer interface [polypeptide binding]; other site 1167006005546 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1167006005547 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 1167006005548 Walker A motif; other site 1167006005549 ATP binding site [chemical binding]; other site 1167006005550 Walker B motif; other site 1167006005551 arginine finger; other site 1167006005552 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1167006005553 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 1167006005554 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1167006005555 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1167006005556 AzlC protein; Region: AzlC; pfam03591 1167006005557 elongation factor P; Validated; Region: PRK00529 1167006005558 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1167006005559 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 1167006005560 RNA binding site [nucleotide binding]; other site 1167006005561 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 1167006005562 RNA binding site [nucleotide binding]; other site 1167006005563 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1167006005564 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 1167006005565 motif 1; other site 1167006005566 dimer interface [polypeptide binding]; other site 1167006005567 active site 1167006005568 motif 2; other site 1167006005569 motif 3; other site 1167006005570 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 1167006005571 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1167006005572 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1167006005573 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1167006005574 minor groove reading motif; other site 1167006005575 helix-hairpin-helix signature motif; other site 1167006005576 substrate binding pocket [chemical binding]; other site 1167006005577 active site 1167006005578 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1167006005579 putative catalytic site [active] 1167006005580 putative metal binding site [ion binding]; other site 1167006005581 putative phosphate binding site [ion binding]; other site 1167006005582 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006005583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006005584 active site 1167006005585 phosphorylation site [posttranslational modification] 1167006005586 intermolecular recognition site; other site 1167006005587 dimerization interface [polypeptide binding]; other site 1167006005588 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 1167006005589 DNA binding residues [nucleotide binding] 1167006005590 dimerization interface [polypeptide binding]; other site 1167006005591 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1167006005592 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 1167006005593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006005594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006005595 Walker A/P-loop; other site 1167006005596 ATP binding site [chemical binding]; other site 1167006005597 Q-loop/lid; other site 1167006005598 ABC transporter signature motif; other site 1167006005599 Walker B; other site 1167006005600 D-loop; other site 1167006005601 H-loop/switch region; other site 1167006005602 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1167006005603 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006005604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1167006005605 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006005606 active site 1167006005607 phosphorylation site [posttranslational modification] 1167006005608 intermolecular recognition site; other site 1167006005609 dimerization interface [polypeptide binding]; other site 1167006005610 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 1167006005611 DNA binding residues [nucleotide binding] 1167006005612 dimerization interface [polypeptide binding]; other site 1167006005613 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1167006005614 active site 1167006005615 ATP binding site [chemical binding]; other site 1167006005616 substrate binding site [chemical binding]; other site 1167006005617 Lamin Tail Domain; Region: LTD; pfam00932 1167006005618 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1167006005619 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1167006005620 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1167006005621 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006005622 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1167006005623 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1167006005624 putative active site [active] 1167006005625 putative metal binding site [ion binding]; other site 1167006005626 HAMP domain; Region: HAMP; pfam00672 1167006005627 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006005628 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006005629 metal binding site [ion binding]; metal-binding site 1167006005630 active site 1167006005631 I-site; other site 1167006005632 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 1167006005633 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1167006005634 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1167006005635 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 1167006005636 IHF - DNA interface [nucleotide binding]; other site 1167006005637 IHF dimer interface [polypeptide binding]; other site 1167006005638 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1167006005639 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1167006005640 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1167006005641 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1167006005642 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1167006005643 TrkA-N domain; Region: TrkA_N; pfam02254 1167006005644 TrkA-C domain; Region: TrkA_C; pfam02080 1167006005645 TrkA-N domain; Region: TrkA_N; pfam02254 1167006005646 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1167006005647 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1167006005648 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006005649 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 1167006005650 S-adenosylmethionine binding site [chemical binding]; other site 1167006005651 Ribonuclease P; Region: Ribonuclease_P; pfam00825 1167006005652 Haemolytic domain; Region: Haemolytic; pfam01809 1167006005653 membrane protein insertase; Provisional; Region: PRK01318 1167006005654 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1167006005655 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1167006005656 G-X-X-G motif; other site 1167006005657 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1167006005658 RxxxH motif; other site 1167006005659 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1167006005660 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1167006005661 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1167006005662 G1 box; other site 1167006005663 GTP/Mg2+ binding site [chemical binding]; other site 1167006005664 Switch I region; other site 1167006005665 G2 box; other site 1167006005666 Switch II region; other site 1167006005667 G3 box; other site 1167006005668 G4 box; other site 1167006005669 G5 box; other site 1167006005670 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1167006005671 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1167006005672 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1167006005673 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1167006005674 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1167006005675 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1167006005676 conserved cys residue [active] 1167006005677 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006005678 active site 1167006005679 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 1167006005680 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1167006005681 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 1167006005682 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1167006005683 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006005684 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 1167006005685 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1167006005686 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1167006005687 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 1167006005688 dimer interface [polypeptide binding]; other site 1167006005689 putative functional site; other site 1167006005690 putative MPT binding site; other site 1167006005691 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1167006005692 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1167006005693 DNA binding site [nucleotide binding] 1167006005694 catalytic residue [active] 1167006005695 H2TH interface [polypeptide binding]; other site 1167006005696 putative catalytic residues [active] 1167006005697 turnover-facilitating residue; other site 1167006005698 intercalation triad [nucleotide binding]; other site 1167006005699 8OG recognition residue [nucleotide binding]; other site 1167006005700 putative reading head residues; other site 1167006005701 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1167006005702 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1167006005703 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1167006005704 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1167006005705 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1167006005706 Colicin V production protein; Region: Colicin_V; pfam02674 1167006005707 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 1167006005708 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1167006005709 Probable Catalytic site; other site 1167006005710 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 1167006005711 hypothetical protein; Provisional; Region: PRK04334 1167006005712 PilZ domain; Region: PilZ; pfam07238 1167006005713 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1167006005714 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1167006005715 NADP binding site [chemical binding]; other site 1167006005716 active site 1167006005717 putative substrate binding site [chemical binding]; other site 1167006005718 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1167006005719 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1167006005720 substrate binding site; other site 1167006005721 tetramer interface; other site 1167006005722 phosphomannomutase CpsG; Provisional; Region: PRK15414 1167006005723 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 1167006005724 active site 1167006005725 substrate binding site [chemical binding]; other site 1167006005726 metal binding site [ion binding]; metal-binding site 1167006005727 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1167006005728 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1167006005729 Substrate binding site; other site 1167006005730 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1167006005731 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1167006005732 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1167006005733 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1167006005734 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1167006005735 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006005736 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1167006005737 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 1167006005738 metal binding triad; other site 1167006005739 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1167006005740 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 1167006005741 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 1167006005742 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1167006005743 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1167006005744 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1167006005745 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1167006005746 active site 1167006005747 dimer interface [polypeptide binding]; other site 1167006005748 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 1167006005749 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 1167006005750 Ligand Binding Site [chemical binding]; other site 1167006005751 Molecular Tunnel; other site 1167006005752 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 1167006005753 active site 1167006005754 metal-binding site [ion binding] 1167006005755 nucleotide-binding site [chemical binding]; other site 1167006005756 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1167006005757 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 1167006005758 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1167006005759 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1167006005760 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006005761 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1167006005762 Walker A/P-loop; other site 1167006005763 ATP binding site [chemical binding]; other site 1167006005764 Q-loop/lid; other site 1167006005765 ABC transporter signature motif; other site 1167006005766 Walker B; other site 1167006005767 D-loop; other site 1167006005768 H-loop/switch region; other site 1167006005769 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1167006005770 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1167006005771 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 1167006005772 ligand-binding site [chemical binding]; other site 1167006005773 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1167006005774 active site 1167006005775 tetramer interface; other site 1167006005776 HAMP domain; Region: HAMP; pfam00672 1167006005777 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1167006005778 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1167006005779 Mg++ binding site [ion binding]; other site 1167006005780 putative catalytic motif [active] 1167006005781 substrate binding site [chemical binding]; other site 1167006005782 PilZ domain; Region: PilZ; pfam07238 1167006005783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1167006005784 Coenzyme A binding pocket [chemical binding]; other site 1167006005785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1167006005786 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1167006005787 active site 1167006005788 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1167006005789 homodimer interface [polypeptide binding]; other site 1167006005790 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1167006005791 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 1167006005792 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1167006005793 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1167006005794 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1167006005795 putative NAD(P) binding site [chemical binding]; other site 1167006005796 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1167006005797 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1167006005798 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1167006005799 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 1167006005800 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006005801 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006005802 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 1167006005803 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1167006005804 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006005805 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1167006005806 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1167006005807 active site 1167006005808 dimer interface [polypeptide binding]; other site 1167006005809 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 1167006005810 Ligand Binding Site [chemical binding]; other site 1167006005811 Molecular Tunnel; other site 1167006005812 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1167006005813 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1167006005814 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1167006005815 putative active site [active] 1167006005816 putative metal binding site [ion binding]; other site 1167006005817 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1167006005818 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1167006005819 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1167006005820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1167006005821 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1167006005822 O-Antigen ligase; Region: Wzy_C; pfam04932 1167006005823 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1167006005824 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 1167006005825 binding surface 1167006005826 TPR motif; other site 1167006005827 O-Antigen ligase; Region: Wzy_C; pfam04932 1167006005828 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1167006005829 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 1167006005830 binding surface 1167006005831 TPR motif; other site 1167006005832 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 1167006005833 Walker A motif; other site 1167006005834 ATP binding site [chemical binding]; other site 1167006005835 Walker B motif; other site 1167006005836 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1167006005837 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1167006005838 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1167006005839 NAD binding site [chemical binding]; other site 1167006005840 putative substrate binding site 2 [chemical binding]; other site 1167006005841 putative substrate binding site 1 [chemical binding]; other site 1167006005842 active site 1167006005843 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1167006005844 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1167006005845 NAD binding site [chemical binding]; other site 1167006005846 substrate binding site [chemical binding]; other site 1167006005847 homodimer interface [polypeptide binding]; other site 1167006005848 active site 1167006005849 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1167006005850 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1167006005851 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1167006005852 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1167006005853 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1167006005854 AAA domain; Region: AAA_31; pfam13614 1167006005855 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 1167006005856 Magnesium ion binding site [ion binding]; other site 1167006005857 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1167006005858 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1167006005859 SLBB domain; Region: SLBB; pfam10531 1167006005860 SLBB domain; Region: SLBB; pfam10531 1167006005861 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1167006005862 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1167006005863 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1167006005864 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 1167006005865 dimer interface [polypeptide binding]; other site 1167006005866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006005867 catalytic residue [active] 1167006005868 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1167006005869 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006005870 active site 1167006005871 HIGH motif; other site 1167006005872 nucleotide binding site [chemical binding]; other site 1167006005873 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1167006005874 KMSKS motif; other site 1167006005875 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1167006005876 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1167006005877 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1167006005878 dimerization interface 3.5A [polypeptide binding]; other site 1167006005879 active site 1167006005880 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1167006005881 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 1167006005882 ATP binding site [chemical binding]; other site 1167006005883 putative Mg++ binding site [ion binding]; other site 1167006005884 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 1167006005885 nucleotide binding region [chemical binding]; other site 1167006005886 ATP-binding site [chemical binding]; other site 1167006005887 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1167006005888 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1167006005889 G1 box; other site 1167006005890 putative GEF interaction site [polypeptide binding]; other site 1167006005891 GTP/Mg2+ binding site [chemical binding]; other site 1167006005892 Switch I region; other site 1167006005893 G2 box; other site 1167006005894 G3 box; other site 1167006005895 Switch II region; other site 1167006005896 G4 box; other site 1167006005897 G5 box; other site 1167006005898 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 1167006005899 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 1167006005900 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1167006005901 nudix motif; other site 1167006005902 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1167006005903 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1167006005904 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1167006005905 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1167006005906 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 1167006005907 active site 1167006005908 catalytic triad [active] 1167006005909 oxyanion hole [active] 1167006005910 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 1167006005911 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 1167006005912 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1167006005913 active site 1167006005914 catalytic site [active] 1167006005915 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006005916 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1167006005917 LexA repressor; Validated; Region: PRK00215 1167006005918 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 1167006005919 Catalytic site [active] 1167006005920 Protein of unknown function DUF72; Region: DUF72; pfam01904 1167006005921 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1167006005922 Y-family of DNA polymerases; Region: PolY; cl12025 1167006005923 active site 1167006005924 DNA binding site [nucleotide binding] 1167006005925 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1167006005926 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1167006005927 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1167006005928 active site 1167006005929 PHP Thumb interface [polypeptide binding]; other site 1167006005930 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 1167006005931 generic binding surface II; other site 1167006005932 generic binding surface I; other site 1167006005933 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1167006005934 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1167006005935 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1167006005936 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1167006005937 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1167006005938 acyl-activating enzyme (AAE) consensus motif; other site 1167006005939 acyl-activating enzyme (AAE) consensus motif; other site 1167006005940 putative AMP binding site [chemical binding]; other site 1167006005941 putative active site [active] 1167006005942 putative CoA binding site [chemical binding]; other site 1167006005943 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1167006005944 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1167006005945 Peptidase family M50; Region: Peptidase_M50; pfam02163 1167006005946 active site 1167006005947 putative substrate binding region [chemical binding]; other site 1167006005948 Metal binding protein ZntC. 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: ZntC; cd01018 1167006005949 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1167006005950 putative metal binding residues [ion binding]; other site 1167006005951 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1167006005952 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1167006005953 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1167006005954 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 1167006005955 ABC-ATPase subunit interface; other site 1167006005956 dimer interface [polypeptide binding]; other site 1167006005957 putative PBP binding regions; other site 1167006005958 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1167006005959 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 1167006005960 anti sigma factor interaction site; other site 1167006005961 regulatory phosphorylation site [posttranslational modification]; other site 1167006005962 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1167006005963 DHH family; Region: DHH; pfam01368 1167006005964 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006005965 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 1167006005966 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1167006005967 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1167006005968 active site 1167006005969 NTP binding site [chemical binding]; other site 1167006005970 metal binding triad [ion binding]; metal-binding site 1167006005971 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1167006005972 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 1167006005973 active site 1167006005974 DNA binding site [nucleotide binding] 1167006005975 Int/Topo IB signature motif; other site 1167006005976 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 1167006005977 FAD binding domain; Region: FAD_binding_4; pfam01565 1167006005978 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1167006005979 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1167006005980 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1167006005981 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006005982 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1167006005983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006005984 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1167006005985 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 1167006005986 DNA binding residues [nucleotide binding] 1167006005987 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1167006005988 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006005989 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 1167006005990 Walker A motif; other site 1167006005991 ATP binding site [chemical binding]; other site 1167006005992 Walker B motif; other site 1167006005993 arginine finger; other site 1167006005994 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006005995 seryl-tRNA synthetase; Provisional; Region: PRK05431 1167006005996 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1167006005997 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 1167006005998 dimer interface [polypeptide binding]; other site 1167006005999 active site 1167006006000 motif 1; other site 1167006006001 motif 2; other site 1167006006002 motif 3; other site 1167006006003 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 1167006006004 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1167006006005 Septum formation initiator; Region: DivIC; pfam04977 1167006006006 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1167006006007 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1167006006008 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1167006006009 Fe-S cluster binding site [ion binding]; other site 1167006006010 active site 1167006006011 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1167006006012 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1167006006013 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006006014 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1167006006015 Walker A/P-loop; other site 1167006006016 ATP binding site [chemical binding]; other site 1167006006017 Q-loop/lid; other site 1167006006018 ABC transporter signature motif; other site 1167006006019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006006020 ABC transporter signature motif; other site 1167006006021 Walker B; other site 1167006006022 D-loop; other site 1167006006023 H-loop/switch region; other site 1167006006024 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006006025 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 1167006006026 ligand binding site [chemical binding]; other site 1167006006027 flexible hinge region; other site 1167006006028 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 1167006006029 TPR repeat; Region: TPR_11; pfam13414 1167006006030 binding surface 1167006006031 TPR motif; other site 1167006006032 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1167006006033 PA/protease or protease-like domain interface [polypeptide binding]; other site 1167006006034 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1167006006035 metal binding site [ion binding]; metal-binding site 1167006006036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006006037 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1167006006038 FtsX-like permease family; Region: FtsX; pfam02687 1167006006039 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006006040 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006006041 Walker A/P-loop; other site 1167006006042 ATP binding site [chemical binding]; other site 1167006006043 Q-loop/lid; other site 1167006006044 ABC transporter signature motif; other site 1167006006045 Walker B; other site 1167006006046 D-loop; other site 1167006006047 H-loop/switch region; other site 1167006006048 FtsX-like permease family; Region: FtsX; pfam02687 1167006006049 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 1167006006050 NodB motif; other site 1167006006051 putative active site [active] 1167006006052 putative catalytic site [active] 1167006006053 putative Zn binding site [ion binding]; other site 1167006006054 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1167006006055 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 1167006006056 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 1167006006057 catalytic core [active] 1167006006058 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 1167006006059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006060 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1167006006061 putative ADP-binding pocket [chemical binding]; other site 1167006006062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006063 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1167006006064 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 1167006006065 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1167006006066 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 1167006006067 trimer interface [polypeptide binding]; other site 1167006006068 active site 1167006006069 substrate binding site [chemical binding]; other site 1167006006070 CoA binding site [chemical binding]; other site 1167006006071 Family description; Region: VCBS; pfam13517 1167006006072 putative transporter; Provisional; Region: PRK10504 1167006006073 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 1167006006074 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 1167006006075 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006006076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006077 active site 1167006006078 phosphorylation site [posttranslational modification] 1167006006079 intermolecular recognition site; other site 1167006006080 dimerization interface [polypeptide binding]; other site 1167006006081 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1167006006082 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006006083 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 1167006006084 dimer interface [polypeptide binding]; other site 1167006006085 phosphorylation site [posttranslational modification] 1167006006086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006087 ATP binding site [chemical binding]; other site 1167006006088 Mg2+ binding site [ion binding]; other site 1167006006089 G-X-G motif; other site 1167006006090 HEAT repeats; Region: HEAT_2; pfam13646 1167006006091 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1167006006092 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1167006006093 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1167006006094 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1167006006095 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1167006006096 substrate binding pocket [chemical binding]; other site 1167006006097 chain length determination region; other site 1167006006098 substrate-Mg2+ binding site; other site 1167006006099 catalytic residues [active] 1167006006100 aspartate-rich region 1; other site 1167006006101 active site lid residues [active] 1167006006102 aspartate-rich region 2; other site 1167006006103 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1167006006104 NodB motif; other site 1167006006105 putative active site [active] 1167006006106 putative catalytic site [active] 1167006006107 Zn binding site [ion binding]; other site 1167006006108 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1167006006109 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 1167006006110 dimerization interface [polypeptide binding]; other site 1167006006111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1167006006112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1167006006113 dimer interface [polypeptide binding]; other site 1167006006114 putative CheW interface [polypeptide binding]; other site 1167006006115 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1167006006116 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1167006006117 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 1167006006118 FeS/SAM binding site; other site 1167006006119 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1167006006120 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 1167006006121 ThiS interaction site; other site 1167006006122 putative active site [active] 1167006006123 tetramer interface [polypeptide binding]; other site 1167006006124 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1167006006125 thiS-thiF/thiG interaction site; other site 1167006006126 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 1167006006127 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 1167006006128 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1167006006129 ATP binding site [chemical binding]; other site 1167006006130 substrate interface [chemical binding]; other site 1167006006131 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 1167006006132 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1167006006133 Substrate binding site; other site 1167006006134 Mg++ binding site; other site 1167006006135 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1167006006136 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1167006006137 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1167006006138 Clp amino terminal domain; Region: Clp_N; pfam02861 1167006006139 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 1167006006140 Walker A motif; other site 1167006006141 ATP binding site [chemical binding]; other site 1167006006142 Walker B motif; other site 1167006006143 arginine finger; other site 1167006006144 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 1167006006145 Walker A motif; other site 1167006006146 ATP binding site [chemical binding]; other site 1167006006147 Walker B motif; other site 1167006006148 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1167006006149 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1167006006150 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1167006006151 phosphofructokinase; Region: PFK_mixed; TIGR02483 1167006006152 active site 1167006006153 ADP/pyrophosphate binding site [chemical binding]; other site 1167006006154 dimerization interface [polypeptide binding]; other site 1167006006155 allosteric effector site; other site 1167006006156 fructose-1,6-bisphosphate binding site; other site 1167006006157 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 1167006006158 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1167006006159 minor groove reading motif; other site 1167006006160 helix-hairpin-helix signature motif; other site 1167006006161 substrate binding pocket [chemical binding]; other site 1167006006162 active site 1167006006163 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1167006006164 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1167006006165 Dynamin family; Region: Dynamin_N; pfam00350 1167006006166 G1 box; other site 1167006006167 GTP/Mg2+ binding site [chemical binding]; other site 1167006006168 G2 box; other site 1167006006169 Switch I region; other site 1167006006170 G3 box; other site 1167006006171 Switch II region; other site 1167006006172 G4 box; other site 1167006006173 G5 box; other site 1167006006174 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1167006006175 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1167006006176 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1167006006177 ribonuclease R; Region: RNase_R; TIGR02063 1167006006178 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1167006006179 RNB domain; Region: RNB; pfam00773 1167006006180 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 1167006006181 RNA binding site [nucleotide binding]; other site 1167006006182 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1167006006183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006006184 Zn2+ binding site [ion binding]; other site 1167006006185 Mg2+ binding site [ion binding]; other site 1167006006186 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1167006006187 synthetase active site [active] 1167006006188 NTP binding site [chemical binding]; other site 1167006006189 metal binding site [ion binding]; metal-binding site 1167006006190 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 1167006006191 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1167006006192 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006006193 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1167006006194 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006006195 putative active site [active] 1167006006196 heme pocket [chemical binding]; other site 1167006006197 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 1167006006198 dimer interface [polypeptide binding]; other site 1167006006199 phosphorylation site [posttranslational modification] 1167006006200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006201 ATP binding site [chemical binding]; other site 1167006006202 Mg2+ binding site [ion binding]; other site 1167006006203 G-X-G motif; other site 1167006006204 acetolactate synthase; Reviewed; Region: PRK08322 1167006006205 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1167006006206 PYR/PP interface [polypeptide binding]; other site 1167006006207 dimer interface [polypeptide binding]; other site 1167006006208 TPP binding site [chemical binding]; other site 1167006006209 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1167006006210 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1167006006211 TPP-binding site [chemical binding]; other site 1167006006212 dimer interface [polypeptide binding]; other site 1167006006213 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1167006006214 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1167006006215 AAA ATPase domain; Region: AAA_16; pfam13191 1167006006216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1167006006217 rod shape-determining protein MreB; Provisional; Region: PRK13927 1167006006218 MreB and similar proteins; Region: MreB_like; cd10225 1167006006219 nucleotide binding site [chemical binding]; other site 1167006006220 Mg binding site [ion binding]; other site 1167006006221 putative protofilament interaction site [polypeptide binding]; other site 1167006006222 RodZ interaction site [polypeptide binding]; other site 1167006006223 rod shape-determining protein MreC; Provisional; Region: PRK13922 1167006006224 rod shape-determining protein MreC; Region: MreC; pfam04085 1167006006225 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1167006006226 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1167006006227 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1167006006228 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1167006006229 Ion channel; Region: Ion_trans_2; pfam07885 1167006006230 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1167006006231 TrkA-N domain; Region: TrkA_N; pfam02254 1167006006232 TrkA-C domain; Region: TrkA_C; pfam02080 1167006006233 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 1167006006234 HSP70 interaction site [polypeptide binding]; other site 1167006006235 Ferrochelatase; Region: Ferrochelatase; pfam00762 1167006006236 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 1167006006237 C-terminal domain interface [polypeptide binding]; other site 1167006006238 active site 1167006006239 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 1167006006240 active site 1167006006241 N-terminal domain interface [polypeptide binding]; other site 1167006006242 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; cl00250 1167006006243 30S subunit binding site; other site 1167006006244 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 1167006006245 DNA-binding site [nucleotide binding]; DNA binding site 1167006006246 RNA-binding motif; other site 1167006006247 quinolinate synthetase; Provisional; Region: PRK09375 1167006006248 DNA polymerase I; Provisional; Region: PRK05755 1167006006249 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1167006006250 active site 1167006006251 metal binding site 1 [ion binding]; metal-binding site 1167006006252 putative 5' ssDNA interaction site; other site 1167006006253 metal binding site 3; metal-binding site 1167006006254 metal binding site 2 [ion binding]; metal-binding site 1167006006255 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1167006006256 putative DNA binding site [nucleotide binding]; other site 1167006006257 putative metal binding site [ion binding]; other site 1167006006258 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 1167006006259 active site 1167006006260 catalytic site [active] 1167006006261 substrate binding site [chemical binding]; other site 1167006006262 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1167006006263 active site 1167006006264 DNA binding site [nucleotide binding] 1167006006265 catalytic site [active] 1167006006266 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 1167006006267 dimer interface [polypeptide binding]; other site 1167006006268 Citrate synthase; Region: Citrate_synt; pfam00285 1167006006269 active site 1167006006270 citrylCoA binding site [chemical binding]; other site 1167006006271 NADH binding [chemical binding]; other site 1167006006272 cationic pore residues; other site 1167006006273 oxalacetate/citrate binding site [chemical binding]; other site 1167006006274 coenzyme A binding site [chemical binding]; other site 1167006006275 catalytic triad [active] 1167006006276 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 1167006006277 thiamine phosphate binding site [chemical binding]; other site 1167006006278 active site 1167006006279 pyrophosphate binding site [ion binding]; other site 1167006006280 HflC protein; Region: hflC; TIGR01932 1167006006281 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 1167006006282 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 1167006006283 HflK protein; Region: hflK; TIGR01933 1167006006284 Rhomboid family; Region: Rhomboid; cl11446 1167006006285 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1167006006286 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006006287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006288 active site 1167006006289 phosphorylation site [posttranslational modification] 1167006006290 intermolecular recognition site; other site 1167006006291 dimerization interface [polypeptide binding]; other site 1167006006292 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006006293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006294 active site 1167006006295 phosphorylation site [posttranslational modification] 1167006006296 intermolecular recognition site; other site 1167006006297 dimerization interface [polypeptide binding]; other site 1167006006298 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1167006006299 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1167006006300 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1167006006301 transmembrane helices; other site 1167006006302 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1167006006303 transmembrane helices; other site 1167006006304 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1167006006305 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006006306 PAS domain; Region: PAS_9; pfam13426 1167006006307 putative active site [active] 1167006006308 heme pocket [chemical binding]; other site 1167006006309 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1167006006310 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 1167006006311 Walker A motif; other site 1167006006312 ATP binding site [chemical binding]; other site 1167006006313 Walker B motif; other site 1167006006314 arginine finger; other site 1167006006315 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006006316 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 1167006006317 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 1167006006318 dimer interface [polypeptide binding]; other site 1167006006319 phosphorylation site [posttranslational modification] 1167006006320 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006321 ATP binding site [chemical binding]; other site 1167006006322 Mg2+ binding site [ion binding]; other site 1167006006323 G-X-G motif; other site 1167006006324 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006006325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006326 active site 1167006006327 phosphorylation site [posttranslational modification] 1167006006328 intermolecular recognition site; other site 1167006006329 dimerization interface [polypeptide binding]; other site 1167006006330 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1167006006331 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1167006006332 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1167006006333 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1167006006334 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006006335 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 1167006006336 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1167006006337 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1167006006338 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1167006006339 acyl-activating enzyme (AAE) consensus motif; other site 1167006006340 active site 1167006006341 AMP binding site [chemical binding]; other site 1167006006342 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1167006006343 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006006344 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 1167006006345 FeS/SAM binding site; other site 1167006006346 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 1167006006347 active site 1167006006348 oxyanion hole [active] 1167006006349 hypothetical protein; Provisional; Region: PRK07208 1167006006350 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006006351 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1167006006352 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1167006006353 Ligand binding site; other site 1167006006354 Putative Catalytic site; other site 1167006006355 DXD motif; other site 1167006006356 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1167006006357 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1167006006358 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 1167006006359 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 1167006006360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006006361 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1167006006362 NAD(P) binding site [chemical binding]; other site 1167006006363 active site 1167006006364 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 1167006006365 active site 1167006006366 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 1167006006367 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1167006006368 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1167006006369 FMN binding site [chemical binding]; other site 1167006006370 substrate binding site [chemical binding]; other site 1167006006371 putative catalytic residue [active] 1167006006372 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1167006006373 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1167006006374 active site 1167006006375 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1167006006376 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1167006006377 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1167006006378 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1167006006379 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1167006006380 putative NADP binding site [chemical binding]; other site 1167006006381 active site 1167006006382 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1167006006383 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 1167006006384 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1167006006385 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006006386 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006006387 Probable Catalytic site; other site 1167006006388 metal-binding site 1167006006389 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1167006006390 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1167006006391 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1167006006392 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1167006006393 Walker A/P-loop; other site 1167006006394 ATP binding site [chemical binding]; other site 1167006006395 Q-loop/lid; other site 1167006006396 ABC transporter signature motif; other site 1167006006397 Walker B; other site 1167006006398 D-loop; other site 1167006006399 H-loop/switch region; other site 1167006006400 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1167006006401 putative carbohydrate binding site [chemical binding]; other site 1167006006402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006403 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 1167006006404 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006006405 B12 binding site [chemical binding]; other site 1167006006406 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006006407 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1167006006408 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1167006006409 putative ADP-binding pocket [chemical binding]; other site 1167006006410 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006411 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006412 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1167006006413 putative ADP-binding pocket [chemical binding]; other site 1167006006414 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1167006006415 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006006416 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006006417 Outer membrane efflux protein; Region: OEP; pfam02321 1167006006418 Outer membrane efflux protein; Region: OEP; pfam02321 1167006006419 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006006420 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006006421 Walker A/P-loop; other site 1167006006422 ATP binding site [chemical binding]; other site 1167006006423 Q-loop/lid; other site 1167006006424 ABC transporter signature motif; other site 1167006006425 Walker B; other site 1167006006426 D-loop; other site 1167006006427 H-loop/switch region; other site 1167006006428 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006006429 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1167006006430 FtsX-like permease family; Region: FtsX; pfam02687 1167006006431 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1167006006432 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1167006006433 Ligand binding site; other site 1167006006434 Putative Catalytic site; other site 1167006006435 DXD motif; other site 1167006006436 Escherichia coli YdjC-like family of proteins; Region: YdjC; cd10808 1167006006437 putative active site [active] 1167006006438 YdjC motif; other site 1167006006439 Mg binding site [ion binding]; other site 1167006006440 putative homodimer interface [polypeptide binding]; other site 1167006006441 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1167006006442 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1167006006443 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1167006006444 Walker A/P-loop; other site 1167006006445 ATP binding site [chemical binding]; other site 1167006006446 Q-loop/lid; other site 1167006006447 ABC transporter signature motif; other site 1167006006448 Walker B; other site 1167006006449 D-loop; other site 1167006006450 H-loop/switch region; other site 1167006006451 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1167006006452 putative carbohydrate binding site [chemical binding]; other site 1167006006453 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1167006006454 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006006455 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006006456 Probable Catalytic site; other site 1167006006457 metal-binding site 1167006006458 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 1167006006459 putative ligand binding site [chemical binding]; other site 1167006006460 putative catalytic site [active] 1167006006461 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1167006006462 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1167006006463 Ligand binding site; other site 1167006006464 Putative Catalytic site; other site 1167006006465 DXD motif; other site 1167006006466 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006467 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 1167006006468 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1167006006469 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006006470 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 1167006006471 active site 1167006006472 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006006473 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 1167006006474 active site 1167006006475 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1167006006476 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006006477 B12 binding site [chemical binding]; other site 1167006006478 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 1167006006479 FeS/SAM binding site; other site 1167006006480 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 1167006006481 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006006482 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006006483 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1167006006484 Ligand binding site; other site 1167006006485 Putative Catalytic site; other site 1167006006486 DXD motif; other site 1167006006487 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1167006006488 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006006489 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 1167006006490 FeS/SAM binding site; other site 1167006006491 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 1167006006492 Ligand binding site; other site 1167006006493 Ligand binding site; other site 1167006006494 Ligand binding site; other site 1167006006495 Putative Catalytic site; other site 1167006006496 DXD motif; other site 1167006006497 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1167006006498 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006006499 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 1167006006500 FeS/SAM binding site; other site 1167006006501 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1167006006502 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1167006006503 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006006504 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 1167006006505 FeS/SAM binding site; other site 1167006006506 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1167006006507 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 1167006006508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006006509 catalytic residue [active] 1167006006510 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1167006006511 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1167006006512 active site 1167006006513 Riboflavin kinase; Region: Flavokinase; pfam01687 1167006006514 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 1167006006515 TPR motif; other site 1167006006516 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1167006006517 binding surface 1167006006518 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 1167006006519 binding surface 1167006006520 TPR motif; other site 1167006006521 TPR repeat; Region: TPR_11; pfam13414 1167006006522 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 1167006006523 binding surface 1167006006524 TPR motif; other site 1167006006525 HEAT repeats; Region: HEAT_2; pfam13646 1167006006526 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1167006006527 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1167006006528 Lumazine binding domain; Region: Lum_binding; pfam00677 1167006006529 Lumazine binding domain; Region: Lum_binding; pfam00677 1167006006530 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1167006006531 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1167006006532 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1167006006533 dimerization interface [polypeptide binding]; other site 1167006006534 active site 1167006006535 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 1167006006536 homopentamer interface [polypeptide binding]; other site 1167006006537 active site 1167006006538 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1167006006539 putative RNA binding site [nucleotide binding]; other site 1167006006540 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1167006006541 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1167006006542 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1167006006543 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1167006006544 Ferredoxin [Energy production and conversion]; Region: COG1146 1167006006545 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006006546 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 1167006006547 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 1167006006548 L-aspartate oxidase; Provisional; Region: PRK06175 1167006006549 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1167006006550 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006006551 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006006552 Alkylmercury lyase; Region: MerB; pfam03243 1167006006553 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006006554 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006006555 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 1167006006556 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 1167006006557 tricarballylate utilization protein B; Provisional; Region: PRK15033 1167006006558 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 1167006006559 elongation factor Tu; Reviewed; Region: PRK00049 1167006006560 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1167006006561 G1 box; other site 1167006006562 GEF interaction site [polypeptide binding]; other site 1167006006563 GTP/Mg2+ binding site [chemical binding]; other site 1167006006564 Switch I region; other site 1167006006565 G2 box; other site 1167006006566 G3 box; other site 1167006006567 Switch II region; other site 1167006006568 G4 box; other site 1167006006569 G5 box; other site 1167006006570 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 1167006006571 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 1167006006572 Antibiotic Binding Site [chemical binding]; other site 1167006006573 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1167006006574 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1167006006575 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1167006006576 putative homodimer interface [polypeptide binding]; other site 1167006006577 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1167006006578 heterodimer interface [polypeptide binding]; other site 1167006006579 homodimer interface [polypeptide binding]; other site 1167006006580 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1167006006581 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 1167006006582 23S rRNA interface [nucleotide binding]; other site 1167006006583 L7/L12 interface [polypeptide binding]; other site 1167006006584 putative thiostrepton binding site; other site 1167006006585 L25 interface [polypeptide binding]; other site 1167006006586 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 1167006006587 mRNA/rRNA interface [nucleotide binding]; other site 1167006006588 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 1167006006589 23S rRNA interface [nucleotide binding]; other site 1167006006590 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1167006006591 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 1167006006592 peripheral dimer interface [polypeptide binding]; other site 1167006006593 core dimer interface [polypeptide binding]; other site 1167006006594 L10 interface [polypeptide binding]; other site 1167006006595 L11 interface [polypeptide binding]; other site 1167006006596 putative EF-Tu interaction site [polypeptide binding]; other site 1167006006597 putative EF-G interaction site [polypeptide binding]; other site 1167006006598 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1167006006599 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 1167006006600 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1167006006601 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 1167006006602 RPB11 interaction site [polypeptide binding]; other site 1167006006603 RPB12 interaction site [polypeptide binding]; other site 1167006006604 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 1167006006605 RPB3 interaction site [polypeptide binding]; other site 1167006006606 RPB1 interaction site [polypeptide binding]; other site 1167006006607 RPB11 interaction site [polypeptide binding]; other site 1167006006608 RPB10 interaction site [polypeptide binding]; other site 1167006006609 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1167006006610 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1167006006611 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1167006006612 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1167006006613 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1167006006614 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1167006006615 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1167006006616 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1167006006617 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1167006006618 DNA binding site [nucleotide binding] 1167006006619 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1167006006620 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 1167006006621 S17 interaction site [polypeptide binding]; other site 1167006006622 S8 interaction site; other site 1167006006623 16S rRNA interaction site [nucleotide binding]; other site 1167006006624 streptomycin interaction site [chemical binding]; other site 1167006006625 23S rRNA interaction site [nucleotide binding]; other site 1167006006626 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1167006006627 30S ribosomal protein S7; Validated; Region: PRK05302 1167006006628 elongation factor G; Reviewed; Region: PRK00007 1167006006629 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1167006006630 G1 box; other site 1167006006631 putative GEF interaction site [polypeptide binding]; other site 1167006006632 GTP/Mg2+ binding site [chemical binding]; other site 1167006006633 Switch I region; other site 1167006006634 G2 box; other site 1167006006635 G3 box; other site 1167006006636 Switch II region; other site 1167006006637 G4 box; other site 1167006006638 G5 box; other site 1167006006639 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 1167006006640 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1167006006641 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 1167006006642 elongation factor Tu; Reviewed; Region: PRK00049 1167006006643 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1167006006644 G1 box; other site 1167006006645 GEF interaction site [polypeptide binding]; other site 1167006006646 GTP/Mg2+ binding site [chemical binding]; other site 1167006006647 Switch I region; other site 1167006006648 G2 box; other site 1167006006649 G3 box; other site 1167006006650 Switch II region; other site 1167006006651 G4 box; other site 1167006006652 G5 box; other site 1167006006653 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 1167006006654 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 1167006006655 Antibiotic Binding Site [chemical binding]; other site 1167006006656 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1167006006657 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1167006006658 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1167006006659 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1167006006660 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1167006006661 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1167006006662 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1167006006663 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1167006006664 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 1167006006665 putative translocon binding site; other site 1167006006666 protein-rRNA interface [nucleotide binding]; other site 1167006006667 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1167006006668 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 1167006006669 G-X-X-G motif; other site 1167006006670 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1167006006671 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 1167006006672 23S rRNA interface [nucleotide binding]; other site 1167006006673 5S rRNA interface [nucleotide binding]; other site 1167006006674 putative antibiotic binding site [chemical binding]; other site 1167006006675 L25 interface [polypeptide binding]; other site 1167006006676 L27 interface [polypeptide binding]; other site 1167006006677 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 1167006006678 23S rRNA interface [nucleotide binding]; other site 1167006006679 putative translocon interaction site; other site 1167006006680 signal recognition particle (SRP54) interaction site; other site 1167006006681 L23 interface [polypeptide binding]; other site 1167006006682 trigger factor interaction site; other site 1167006006683 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1167006006684 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1167006006685 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1167006006686 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1167006006687 RNA binding site [nucleotide binding]; other site 1167006006688 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1167006006689 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1167006006690 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1167006006691 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1167006006692 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1167006006693 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1167006006694 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1167006006695 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 1167006006696 5S rRNA interface [nucleotide binding]; other site 1167006006697 23S rRNA interface [nucleotide binding]; other site 1167006006698 L5 interface [polypeptide binding]; other site 1167006006699 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1167006006700 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1167006006701 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1167006006702 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 1167006006703 23S rRNA binding site [nucleotide binding]; other site 1167006006704 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1167006006705 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1167006006706 SecY translocase; Region: SecY; pfam00344 1167006006707 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 1167006006708 active site 1167006006709 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 1167006006710 rRNA binding site [nucleotide binding]; other site 1167006006711 predicted 30S ribosome binding site; other site 1167006006712 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1167006006713 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1167006006714 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1167006006715 30S ribosomal protein S11; Validated; Region: PRK05309 1167006006716 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1167006006717 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1167006006718 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 1167006006719 RNA binding surface [nucleotide binding]; other site 1167006006720 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1167006006721 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1167006006722 alphaNTD homodimer interface [polypeptide binding]; other site 1167006006723 alphaNTD - beta interaction site [polypeptide binding]; other site 1167006006724 alphaNTD - beta' interaction site [polypeptide binding]; other site 1167006006725 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1167006006726 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1167006006727 Flagellin N-methylase; Region: FliB; pfam03692 1167006006728 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 1167006006729 rRNA interaction site [nucleotide binding]; other site 1167006006730 S8 interaction site; other site 1167006006731 putative laminin-1 binding site; other site 1167006006732 elongation factor Ts; Reviewed; Region: tsf; PRK12332 1167006006733 UBA/TS-N domain; Region: UBA; pfam00627 1167006006734 Elongation factor TS; Region: EF_TS; pfam00889 1167006006735 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 1167006006736 putative nucleotide binding site [chemical binding]; other site 1167006006737 uridine monophosphate binding site [chemical binding]; other site 1167006006738 homohexameric interface [polypeptide binding]; other site 1167006006739 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1167006006740 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 1167006006741 hinge region; other site 1167006006742 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1167006006743 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1167006006744 catalytic residue [active] 1167006006745 putative FPP diphosphate binding site; other site 1167006006746 putative FPP binding hydrophobic cleft; other site 1167006006747 dimer interface [polypeptide binding]; other site 1167006006748 putative IPP diphosphate binding site; other site 1167006006749 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1167006006750 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1167006006751 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1167006006752 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1167006006753 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1167006006754 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1167006006755 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1167006006756 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 1167006006757 active site 1167006006758 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 1167006006759 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1167006006760 putative substrate binding region [chemical binding]; other site 1167006006761 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1167006006762 Glycoprotease family; Region: Peptidase_M22; pfam00814 1167006006763 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1167006006764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1167006006765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1167006006766 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1167006006767 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 1167006006768 dimer interface [polypeptide binding]; other site 1167006006769 motif 1; other site 1167006006770 active site 1167006006771 motif 2; other site 1167006006772 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1167006006773 putative deacylase active site [active] 1167006006774 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 1167006006775 active site 1167006006776 motif 3; other site 1167006006777 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 1167006006778 anticodon binding site; other site 1167006006779 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1167006006780 HD domain; Region: HD_4; pfam13328 1167006006781 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1167006006782 synthetase active site [active] 1167006006783 NTP binding site [chemical binding]; other site 1167006006784 metal binding site [ion binding]; metal-binding site 1167006006785 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 1167006006786 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1167006006787 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1167006006788 Smr domain; Region: Smr; pfam01713 1167006006789 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1167006006790 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1167006006791 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1167006006792 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1167006006793 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 1167006006794 putative FMN binding site [chemical binding]; other site 1167006006795 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1167006006796 Predicted permeases [General function prediction only]; Region: COG0795 1167006006797 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1167006006798 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1167006006799 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1167006006800 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1167006006801 DHH family; Region: DHH; pfam01368 1167006006802 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1167006006803 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1167006006804 ligand binding site; other site 1167006006805 oligomer interface; other site 1167006006806 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1167006006807 dimer interface [polypeptide binding]; other site 1167006006808 N-terminal domain interface [polypeptide binding]; other site 1167006006809 sulfate 1 binding site; other site 1167006006810 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1167006006811 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1167006006812 oligomer interface; other site 1167006006813 ligand binding site; other site 1167006006814 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1167006006815 dimer interface [polypeptide binding]; other site 1167006006816 N-terminal domain interface [polypeptide binding]; other site 1167006006817 sulfate 1 binding site; other site 1167006006818 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 1167006006819 dimerization interface [polypeptide binding]; other site 1167006006820 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006006821 PAS domain; Region: PAS_9; pfam13426 1167006006822 putative active site [active] 1167006006823 heme pocket [chemical binding]; other site 1167006006824 histidine kinase; Provisional; Region: PRK13557 1167006006825 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006006826 putative active site [active] 1167006006827 heme pocket [chemical binding]; other site 1167006006828 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 1167006006829 dimer interface [polypeptide binding]; other site 1167006006830 phosphorylation site [posttranslational modification] 1167006006831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006832 ATP binding site [chemical binding]; other site 1167006006833 Mg2+ binding site [ion binding]; other site 1167006006834 G-X-G motif; other site 1167006006835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006836 active site 1167006006837 phosphorylation site [posttranslational modification] 1167006006838 intermolecular recognition site; other site 1167006006839 dimerization interface [polypeptide binding]; other site 1167006006840 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006006841 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1167006006842 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006006843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006844 active site 1167006006845 phosphorylation site [posttranslational modification] 1167006006846 intermolecular recognition site; other site 1167006006847 dimerization interface [polypeptide binding]; other site 1167006006848 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 1167006006849 Walker A motif; other site 1167006006850 ATP binding site [chemical binding]; other site 1167006006851 Walker B motif; other site 1167006006852 arginine finger; other site 1167006006853 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006006854 PAS domain; Region: PAS_9; pfam13426 1167006006855 putative active site [active] 1167006006856 heme pocket [chemical binding]; other site 1167006006857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006006858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006006859 metal binding site [ion binding]; metal-binding site 1167006006860 active site 1167006006861 I-site; other site 1167006006862 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1167006006863 putative FMN binding site [chemical binding]; other site 1167006006864 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1167006006865 iron binding site [ion binding]; other site 1167006006866 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1167006006867 Rubrerythrin [Energy production and conversion]; Region: COG1592 1167006006868 diiron binding motif [ion binding]; other site 1167006006869 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1167006006870 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 1167006006871 dimer interface [polypeptide binding]; other site 1167006006872 phosphorylation site [posttranslational modification] 1167006006873 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006874 ATP binding site [chemical binding]; other site 1167006006875 Mg2+ binding site [ion binding]; other site 1167006006876 G-X-G motif; other site 1167006006877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006878 active site 1167006006879 phosphorylation site [posttranslational modification] 1167006006880 intermolecular recognition site; other site 1167006006881 dimerization interface [polypeptide binding]; other site 1167006006882 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006006883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006884 active site 1167006006885 phosphorylation site [posttranslational modification] 1167006006886 intermolecular recognition site; other site 1167006006887 dimerization interface [polypeptide binding]; other site 1167006006888 HDOD domain; Region: HDOD; pfam08668 1167006006889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006006890 Zn2+ binding site [ion binding]; other site 1167006006891 Mg2+ binding site [ion binding]; other site 1167006006892 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 1167006006893 MoaE homodimer interface [polypeptide binding]; other site 1167006006894 MoaD interaction [polypeptide binding]; other site 1167006006895 active site residues [active] 1167006006896 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 1167006006897 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006006898 catalytic residue [active] 1167006006899 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1167006006900 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006006901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1167006006902 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1167006006903 putative active site [active] 1167006006904 nucleotide binding site [chemical binding]; other site 1167006006905 nudix motif; other site 1167006006906 putative metal binding site [ion binding]; other site 1167006006907 Cell division protein ZapA; Region: ZapA; pfam05164 1167006006908 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1167006006909 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1167006006910 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006006911 Zn2+ binding site [ion binding]; other site 1167006006912 Mg2+ binding site [ion binding]; other site 1167006006913 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1167006006914 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1167006006915 active site 1167006006916 HIGH motif; other site 1167006006917 dimer interface [polypeptide binding]; other site 1167006006918 KMSKS motif; other site 1167006006919 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 1167006006920 RNA binding surface [nucleotide binding]; other site 1167006006921 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1167006006922 metal binding site 2 [ion binding]; metal-binding site 1167006006923 putative DNA binding helix; other site 1167006006924 metal binding site 1 [ion binding]; metal-binding site 1167006006925 dimer interface [polypeptide binding]; other site 1167006006926 structural Zn2+ binding site [ion binding]; other site 1167006006927 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 1167006006928 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006006929 FeS/SAM binding site; other site 1167006006930 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 1167006006931 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1167006006932 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1167006006933 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006006934 ligand binding site [chemical binding]; other site 1167006006935 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1167006006936 Putative Fe-S cluster; Region: FeS; cl17515 1167006006937 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1167006006938 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 1167006006939 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1167006006940 putative ribose interaction site [chemical binding]; other site 1167006006941 putative ADP binding site [chemical binding]; other site 1167006006942 hypothetical protein; Provisional; Region: PRK11820 1167006006943 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1167006006944 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1167006006945 hypothetical protein; Provisional; Region: PRK04323 1167006006946 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1167006006947 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 1167006006948 catalytic site [active] 1167006006949 G-X2-G-X-G-K; other site 1167006006950 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1167006006951 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1167006006952 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1167006006953 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1167006006954 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 1167006006955 dimer interface [polypeptide binding]; other site 1167006006956 phosphorylation site [posttranslational modification] 1167006006957 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006958 ATP binding site [chemical binding]; other site 1167006006959 Mg2+ binding site [ion binding]; other site 1167006006960 G-X-G motif; other site 1167006006961 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006006962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006963 active site 1167006006964 phosphorylation site [posttranslational modification] 1167006006965 intermolecular recognition site; other site 1167006006966 dimerization interface [polypeptide binding]; other site 1167006006967 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 1167006006968 Walker A motif; other site 1167006006969 ATP binding site [chemical binding]; other site 1167006006970 Walker B motif; other site 1167006006971 arginine finger; other site 1167006006972 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006006973 HDOD domain; Region: HDOD; pfam08668 1167006006974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006006975 Zn2+ binding site [ion binding]; other site 1167006006976 Mg2+ binding site [ion binding]; other site 1167006006977 GAF domain; Region: GAF_3; pfam13492 1167006006978 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 1167006006979 dimer interface [polypeptide binding]; other site 1167006006980 phosphorylation site [posttranslational modification] 1167006006981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006982 ATP binding site [chemical binding]; other site 1167006006983 Mg2+ binding site [ion binding]; other site 1167006006984 G-X-G motif; other site 1167006006985 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006006986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006006987 active site 1167006006988 phosphorylation site [posttranslational modification] 1167006006989 intermolecular recognition site; other site 1167006006990 dimerization interface [polypeptide binding]; other site 1167006006991 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1167006006992 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 1167006006993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006006994 dimer interface [polypeptide binding]; other site 1167006006995 phosphorylation site [posttranslational modification] 1167006006996 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006006997 ATP binding site [chemical binding]; other site 1167006006998 Mg2+ binding site [ion binding]; other site 1167006006999 G-X-G motif; other site 1167006007000 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006007001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007002 active site 1167006007003 phosphorylation site [posttranslational modification] 1167006007004 intermolecular recognition site; other site 1167006007005 dimerization interface [polypeptide binding]; other site 1167006007006 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1167006007007 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 1167006007008 RNA binding site [nucleotide binding]; other site 1167006007009 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 1167006007010 RNA binding site [nucleotide binding]; other site 1167006007011 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 1167006007012 RNA binding site [nucleotide binding]; other site 1167006007013 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 1167006007014 RNA binding site [nucleotide binding]; other site 1167006007015 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 1167006007016 B12 binding domain; Region: B12-binding; pfam02310 1167006007017 B12 binding site [chemical binding]; other site 1167006007018 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1167006007019 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1167006007020 glutamate racemase; Provisional; Region: PRK00865 1167006007021 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1167006007022 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1167006007023 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1167006007024 futalosine nucleosidase; Region: fut_nucase; TIGR03664 1167006007025 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 1167006007026 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1167006007027 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1167006007028 GTP binding site; other site 1167006007029 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006007030 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1167006007031 substrate binding site [chemical binding]; other site 1167006007032 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006007033 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006007034 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006007035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006007036 Integrase core domain; Region: rve; pfam00665 1167006007037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006007038 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006007039 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006007040 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 1167006007041 Walker A motif; other site 1167006007042 ATP binding site [chemical binding]; other site 1167006007043 Walker B motif; other site 1167006007044 Cupin domain; Region: Cupin_2; pfam07883 1167006007045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006007046 Coenzyme A binding pocket [chemical binding]; other site 1167006007047 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1167006007048 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 1167006007049 S-adenosylmethionine binding site [chemical binding]; other site 1167006007050 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1167006007051 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 1167006007052 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1167006007053 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1167006007054 Walker A/P-loop; other site 1167006007055 ATP binding site [chemical binding]; other site 1167006007056 Q-loop/lid; other site 1167006007057 ABC transporter signature motif; other site 1167006007058 Walker B; other site 1167006007059 D-loop; other site 1167006007060 H-loop/switch region; other site 1167006007061 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1167006007062 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1167006007063 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 1167006007064 dimer interface [polypeptide binding]; other site 1167006007065 conserved gate region; other site 1167006007066 ABC-ATPase subunit interface; other site 1167006007067 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1167006007068 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1167006007069 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1167006007070 MarR family; Region: MarR; pfam01047 1167006007071 Predicted permease; Region: DUF318; cl17795 1167006007072 Outer membrane efflux protein; Region: OEP; pfam02321 1167006007073 Outer membrane efflux protein; Region: OEP; pfam02321 1167006007074 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1167006007075 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006007076 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006007077 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006007078 Walker A/P-loop; other site 1167006007079 ATP binding site [chemical binding]; other site 1167006007080 Q-loop/lid; other site 1167006007081 ABC transporter signature motif; other site 1167006007082 Walker B; other site 1167006007083 D-loop; other site 1167006007084 H-loop/switch region; other site 1167006007085 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006007086 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1167006007087 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1167006007088 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1167006007089 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1167006007090 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1167006007091 RNA binding site [nucleotide binding]; other site 1167006007092 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1167006007093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007094 intermolecular recognition site; other site 1167006007095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007096 active site 1167006007097 phosphorylation site [posttranslational modification] 1167006007098 intermolecular recognition site; other site 1167006007099 dimerization interface [polypeptide binding]; other site 1167006007100 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1167006007101 glutamate dehydrogenase; Provisional; Region: PRK09414 1167006007102 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1167006007103 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1167006007104 NAD(P) binding site [chemical binding]; other site 1167006007105 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1167006007106 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1167006007107 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1167006007108 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1167006007109 active site 1167006007110 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 1167006007111 PEP-CTERM motif; Region: VPEP; pfam07589 1167006007112 Isochorismatase family; Region: Isochorismatase; pfam00857 1167006007113 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 1167006007114 conserved cis-peptide bond; other site 1167006007115 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1167006007116 ZIP Zinc transporter; Region: Zip; pfam02535 1167006007117 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 1167006007118 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 1167006007119 FeS/SAM binding site; other site 1167006007120 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1167006007121 GTP-binding protein Der; Reviewed; Region: PRK00093 1167006007122 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1167006007123 G1 box; other site 1167006007124 GTP/Mg2+ binding site [chemical binding]; other site 1167006007125 Switch I region; other site 1167006007126 G2 box; other site 1167006007127 Switch II region; other site 1167006007128 G3 box; other site 1167006007129 G4 box; other site 1167006007130 G5 box; other site 1167006007131 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1167006007132 G1 box; other site 1167006007133 GTP/Mg2+ binding site [chemical binding]; other site 1167006007134 Switch I region; other site 1167006007135 G2 box; other site 1167006007136 G3 box; other site 1167006007137 Switch II region; other site 1167006007138 G4 box; other site 1167006007139 G5 box; other site 1167006007140 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 1167006007141 transmembrane helices; other site 1167006007142 TrkA-C domain; Region: TrkA_C; pfam02080 1167006007143 TrkA-C domain; Region: TrkA_C; pfam02080 1167006007144 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1167006007145 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 1167006007146 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1167006007147 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 1167006007148 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1167006007149 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 1167006007150 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006007151 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006007152 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1167006007153 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006007154 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1167006007155 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006007156 Rubredoxin; Region: Rubredoxin; pfam00301 1167006007157 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 1167006007158 iron binding site [ion binding]; other site 1167006007159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1167006007160 Family of unknown function (DUF490); Region: DUF490; pfam04357 1167006007161 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1167006007162 Surface antigen; Region: Bac_surface_Ag; pfam01103 1167006007163 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1167006007164 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1167006007165 aspartate aminotransferase; Provisional; Region: PRK06836 1167006007166 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 1167006007167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006007168 homodimer interface [polypeptide binding]; other site 1167006007169 catalytic residue [active] 1167006007170 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1167006007171 putative metal binding site [ion binding]; other site 1167006007172 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 1167006007173 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1167006007174 HSP70 interaction site [polypeptide binding]; other site 1167006007175 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1167006007176 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1167006007177 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 1167006007178 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1167006007179 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 1167006007180 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1167006007181 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1167006007182 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1167006007183 G1 box; other site 1167006007184 putative GEF interaction site [polypeptide binding]; other site 1167006007185 GTP/Mg2+ binding site [chemical binding]; other site 1167006007186 Switch I region; other site 1167006007187 G2 box; other site 1167006007188 G3 box; other site 1167006007189 Switch II region; other site 1167006007190 G4 box; other site 1167006007191 G5 box; other site 1167006007192 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 1167006007193 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 1167006007194 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1167006007195 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1167006007196 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006007197 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006007198 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006007199 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1167006007200 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 1167006007201 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1167006007202 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 1167006007203 Walker A motif; other site 1167006007204 ATP binding site [chemical binding]; other site 1167006007205 Walker B motif; other site 1167006007206 arginine finger; other site 1167006007207 Peptidase family M41; Region: Peptidase_M41; pfam01434 1167006007208 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006007209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007210 active site 1167006007211 phosphorylation site [posttranslational modification] 1167006007212 intermolecular recognition site; other site 1167006007213 dimerization interface [polypeptide binding]; other site 1167006007214 PAS fold; Region: PAS_4; pfam08448 1167006007215 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006007216 putative active site [active] 1167006007217 heme pocket [chemical binding]; other site 1167006007218 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1167006007219 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 1167006007220 Walker A motif; other site 1167006007221 ATP binding site [chemical binding]; other site 1167006007222 Walker B motif; other site 1167006007223 arginine finger; other site 1167006007224 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006007225 PAS domain; Region: PAS; smart00091 1167006007226 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006007227 putative active site [active] 1167006007228 heme pocket [chemical binding]; other site 1167006007229 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 1167006007230 dimer interface [polypeptide binding]; other site 1167006007231 phosphorylation site [posttranslational modification] 1167006007232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006007233 ATP binding site [chemical binding]; other site 1167006007234 Mg2+ binding site [ion binding]; other site 1167006007235 G-X-G motif; other site 1167006007236 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1167006007237 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1167006007238 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 1167006007239 Ligand Binding Site [chemical binding]; other site 1167006007240 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1167006007241 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006007242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007243 active site 1167006007244 phosphorylation site [posttranslational modification] 1167006007245 intermolecular recognition site; other site 1167006007246 dimerization interface [polypeptide binding]; other site 1167006007247 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 1167006007248 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1167006007249 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1167006007250 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1167006007251 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1167006007252 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1167006007253 ligand binding site [chemical binding]; other site 1167006007254 homodimer interface [polypeptide binding]; other site 1167006007255 NAD(P) binding site [chemical binding]; other site 1167006007256 trimer interface B [polypeptide binding]; other site 1167006007257 trimer interface A [polypeptide binding]; other site 1167006007258 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 1167006007259 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1167006007260 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1167006007261 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006007262 acyl-CoA synthetase; Provisional; Region: PTZ00216 1167006007263 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1167006007264 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1167006007265 putative trimer interface [polypeptide binding]; other site 1167006007266 putative CoA binding site [chemical binding]; other site 1167006007267 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1167006007268 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1167006007269 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1167006007270 Transposase domain (DUF772); Region: DUF772; pfam05598 1167006007271 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1167006007272 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1167006007273 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1167006007274 putative active site [active] 1167006007275 putative NTP binding site [chemical binding]; other site 1167006007276 putative nucleic acid binding site [nucleotide binding]; other site 1167006007277 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1167006007278 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1167006007279 HicB family; Region: HicB; pfam05534 1167006007280 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 1167006007281 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1167006007282 OstA-like protein; Region: OstA; cl00844 1167006007283 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 1167006007284 putative ligand binding pocket/active site [active] 1167006007285 putative metal binding site [ion binding]; other site 1167006007286 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1167006007287 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1167006007288 active site 1167006007289 HIGH motif; other site 1167006007290 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1167006007291 KMSKS motif; other site 1167006007292 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1167006007293 tRNA binding surface [nucleotide binding]; other site 1167006007294 anticodon binding site; other site 1167006007295 muropeptide transporter; Validated; Region: ampG; cl17669 1167006007296 muropeptide transporter; Validated; Region: ampG; cl17669 1167006007297 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1167006007298 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1167006007299 minor groove reading motif; other site 1167006007300 helix-hairpin-helix signature motif; other site 1167006007301 substrate binding pocket [chemical binding]; other site 1167006007302 active site 1167006007303 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1167006007304 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 1167006007305 active site 1167006007306 8-oxo-dGMP binding site [chemical binding]; other site 1167006007307 nudix motif; other site 1167006007308 metal binding site [ion binding]; metal-binding site 1167006007309 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1167006007310 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1167006007311 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 1167006007312 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1167006007313 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1167006007314 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1167006007315 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1167006007316 ligand binding site [chemical binding]; other site 1167006007317 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1167006007318 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1167006007319 YbbR-like protein; Region: YbbR; pfam07949 1167006007320 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 1167006007321 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 1167006007322 active site 1167006007323 substrate binding site [chemical binding]; other site 1167006007324 metal binding site [ion binding]; metal-binding site 1167006007325 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1167006007326 active site 1167006007327 NTP binding site [chemical binding]; other site 1167006007328 metal binding triad [ion binding]; metal-binding site 1167006007329 antibiotic binding site [chemical binding]; other site 1167006007330 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1167006007331 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1167006007332 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 1167006007333 putative active site [active] 1167006007334 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006007335 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 1167006007336 S-adenosylmethionine binding site [chemical binding]; other site 1167006007337 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1167006007338 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006007339 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1167006007340 active site 1167006007341 nucleotide binding site [chemical binding]; other site 1167006007342 HIGH motif; other site 1167006007343 KMSKS motif; other site 1167006007344 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006007345 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 1167006007346 active site 1167006007347 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006007348 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1167006007349 metal-binding site 1167006007350 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1167006007351 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 1167006007352 putative active site [active] 1167006007353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006007354 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1167006007355 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1167006007356 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 1167006007357 non-specific DNA binding site [nucleotide binding]; other site 1167006007358 salt bridge; other site 1167006007359 sequence-specific DNA binding site [nucleotide binding]; other site 1167006007360 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1167006007361 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1167006007362 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1167006007363 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1167006007364 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 1167006007365 binding surface 1167006007366 TPR motif; other site 1167006007367 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1167006007368 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1167006007369 Walker A/P-loop; other site 1167006007370 ATP binding site [chemical binding]; other site 1167006007371 Q-loop/lid; other site 1167006007372 ABC transporter signature motif; other site 1167006007373 Walker B; other site 1167006007374 D-loop; other site 1167006007375 H-loop/switch region; other site 1167006007376 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1167006007377 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1167006007378 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1167006007379 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 1167006007380 metal-binding site [ion binding] 1167006007381 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1167006007382 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 1167006007383 metal-binding site [ion binding] 1167006007384 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1167006007385 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 1167006007386 motif II; other site 1167006007387 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 1167006007388 ATP-sulfurylase; Region: ATPS; cd00517 1167006007389 active site 1167006007390 HXXH motif; other site 1167006007391 flexible loop; other site 1167006007392 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1167006007393 active site 1167006007394 dimer interface [polypeptide binding]; other site 1167006007395 metal binding site [ion binding]; metal-binding site 1167006007396 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1167006007397 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006007398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007399 active site 1167006007400 phosphorylation site [posttranslational modification] 1167006007401 intermolecular recognition site; other site 1167006007402 dimerization interface [polypeptide binding]; other site 1167006007403 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 1167006007404 Walker A motif; other site 1167006007405 ATP binding site [chemical binding]; other site 1167006007406 Walker B motif; other site 1167006007407 arginine finger; other site 1167006007408 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006007409 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1167006007410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006007411 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 1167006007412 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 1167006007413 dimer interface [polypeptide binding]; other site 1167006007414 phosphorylation site [posttranslational modification] 1167006007415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006007416 ATP binding site [chemical binding]; other site 1167006007417 Mg2+ binding site [ion binding]; other site 1167006007418 G-X-G motif; other site 1167006007419 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006007420 4Fe-4S binding domain; Region: Fer4; cl02805 1167006007421 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006007422 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006007423 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006007424 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 1167006007425 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1167006007426 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 1167006007427 [4Fe-4S] binding site [ion binding]; other site 1167006007428 molybdopterin cofactor binding site; other site 1167006007429 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 1167006007430 molybdopterin cofactor binding site; other site 1167006007431 NapD protein; Region: NapD; cl01163 1167006007432 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 1167006007433 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1167006007434 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006007435 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1167006007436 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1167006007437 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1167006007438 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 1167006007439 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 1167006007440 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1167006007441 Double zinc ribbon; Region: DZR; pfam12773 1167006007442 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1167006007443 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1167006007444 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 1167006007445 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 1167006007446 nucleoside/Zn binding site; other site 1167006007447 dimer interface [polypeptide binding]; other site 1167006007448 catalytic motif [active] 1167006007449 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 1167006007450 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006007451 FeS/SAM binding site; other site 1167006007452 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006007453 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 1167006007454 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1167006007455 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1167006007456 Ferredoxin [Energy production and conversion]; Region: COG1146 1167006007457 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 1167006007458 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1167006007459 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1167006007460 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 1167006007461 GDP-binding site [chemical binding]; other site 1167006007462 ACT binding site; other site 1167006007463 IMP binding site; other site 1167006007464 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1167006007465 chaperone protein DnaJ; Provisional; Region: PRK10767 1167006007466 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 1167006007467 HSP70 interaction site [polypeptide binding]; other site 1167006007468 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1167006007469 substrate binding site [polypeptide binding]; other site 1167006007470 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1167006007471 Zn binding sites [ion binding]; other site 1167006007472 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1167006007473 dimer interface [polypeptide binding]; other site 1167006007474 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 1167006007475 trimer interface [polypeptide binding]; other site 1167006007476 dimer interface [polypeptide binding]; other site 1167006007477 putative active site [active] 1167006007478 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1167006007479 ADP-glucose phosphorylase; Region: PLN02643 1167006007480 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1167006007481 dimer interface [polypeptide binding]; other site 1167006007482 active site 1167006007483 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006007484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007485 active site 1167006007486 phosphorylation site [posttranslational modification] 1167006007487 intermolecular recognition site; other site 1167006007488 dimerization interface [polypeptide binding]; other site 1167006007489 Type I GTP cyclohydrolase folE2; Region: GCHY-1; pfam02649 1167006007490 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1167006007491 DALR anticodon binding domain; Region: DALR_1; pfam05746 1167006007492 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 1167006007493 heme-binding residues [chemical binding]; other site 1167006007494 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1167006007495 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1167006007496 ResB-like family; Region: ResB; pfam05140 1167006007497 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1167006007498 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1167006007499 classical (c) SDRs; Region: SDR_c; cd05233 1167006007500 NAD(P) binding site [chemical binding]; other site 1167006007501 active site 1167006007502 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006007503 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 1167006007504 S-adenosylmethionine binding site [chemical binding]; other site 1167006007505 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1167006007506 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1167006007507 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1167006007508 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1167006007509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1167006007510 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 1167006007511 Ligand Binding Site [chemical binding]; other site 1167006007512 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 1167006007513 Ligand Binding Site [chemical binding]; other site 1167006007514 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1167006007515 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 1167006007516 active site residue [active] 1167006007517 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1167006007518 active site 1167006007519 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 1167006007520 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1167006007521 intersubunit interface [polypeptide binding]; other site 1167006007522 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1167006007523 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1167006007524 Walker A/P-loop; other site 1167006007525 ATP binding site [chemical binding]; other site 1167006007526 Q-loop/lid; other site 1167006007527 ABC transporter signature motif; other site 1167006007528 Walker B; other site 1167006007529 D-loop; other site 1167006007530 H-loop/switch region; other site 1167006007531 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1167006007532 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 1167006007533 ABC-ATPase subunit interface; other site 1167006007534 dimer interface [polypeptide binding]; other site 1167006007535 putative PBP binding regions; other site 1167006007536 LemA family; Region: LemA; pfam04011 1167006007537 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1167006007538 Repair protein; Region: Repair_PSII; pfam04536 1167006007539 Repair protein; Region: Repair_PSII; cl01535 1167006007540 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 1167006007541 Nucleoside recognition; Region: Gate; pfam07670 1167006007542 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006007543 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 1167006007544 substrate binding pocket [chemical binding]; other site 1167006007545 membrane-bound complex binding site; other site 1167006007546 hinge residues; other site 1167006007547 protease 4; Provisional; Region: PRK10949 1167006007548 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1167006007549 tandem repeat interface [polypeptide binding]; other site 1167006007550 oligomer interface [polypeptide binding]; other site 1167006007551 active site residues [active] 1167006007552 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1167006007553 oligomer interface [polypeptide binding]; other site 1167006007554 tandem repeat interface [polypeptide binding]; other site 1167006007555 active site residues [active] 1167006007556 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1167006007557 active site 1167006007558 DNA polymerase IV; Validated; Region: PRK02406 1167006007559 DNA binding site [nucleotide binding] 1167006007560 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006007561 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 1167006007562 ligand binding site [chemical binding]; other site 1167006007563 flexible hinge region; other site 1167006007564 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 1167006007565 putative switch regulator; other site 1167006007566 non-specific DNA interactions [nucleotide binding]; other site 1167006007567 DNA binding site [nucleotide binding] 1167006007568 sequence specific DNA binding site [nucleotide binding]; other site 1167006007569 putative cAMP binding site [chemical binding]; other site 1167006007570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1167006007571 thioredoxin 2; Provisional; Region: PRK10996 1167006007572 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1167006007573 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 1167006007574 catalytic residues [active] 1167006007575 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1167006007576 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1167006007577 active site 1167006007578 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1167006007579 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006007580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007581 active site 1167006007582 phosphorylation site [posttranslational modification] 1167006007583 intermolecular recognition site; other site 1167006007584 dimerization interface [polypeptide binding]; other site 1167006007585 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 1167006007586 Walker A motif; other site 1167006007587 ATP binding site [chemical binding]; other site 1167006007588 Walker B motif; other site 1167006007589 arginine finger; other site 1167006007590 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006007591 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1167006007592 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1167006007593 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1167006007594 pyrroline-5-carboxylate reductase; Region: PLN02688 1167006007595 MORN repeat; Region: MORN; cl14787 1167006007596 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1167006007597 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006007598 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1167006007599 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 1167006007600 DHHW protein; Region: DHHW; pfam14286 1167006007601 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1167006007602 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1167006007603 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1167006007604 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1167006007605 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1167006007606 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1167006007607 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1167006007608 active site 1167006007609 substrate binding site [chemical binding]; other site 1167006007610 metal binding site [ion binding]; metal-binding site 1167006007611 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 1167006007612 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1167006007613 trimerization site [polypeptide binding]; other site 1167006007614 active site 1167006007615 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1167006007616 NifU-like domain; Region: NifU; pfam01106 1167006007617 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1167006007618 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1167006007619 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006007620 catalytic residue [active] 1167006007621 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1167006007622 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 1167006007623 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 1167006007624 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1167006007625 Potassium binding sites [ion binding]; other site 1167006007626 Cesium cation binding sites [ion binding]; other site 1167006007627 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1167006007628 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1167006007629 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1167006007630 Walker A motif; other site 1167006007631 ATP binding site [chemical binding]; other site 1167006007632 Walker B motif; other site 1167006007633 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 1167006007634 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006007635 ligand binding site [chemical binding]; other site 1167006007636 flexible hinge region; other site 1167006007637 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 1167006007638 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1167006007639 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 1167006007640 putative active site [active] 1167006007641 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 1167006007642 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1167006007643 Substrate binding site; other site 1167006007644 metal-binding site 1167006007645 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006007646 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006007647 Probable Catalytic site; other site 1167006007648 metal-binding site 1167006007649 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1167006007650 trimer interface [polypeptide binding]; other site 1167006007651 active site 1167006007652 substrate binding site [chemical binding]; other site 1167006007653 CoA binding site [chemical binding]; other site 1167006007654 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 1167006007655 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006007656 S-adenosylmethionine binding site [chemical binding]; other site 1167006007657 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1167006007658 active site 1167006007659 ATP binding site [chemical binding]; other site 1167006007660 O-Antigen ligase; Region: Wzy_C; pfam04932 1167006007661 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006007662 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 1167006007663 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1167006007664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006007665 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1167006007666 Walker A/P-loop; other site 1167006007667 ATP binding site [chemical binding]; other site 1167006007668 Q-loop/lid; other site 1167006007669 ABC transporter signature motif; other site 1167006007670 Walker B; other site 1167006007671 D-loop; other site 1167006007672 H-loop/switch region; other site 1167006007673 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1167006007674 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1167006007675 Ligand binding site; other site 1167006007676 oligomer interface; other site 1167006007677 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1167006007678 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1167006007679 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006007680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006007681 active site 1167006007682 phosphorylation site [posttranslational modification] 1167006007683 intermolecular recognition site; other site 1167006007684 dimerization interface [polypeptide binding]; other site 1167006007685 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 1167006007686 Walker A motif; other site 1167006007687 ATP binding site [chemical binding]; other site 1167006007688 Walker B motif; other site 1167006007689 arginine finger; other site 1167006007690 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006007691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006007692 HAMP domain; Region: HAMP; pfam00672 1167006007693 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 1167006007694 dimer interface [polypeptide binding]; other site 1167006007695 phosphorylation site [posttranslational modification] 1167006007696 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006007697 ATP binding site [chemical binding]; other site 1167006007698 Mg2+ binding site [ion binding]; other site 1167006007699 G-X-G motif; other site 1167006007700 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; cl00246 1167006007701 FAD binding site [chemical binding]; other site 1167006007702 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1167006007703 Phosphotransferase enzyme family; Region: APH; pfam01636 1167006007704 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1167006007705 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006007706 ATP binding site [chemical binding]; other site 1167006007707 Mg2+ binding site [ion binding]; other site 1167006007708 G-X-G motif; other site 1167006007709 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006007710 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1167006007711 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 1167006007712 N-terminal plug; other site 1167006007713 ligand-binding site [chemical binding]; other site 1167006007714 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1167006007715 Amino acid permease; Region: AA_permease; pfam00324 1167006007716 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006007717 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1167006007718 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1167006007719 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1167006007720 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 1167006007721 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1167006007722 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1167006007723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006007724 Walker A/P-loop; other site 1167006007725 ATP binding site [chemical binding]; other site 1167006007726 Q-loop/lid; other site 1167006007727 ABC transporter signature motif; other site 1167006007728 Walker B; other site 1167006007729 D-loop; other site 1167006007730 H-loop/switch region; other site 1167006007731 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1167006007732 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 1167006007733 oligomer interface [polypeptide binding]; other site 1167006007734 metal binding site [ion binding]; metal-binding site 1167006007735 metal binding site [ion binding]; metal-binding site 1167006007736 Cl binding site [ion binding]; other site 1167006007737 aspartate ring; other site 1167006007738 basic sphincter; other site 1167006007739 putative hydrophobic gate; other site 1167006007740 periplasmic entrance; other site 1167006007741 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1167006007742 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1167006007743 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1167006007744 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1167006007745 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1167006007746 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1167006007747 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1167006007748 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 1167006007749 Divalent cation transporter; Region: MgtE; pfam01769 1167006007750 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1167006007751 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 1167006007752 Cl- selectivity filter; other site 1167006007753 Cl- binding residues [ion binding]; other site 1167006007754 pore gating glutamate residue; other site 1167006007755 dimer interface [polypeptide binding]; other site 1167006007756 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006007757 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 1167006007758 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1167006007759 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006007760 Zn2+ binding site [ion binding]; other site 1167006007761 Mg2+ binding site [ion binding]; other site 1167006007762 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1167006007763 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1167006007764 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1167006007765 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1167006007766 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1167006007767 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1167006007768 Walker A/P-loop; other site 1167006007769 ATP binding site [chemical binding]; other site 1167006007770 Q-loop/lid; other site 1167006007771 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1167006007772 ABC transporter signature motif; other site 1167006007773 Walker B; other site 1167006007774 D-loop; other site 1167006007775 H-loop/switch region; other site 1167006007776 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1167006007777 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1167006007778 Ligand Binding Site [chemical binding]; other site 1167006007779 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1167006007780 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1167006007781 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1167006007782 NADP-binding site; other site 1167006007783 homotetramer interface [polypeptide binding]; other site 1167006007784 substrate binding site [chemical binding]; other site 1167006007785 homodimer interface [polypeptide binding]; other site 1167006007786 active site 1167006007787 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1167006007788 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1167006007789 NADP binding site [chemical binding]; other site 1167006007790 active site 1167006007791 putative substrate binding site [chemical binding]; other site 1167006007792 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1167006007793 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1167006007794 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1167006007795 putative trimer interface [polypeptide binding]; other site 1167006007796 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 1167006007797 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1167006007798 putative CoA binding site [chemical binding]; other site 1167006007799 putative trimer interface [polypeptide binding]; other site 1167006007800 putative active site [active] 1167006007801 putative substrate binding site [chemical binding]; other site 1167006007802 putative CoA binding site [chemical binding]; other site 1167006007803 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1167006007804 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1167006007805 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1167006007806 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1167006007807 Walker A/P-loop; other site 1167006007808 ATP binding site [chemical binding]; other site 1167006007809 Q-loop/lid; other site 1167006007810 ABC transporter signature motif; other site 1167006007811 Walker B; other site 1167006007812 D-loop; other site 1167006007813 H-loop/switch region; other site 1167006007814 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1167006007815 putative carbohydrate binding site [chemical binding]; other site 1167006007816 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006007817 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1167006007818 metal-binding site 1167006007819 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1167006007820 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1167006007821 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1167006007822 Ligand binding site; other site 1167006007823 Putative Catalytic site; other site 1167006007824 DXD motif; other site 1167006007825 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 1167006007826 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1167006007827 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1167006007828 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1167006007829 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006007830 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1167006007831 active site 1167006007832 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1167006007833 homodimer interface [polypeptide binding]; other site 1167006007834 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1167006007835 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1167006007836 NAD(P) binding site [chemical binding]; other site 1167006007837 homodimer interface [polypeptide binding]; other site 1167006007838 substrate binding site [chemical binding]; other site 1167006007839 active site 1167006007840 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1167006007841 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 1167006007842 inhibitor-cofactor binding pocket; inhibition site 1167006007843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006007844 catalytic residue [active] 1167006007845 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1167006007846 ligand binding site; other site 1167006007847 tetramer interface; other site 1167006007848 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1167006007849 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1167006007850 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1167006007851 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1167006007852 pseudaminic acid synthase; Region: PseI; TIGR03586 1167006007853 NeuB family; Region: NeuB; pfam03102 1167006007854 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1167006007855 NeuB binding interface [polypeptide binding]; other site 1167006007856 putative substrate binding site [chemical binding]; other site 1167006007857 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006007858 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1167006007859 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1167006007860 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1167006007861 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1167006007862 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 1167006007863 S-adenosylmethionine binding site [chemical binding]; other site 1167006007864 putative transposase OrfB; Reviewed; Region: PHA02517 1167006007865 HTH-like domain; Region: HTH_21; pfam13276 1167006007866 Integrase core domain; Region: rve; pfam00665 1167006007867 Integrase core domain; Region: rve_3; pfam13683 1167006007868 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1167006007869 NeuB family; Region: NeuB; pfam03102 1167006007870 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1167006007871 NeuB binding interface [polypeptide binding]; other site 1167006007872 putative substrate binding site [chemical binding]; other site 1167006007873 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1167006007874 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1167006007875 active site 1167006007876 homodimer interface [polypeptide binding]; other site 1167006007877 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1167006007878 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1167006007879 NAD binding site [chemical binding]; other site 1167006007880 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1167006007881 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1167006007882 PYR/PP interface [polypeptide binding]; other site 1167006007883 dimer interface [polypeptide binding]; other site 1167006007884 TPP binding site [chemical binding]; other site 1167006007885 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1167006007886 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1167006007887 TPP-binding site [chemical binding]; other site 1167006007888 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 1167006007889 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1167006007890 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1167006007891 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1167006007892 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1167006007893 Ligand binding site; other site 1167006007894 oligomer interface; other site 1167006007895 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1167006007896 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 1167006007897 S-adenosylmethionine binding site [chemical binding]; other site 1167006007898 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1167006007899 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1167006007900 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1167006007901 Phosphotransferase enzyme family; Region: APH; pfam01636 1167006007902 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1167006007903 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 1167006007904 S-adenosylmethionine binding site [chemical binding]; other site 1167006007905 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1167006007906 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 1167006007907 dimer interface [polypeptide binding]; other site 1167006007908 active site 1167006007909 Inositol monophosphatase family; Region: Inositol_P; pfam00459 1167006007910 active site 1167006007911 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1167006007912 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1167006007913 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1167006007914 putative ligand binding site [chemical binding]; other site 1167006007915 putative NAD binding site [chemical binding]; other site 1167006007916 catalytic site [active] 1167006007917 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1167006007918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006007919 Walker A/P-loop; other site 1167006007920 ATP binding site [chemical binding]; other site 1167006007921 Q-loop/lid; other site 1167006007922 ABC transporter signature motif; other site 1167006007923 Walker B; other site 1167006007924 D-loop; other site 1167006007925 H-loop/switch region; other site 1167006007926 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1167006007927 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1167006007928 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1167006007929 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1167006007930 ligand binding site; other site 1167006007931 tetramer interface; other site 1167006007932 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 1167006007933 Ligand Binding Site [chemical binding]; other site 1167006007934 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1167006007935 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1167006007936 putative active site [active] 1167006007937 oxyanion strand; other site 1167006007938 catalytic triad [active] 1167006007939 TIGR03032 family protein; Region: TIGR03032 1167006007940 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1167006007941 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1167006007942 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 1167006007943 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006007944 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1167006007945 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1167006007946 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 1167006007947 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006007948 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 1167006007949 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1167006007950 Probable Catalytic site; other site 1167006007951 metal-binding site 1167006007952 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 1167006007953 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006007954 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 1167006007955 active site 1167006007956 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1167006007957 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 1167006007958 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006007959 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 1167006007960 active site 1167006007961 oxyanion hole [active] 1167006007962 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1167006007963 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1167006007964 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1167006007965 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 1167006007966 active site 1167006007967 catalytic triad [active] 1167006007968 oxyanion hole [active] 1167006007969 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1167006007970 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1167006007971 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1167006007972 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 1167006007973 trimer interface [polypeptide binding]; other site 1167006007974 active site 1167006007975 substrate binding site [chemical binding]; other site 1167006007976 CoA binding site [chemical binding]; other site 1167006007977 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1167006007978 putative trimer interface [polypeptide binding]; other site 1167006007979 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1167006007980 putative CoA binding site [chemical binding]; other site 1167006007981 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1167006007982 putative trimer interface [polypeptide binding]; other site 1167006007983 putative CoA binding site [chemical binding]; other site 1167006007984 Outer membrane efflux protein; Region: OEP; pfam02321 1167006007985 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006007986 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006007987 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006007988 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006007989 Walker A/P-loop; other site 1167006007990 ATP binding site [chemical binding]; other site 1167006007991 Q-loop/lid; other site 1167006007992 ABC transporter signature motif; other site 1167006007993 Walker B; other site 1167006007994 D-loop; other site 1167006007995 H-loop/switch region; other site 1167006007996 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006007997 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1167006007998 FtsX-like permease family; Region: FtsX; pfam02687 1167006007999 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1167006008000 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1167006008001 Ligand binding site; other site 1167006008002 Putative Catalytic site; other site 1167006008003 DXD motif; other site 1167006008004 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006008005 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006008006 Probable Catalytic site; other site 1167006008007 metal-binding site 1167006008008 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006008009 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006008010 Probable Catalytic site; other site 1167006008011 metal-binding site 1167006008012 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1167006008013 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1167006008014 active site 1167006008015 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 1167006008016 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1167006008017 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1167006008018 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1167006008019 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1167006008020 P-loop; other site 1167006008021 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 1167006008022 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1167006008023 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1167006008024 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1167006008025 Flavoprotein; Region: Flavoprotein; pfam02441 1167006008026 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1167006008027 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 1167006008028 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1167006008029 putative substrate translocation pore; other site 1167006008030 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1167006008031 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006008032 active site 1167006008033 HIGH motif; other site 1167006008034 nucleotide binding site [chemical binding]; other site 1167006008035 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1167006008036 KMSKS motif; other site 1167006008037 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1167006008038 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1167006008039 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006008040 active site 1167006008041 HIGH motif; other site 1167006008042 nucleotide binding site [chemical binding]; other site 1167006008043 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006008044 active site 1167006008045 KMSKS motif; other site 1167006008046 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1167006008047 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1167006008048 ligand binding site [chemical binding]; other site 1167006008049 NAD binding site [chemical binding]; other site 1167006008050 dimerization interface [polypeptide binding]; other site 1167006008051 catalytic site [active] 1167006008052 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1167006008053 putative L-serine binding site [chemical binding]; other site 1167006008054 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 1167006008055 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1167006008056 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1167006008057 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1167006008058 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1167006008059 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1167006008060 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006008061 active site 1167006008062 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1167006008063 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1167006008064 5S rRNA interface [nucleotide binding]; other site 1167006008065 CTC domain interface [polypeptide binding]; other site 1167006008066 L16 interface [polypeptide binding]; other site 1167006008067 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 1167006008068 putative active site [active] 1167006008069 catalytic residue [active] 1167006008070 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1167006008071 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1167006008072 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 1167006008073 RNA binding surface [nucleotide binding]; other site 1167006008074 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1167006008075 active site 1167006008076 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 1167006008077 ATP-binding [chemical binding]; other site 1167006008078 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1167006008079 CoA-binding site [chemical binding]; other site 1167006008080 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1167006008081 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1167006008082 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 1167006008083 RNA binding site [nucleotide binding]; other site 1167006008084 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 1167006008085 multimer interface [polypeptide binding]; other site 1167006008086 Walker A motif; other site 1167006008087 ATP binding site [chemical binding]; other site 1167006008088 Walker B motif; other site 1167006008089 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1167006008090 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1167006008091 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1167006008092 RF-1 domain; Region: RF-1; pfam00472 1167006008093 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1167006008094 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 1167006008095 S-adenosylmethionine binding site [chemical binding]; other site 1167006008096 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1167006008097 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 1167006008098 hinge; other site 1167006008099 active site 1167006008100 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006008101 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006008102 putative active site [active] 1167006008103 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 1167006008104 dimer interface [polypeptide binding]; other site 1167006008105 phosphorylation site [posttranslational modification] 1167006008106 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006008107 ATP binding site [chemical binding]; other site 1167006008108 Mg2+ binding site [ion binding]; other site 1167006008109 G-X-G motif; other site 1167006008110 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006008111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008112 active site 1167006008113 phosphorylation site [posttranslational modification] 1167006008114 intermolecular recognition site; other site 1167006008115 dimerization interface [polypeptide binding]; other site 1167006008116 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 1167006008117 Walker A motif; other site 1167006008118 ATP binding site [chemical binding]; other site 1167006008119 Walker B motif; other site 1167006008120 arginine finger; other site 1167006008121 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006008122 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1167006008123 GIY-YIG motif/motif A; other site 1167006008124 putative active site [active] 1167006008125 putative metal binding site [ion binding]; other site 1167006008126 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 1167006008127 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1167006008128 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1167006008129 intersubunit interface [polypeptide binding]; other site 1167006008130 active site 1167006008131 zinc binding site [ion binding]; other site 1167006008132 Na+ binding site [ion binding]; other site 1167006008133 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1167006008134 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1167006008135 putative NAD(P) binding site [chemical binding]; other site 1167006008136 active site 1167006008137 putative substrate binding site [chemical binding]; other site 1167006008138 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1167006008139 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 1167006008140 TPP-binding site; other site 1167006008141 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 1167006008142 PYR/PP interface [polypeptide binding]; other site 1167006008143 dimer interface [polypeptide binding]; other site 1167006008144 TPP binding site [chemical binding]; other site 1167006008145 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1167006008146 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1167006008147 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1167006008148 substrate binding pocket [chemical binding]; other site 1167006008149 chain length determination region; other site 1167006008150 substrate-Mg2+ binding site; other site 1167006008151 catalytic residues [active] 1167006008152 aspartate-rich region 1; other site 1167006008153 active site lid residues [active] 1167006008154 aspartate-rich region 2; other site 1167006008155 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1167006008156 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1167006008157 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1167006008158 active site 1167006008159 Int/Topo IB signature motif; other site 1167006008160 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 1167006008161 active site 1167006008162 HslU subunit interaction site [polypeptide binding]; other site 1167006008163 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1167006008164 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 1167006008165 Walker A motif; other site 1167006008166 ATP binding site [chemical binding]; other site 1167006008167 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1167006008168 Walker B motif; other site 1167006008169 arginine finger; other site 1167006008170 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1167006008171 GAF domain; Region: GAF; cl17456 1167006008172 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006008173 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006008174 metal binding site [ion binding]; metal-binding site 1167006008175 active site 1167006008176 I-site; other site 1167006008177 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1167006008178 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1167006008179 active site 1167006008180 PHP Thumb interface [polypeptide binding]; other site 1167006008181 metal binding site [ion binding]; metal-binding site 1167006008182 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 1167006008183 generic binding surface II; other site 1167006008184 generic binding surface I; other site 1167006008185 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008186 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1167006008187 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008188 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1167006008189 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006008190 ligand binding site [chemical binding]; other site 1167006008191 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 1167006008192 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1167006008193 extended (e) SDRs; Region: SDR_e; cd08946 1167006008194 active site 1167006008195 substrate binding site [chemical binding]; other site 1167006008196 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1167006008197 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1167006008198 Metal-binding active site; metal-binding site 1167006008199 Divergent AAA domain; Region: AAA_4; pfam04326 1167006008200 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1167006008201 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1167006008202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006008203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006008204 metal binding site [ion binding]; metal-binding site 1167006008205 active site 1167006008206 I-site; other site 1167006008207 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1167006008208 mce related protein; Region: MCE; pfam02470 1167006008209 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1167006008210 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1167006008211 Walker A/P-loop; other site 1167006008212 ATP binding site [chemical binding]; other site 1167006008213 Q-loop/lid; other site 1167006008214 ABC transporter signature motif; other site 1167006008215 Walker B; other site 1167006008216 D-loop; other site 1167006008217 H-loop/switch region; other site 1167006008218 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1167006008219 Permease; Region: Permease; pfam02405 1167006008220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1167006008221 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006008222 GAF domain; Region: GAF; pfam01590 1167006008223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006008224 Zn2+ binding site [ion binding]; other site 1167006008225 Mg2+ binding site [ion binding]; other site 1167006008226 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 1167006008227 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1167006008228 cyclase homology domain; Region: CHD; cd07302 1167006008229 nucleotidyl binding site; other site 1167006008230 metal binding site [ion binding]; metal-binding site 1167006008231 dimer interface [polypeptide binding]; other site 1167006008232 Peptidase family M48; Region: Peptidase_M48; pfam01435 1167006008233 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1167006008234 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1167006008235 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1167006008236 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006008237 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006008238 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006008239 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1167006008240 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1167006008241 putative amphipathic alpha helix; other site 1167006008242 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 1167006008243 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 1167006008244 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1167006008245 Peptidase family U32; Region: Peptidase_U32; pfam01136 1167006008246 Collagenase; Region: DUF3656; pfam12392 1167006008247 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1167006008248 ribonuclease D; Region: rnd; TIGR01388 1167006008249 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1167006008250 catalytic site [active] 1167006008251 putative active site [active] 1167006008252 putative substrate binding site [chemical binding]; other site 1167006008253 HRDC domain; Region: HRDC; pfam00570 1167006008254 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1167006008255 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 1167006008256 dimer interface [polypeptide binding]; other site 1167006008257 conserved gate region; other site 1167006008258 putative PBP binding loops; other site 1167006008259 ABC-ATPase subunit interface; other site 1167006008260 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1167006008261 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 1167006008262 dimer interface [polypeptide binding]; other site 1167006008263 conserved gate region; other site 1167006008264 putative PBP binding loops; other site 1167006008265 ABC-ATPase subunit interface; other site 1167006008266 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1167006008267 Permease; Region: Permease; pfam02405 1167006008268 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1167006008269 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1167006008270 Walker A/P-loop; other site 1167006008271 ATP binding site [chemical binding]; other site 1167006008272 Q-loop/lid; other site 1167006008273 ABC transporter signature motif; other site 1167006008274 Walker B; other site 1167006008275 D-loop; other site 1167006008276 H-loop/switch region; other site 1167006008277 mce related protein; Region: MCE; pfam02470 1167006008278 VacJ like lipoprotein; Region: VacJ; cl01073 1167006008279 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1167006008280 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006008281 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 1167006008282 ligand binding site [chemical binding]; other site 1167006008283 flexible hinge region; other site 1167006008284 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1167006008285 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1167006008286 putative phosphate acyltransferase; Provisional; Region: PRK05331 1167006008287 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1167006008288 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 1167006008289 dimer interface [polypeptide binding]; other site 1167006008290 active site 1167006008291 CoA binding pocket [chemical binding]; other site 1167006008292 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1167006008293 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1167006008294 active site 1167006008295 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 1167006008296 Ligand binding site [chemical binding]; other site 1167006008297 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1167006008298 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1167006008299 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006008300 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1167006008301 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 1167006008302 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1167006008303 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1167006008304 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1167006008305 NAD(P) binding site [chemical binding]; other site 1167006008306 homotetramer interface [polypeptide binding]; other site 1167006008307 homodimer interface [polypeptide binding]; other site 1167006008308 active site 1167006008309 acyl carrier protein; Provisional; Region: acpP; PRK00982 1167006008310 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1167006008311 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 1167006008312 dimer interface [polypeptide binding]; other site 1167006008313 active site 1167006008314 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1167006008315 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1167006008316 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 1167006008317 dimer interface [polypeptide binding]; other site 1167006008318 active site 1167006008319 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1167006008320 folate binding site [chemical binding]; other site 1167006008321 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1167006008322 ATP cone domain; Region: ATP-cone; pfam03477 1167006008323 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1167006008324 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 1167006008325 catalytic motif [active] 1167006008326 Zn binding site [ion binding]; other site 1167006008327 RibD C-terminal domain; Region: RibD_C; cl17279 1167006008328 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 1167006008329 IHF dimer interface [polypeptide binding]; other site 1167006008330 IHF - DNA interface [nucleotide binding]; other site 1167006008331 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1167006008332 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1167006008333 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1167006008334 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1167006008335 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1167006008336 catalytic residue [active] 1167006008337 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1167006008338 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1167006008339 active site 1167006008340 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1167006008341 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 1167006008342 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1167006008343 active site 1167006008344 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1167006008345 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 1167006008346 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1167006008347 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1167006008348 G1 box; other site 1167006008349 GTP/Mg2+ binding site [chemical binding]; other site 1167006008350 G2 box; other site 1167006008351 Switch I region; other site 1167006008352 G3 box; other site 1167006008353 Switch II region; other site 1167006008354 G4 box; other site 1167006008355 G5 box; other site 1167006008356 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 1167006008357 heme bH binding site [chemical binding]; other site 1167006008358 intrachain domain interface; other site 1167006008359 heme bL binding site [chemical binding]; other site 1167006008360 interchain domain interface [polypeptide binding]; other site 1167006008361 Qo binding site; other site 1167006008362 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1167006008363 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 1167006008364 iron-sulfur cluster [ion binding]; other site 1167006008365 [2Fe-2S] cluster binding site [ion binding]; other site 1167006008366 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1167006008367 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1167006008368 active site 1167006008369 (T/H)XGH motif; other site 1167006008370 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1167006008371 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 1167006008372 S-adenosylmethionine binding site [chemical binding]; other site 1167006008373 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1167006008374 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1167006008375 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1167006008376 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1167006008377 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1167006008378 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1167006008379 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1167006008380 putative valine binding site [chemical binding]; other site 1167006008381 dimer interface [polypeptide binding]; other site 1167006008382 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1167006008383 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 1167006008384 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1167006008385 PYR/PP interface [polypeptide binding]; other site 1167006008386 dimer interface [polypeptide binding]; other site 1167006008387 TPP binding site [chemical binding]; other site 1167006008388 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1167006008389 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 1167006008390 TPP-binding site [chemical binding]; other site 1167006008391 dimer interface [polypeptide binding]; other site 1167006008392 2-isopropylmalate synthase; Validated; Region: PRK03739 1167006008393 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1167006008394 active site 1167006008395 catalytic residues [active] 1167006008396 metal binding site [ion binding]; metal-binding site 1167006008397 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1167006008398 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1167006008399 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1167006008400 active site 1167006008401 Zn binding site [ion binding]; other site 1167006008402 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006008403 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 1167006008404 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1167006008405 CoA binding domain; Region: CoA_binding_2; pfam13380 1167006008406 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1167006008407 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1167006008408 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1167006008409 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1167006008410 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1167006008411 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1167006008412 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1167006008413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006008414 Coenzyme A binding pocket [chemical binding]; other site 1167006008415 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1167006008416 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006008417 mce related protein; Region: MCE; pfam02470 1167006008418 mce related protein; Region: MCE; pfam02470 1167006008419 mce related protein; Region: MCE; pfam02470 1167006008420 Paraquat-inducible protein A; Region: PqiA; pfam04403 1167006008421 Paraquat-inducible protein A; Region: PqiA; pfam04403 1167006008422 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1167006008423 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006008424 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1167006008425 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1167006008426 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1167006008427 TrkA-N domain; Region: TrkA_N; pfam02254 1167006008428 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1167006008429 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1167006008430 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1167006008431 translocation protein TolB; Provisional; Region: tolB; PRK04792 1167006008432 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006008433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008434 active site 1167006008435 phosphorylation site [posttranslational modification] 1167006008436 intermolecular recognition site; other site 1167006008437 dimerization interface [polypeptide binding]; other site 1167006008438 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 1167006008439 Walker A motif; other site 1167006008440 ATP binding site [chemical binding]; other site 1167006008441 Walker B motif; other site 1167006008442 arginine finger; other site 1167006008443 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006008444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006008445 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 1167006008446 dimerization interface [polypeptide binding]; other site 1167006008447 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 1167006008448 dimer interface [polypeptide binding]; other site 1167006008449 phosphorylation site [posttranslational modification] 1167006008450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006008451 ATP binding site [chemical binding]; other site 1167006008452 Mg2+ binding site [ion binding]; other site 1167006008453 G-X-G motif; other site 1167006008454 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 1167006008455 transmembrane helices; other site 1167006008456 TrkA-C domain; Region: TrkA_C; pfam02080 1167006008457 TrkA-C domain; Region: TrkA_C; pfam02080 1167006008458 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1167006008459 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1167006008460 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1167006008461 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1167006008462 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1167006008463 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006008464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008465 active site 1167006008466 phosphorylation site [posttranslational modification] 1167006008467 intermolecular recognition site; other site 1167006008468 dimerization interface [polypeptide binding]; other site 1167006008469 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 1167006008470 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1167006008471 Walker A motif; other site 1167006008472 ATP binding site [chemical binding]; other site 1167006008473 Walker B motif; other site 1167006008474 arginine finger; other site 1167006008475 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1167006008476 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1167006008477 Ligand Binding Site [chemical binding]; other site 1167006008478 Putative Fe-S cluster; Region: FeS; cl17515 1167006008479 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 1167006008480 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1167006008481 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1167006008482 dimer interface [polypeptide binding]; other site 1167006008483 active site 1167006008484 metal binding site [ion binding]; metal-binding site 1167006008485 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1167006008486 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 1167006008487 S-adenosylmethionine binding site [chemical binding]; other site 1167006008488 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1167006008489 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1167006008490 UGMP family protein; Validated; Region: PRK09604 1167006008491 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1167006008492 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1167006008493 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1167006008494 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 1167006008495 FeS/SAM binding site; other site 1167006008496 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1167006008497 Chorismate mutase type II; Region: CM_2; pfam01817 1167006008498 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1167006008499 Prephenate dehydratase; Region: PDT; pfam00800 1167006008500 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 1167006008501 putative L-Phe binding site [chemical binding]; other site 1167006008502 Domain of unknown function DUF39; Region: DUF39; pfam01837 1167006008503 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1167006008504 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 1167006008505 IHF dimer interface [polypeptide binding]; other site 1167006008506 IHF - DNA interface [nucleotide binding]; other site 1167006008507 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1167006008508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008509 active site 1167006008510 phosphorylation site [posttranslational modification] 1167006008511 intermolecular recognition site; other site 1167006008512 dimerization interface [polypeptide binding]; other site 1167006008513 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 1167006008514 DNA binding residues [nucleotide binding] 1167006008515 dimerization interface [polypeptide binding]; other site 1167006008516 excinuclease ABC subunit B; Provisional; Region: PRK05298 1167006008517 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 1167006008518 ATP binding site [chemical binding]; other site 1167006008519 putative Mg++ binding site [ion binding]; other site 1167006008520 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 1167006008521 nucleotide binding region [chemical binding]; other site 1167006008522 ATP-binding site [chemical binding]; other site 1167006008523 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1167006008524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1167006008525 putative acyl-acceptor binding pocket; other site 1167006008526 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1167006008527 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1167006008528 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1167006008529 catalytic triad [active] 1167006008530 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1167006008531 thiosulfate reductase PhsA; Provisional; Region: PRK15488 1167006008532 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 1167006008533 putative [Fe4-S4] binding site [ion binding]; other site 1167006008534 putative molybdopterin cofactor binding site [chemical binding]; other site 1167006008535 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 1167006008536 putative molybdopterin cofactor binding site; other site 1167006008537 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1167006008538 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1167006008539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008540 active site 1167006008541 phosphorylation site [posttranslational modification] 1167006008542 intermolecular recognition site; other site 1167006008543 dimerization interface [polypeptide binding]; other site 1167006008544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006008545 PAS domain; Region: PAS_9; pfam13426 1167006008546 putative active site [active] 1167006008547 heme pocket [chemical binding]; other site 1167006008548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006008549 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 1167006008550 dimer interface [polypeptide binding]; other site 1167006008551 phosphorylation site [posttranslational modification] 1167006008552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006008553 ATP binding site [chemical binding]; other site 1167006008554 Mg2+ binding site [ion binding]; other site 1167006008555 G-X-G motif; other site 1167006008556 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006008557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008558 active site 1167006008559 phosphorylation site [posttranslational modification] 1167006008560 intermolecular recognition site; other site 1167006008561 dimerization interface [polypeptide binding]; other site 1167006008562 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 1167006008563 Walker A motif; other site 1167006008564 ATP binding site [chemical binding]; other site 1167006008565 Walker B motif; other site 1167006008566 arginine finger; other site 1167006008567 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1167006008568 active site 1167006008569 catalytic residues [active] 1167006008570 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1167006008571 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1167006008572 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1167006008573 dimer interface [polypeptide binding]; other site 1167006008574 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 1167006008575 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1167006008576 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006008577 ligand binding site [chemical binding]; other site 1167006008578 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006008579 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1167006008580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1167006008581 alanine racemase; Reviewed; Region: alr; PRK00053 1167006008582 active site 1167006008583 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1167006008584 dimer interface [polypeptide binding]; other site 1167006008585 substrate binding site [chemical binding]; other site 1167006008586 catalytic residues [active] 1167006008587 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1167006008588 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1167006008589 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1167006008590 active site 1167006008591 HIGH motif; other site 1167006008592 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006008593 KMSK motif region; other site 1167006008594 tRNA binding surface [nucleotide binding]; other site 1167006008595 DALR anticodon binding domain; Region: DALR_1; smart00836 1167006008596 anticodon binding site; other site 1167006008597 Helix-turn-helix domain; Region: HTH_16; pfam12645 1167006008598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006008599 Coenzyme A binding pocket [chemical binding]; other site 1167006008600 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1167006008601 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1167006008602 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; cl17351 1167006008603 nucleotide binding region [chemical binding]; other site 1167006008604 ATP-binding site [chemical binding]; other site 1167006008605 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006008606 PAS domain; Region: PAS_9; pfam13426 1167006008607 putative active site [active] 1167006008608 heme pocket [chemical binding]; other site 1167006008609 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006008610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006008611 metal binding site [ion binding]; metal-binding site 1167006008612 active site 1167006008613 I-site; other site 1167006008614 NHL repeat; Region: NHL; pfam01436 1167006008615 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 1167006008616 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 1167006008617 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1167006008618 FeS/SAM binding site; other site 1167006008619 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1167006008620 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1167006008621 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1167006008622 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 1167006008623 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1167006008624 active site 1167006008625 metal binding site [ion binding]; metal-binding site 1167006008626 homotetramer interface [polypeptide binding]; other site 1167006008627 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1167006008628 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1167006008629 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1167006008630 putative active site [active] 1167006008631 catalytic site [active] 1167006008632 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1167006008633 putative active site [active] 1167006008634 catalytic site [active] 1167006008635 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 1167006008636 heterotetramer interface [polypeptide binding]; other site 1167006008637 active site pocket [active] 1167006008638 cleavage site 1167006008639 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1167006008640 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 1167006008641 P-loop; other site 1167006008642 Magnesium ion binding site [ion binding]; other site 1167006008643 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 1167006008644 Magnesium ion binding site [ion binding]; other site 1167006008645 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 1167006008646 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1167006008647 putative substrate translocation pore; other site 1167006008648 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1167006008649 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 1167006008650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006008651 homodimer interface [polypeptide binding]; other site 1167006008652 catalytic residue [active] 1167006008653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1167006008654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1167006008655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1167006008656 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1167006008657 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1167006008658 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1167006008659 metal binding site [ion binding]; metal-binding site 1167006008660 dimer interface [polypeptide binding]; other site 1167006008661 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1167006008662 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1167006008663 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1167006008664 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1167006008665 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1167006008666 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1167006008667 G1 box; other site 1167006008668 GTP/Mg2+ binding site [chemical binding]; other site 1167006008669 Switch I region; other site 1167006008670 G2 box; other site 1167006008671 G3 box; other site 1167006008672 Switch II region; other site 1167006008673 G4 box; other site 1167006008674 G5 box; other site 1167006008675 Nucleoside recognition; Region: Gate; pfam07670 1167006008676 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1167006008677 Nucleoside recognition; Region: Gate; pfam07670 1167006008678 FeoA domain; Region: FeoA; pfam04023 1167006008679 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1167006008680 Cation efflux family; Region: Cation_efflux; pfam01545 1167006008681 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1167006008682 FeoA domain; Region: FeoA; pfam04023 1167006008683 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1167006008684 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1167006008685 phosphopeptide binding site; other site 1167006008686 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 1167006008687 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1167006008688 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 1167006008689 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 1167006008690 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1167006008691 catalytic residues [active] 1167006008692 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 1167006008693 TPR motif; other site 1167006008694 binding surface 1167006008695 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006008696 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 1167006008697 TPR motif; other site 1167006008698 binding surface 1167006008699 TPR repeat; Region: TPR_11; pfam13414 1167006008700 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1167006008701 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1167006008702 active site 1167006008703 ATP binding site [chemical binding]; other site 1167006008704 substrate binding site [chemical binding]; other site 1167006008705 activation loop (A-loop); other site 1167006008706 PEGA domain; Region: PEGA; pfam08308 1167006008707 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1167006008708 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1167006008709 Protein phosphatase 2C; Region: PP2C; pfam00481 1167006008710 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1167006008711 active site 1167006008712 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1167006008713 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1167006008714 phosphopeptide binding site; other site 1167006008715 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1167006008716 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1167006008717 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1167006008718 phosphopeptide binding site; other site 1167006008719 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 1167006008720 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006008721 catalytic residue [active] 1167006008722 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1167006008723 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1167006008724 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1167006008725 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008726 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008727 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1167006008728 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008729 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1167006008730 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008731 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1167006008732 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008733 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1167006008734 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008735 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008736 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006008737 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1167006008738 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1167006008739 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1167006008740 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1167006008741 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 1167006008742 Walker A motif; other site 1167006008743 ATP binding site [chemical binding]; other site 1167006008744 Walker B motif; other site 1167006008745 arginine finger; other site 1167006008746 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 1167006008747 Walker A motif; other site 1167006008748 ATP binding site [chemical binding]; other site 1167006008749 Walker B motif; other site 1167006008750 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1167006008751 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1167006008752 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1167006008753 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1167006008754 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1167006008755 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1167006008756 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1167006008757 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1167006008758 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1167006008759 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1167006008760 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1167006008761 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1167006008762 G1 box; other site 1167006008763 GTP/Mg2+ binding site [chemical binding]; other site 1167006008764 G2 box; other site 1167006008765 G3 box; other site 1167006008766 Switch II region; other site 1167006008767 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1167006008768 G4 box; other site 1167006008769 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1167006008770 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1167006008771 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1167006008772 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1167006008773 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006008774 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1167006008775 FtsX-like permease family; Region: FtsX; pfam02687 1167006008776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006008777 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006008778 Walker A/P-loop; other site 1167006008779 ATP binding site [chemical binding]; other site 1167006008780 Q-loop/lid; other site 1167006008781 ABC transporter signature motif; other site 1167006008782 Walker B; other site 1167006008783 D-loop; other site 1167006008784 H-loop/switch region; other site 1167006008785 HlyD family secretion protein; Region: HlyD; pfam00529 1167006008786 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006008787 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006008788 Outer membrane efflux protein; Region: OEP; pfam02321 1167006008789 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1167006008790 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1167006008791 putative active site [active] 1167006008792 putative NTP binding site [chemical binding]; other site 1167006008793 putative nucleic acid binding site [nucleotide binding]; other site 1167006008794 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1167006008795 Transposase IS200 like; Region: Y1_Tnp; cl00848 1167006008796 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1167006008797 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1167006008798 Domain of unknown function DUF87; Region: DUF87; pfam01935 1167006008799 SIR2-like domain; Region: SIR2_2; pfam13289 1167006008800 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1167006008801 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1167006008802 putative active site [active] 1167006008803 putative NTP binding site [chemical binding]; other site 1167006008804 putative nucleic acid binding site [nucleotide binding]; other site 1167006008805 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1167006008806 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 1167006008807 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1167006008808 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1167006008809 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1167006008810 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1167006008811 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1167006008812 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1167006008813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006008814 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1167006008815 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 1167006008816 DNA binding residues [nucleotide binding] 1167006008817 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 1167006008818 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 1167006008819 FeS/SAM binding site; other site 1167006008820 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 1167006008821 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; cl15377 1167006008822 FeS/SAM binding site; other site 1167006008823 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 1167006008824 Amidohydrolase; Region: Amidohydro_4; pfam13147 1167006008825 active site 1167006008826 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 1167006008827 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1167006008828 Flavoprotein; Region: Flavoprotein; pfam02441 1167006008829 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1167006008830 UbiA prenyltransferase family; Region: UbiA; pfam01040 1167006008831 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1167006008832 adenylate kinase; Reviewed; Region: adk; PRK00279 1167006008833 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 1167006008834 AMP-binding site [chemical binding]; other site 1167006008835 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1167006008836 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1167006008837 ATP binding site [chemical binding]; other site 1167006008838 active site 1167006008839 substrate binding site [chemical binding]; other site 1167006008840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006008841 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 1167006008842 dimer interface [polypeptide binding]; other site 1167006008843 phosphorylation site [posttranslational modification] 1167006008844 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006008845 ATP binding site [chemical binding]; other site 1167006008846 Mg2+ binding site [ion binding]; other site 1167006008847 G-X-G motif; other site 1167006008848 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006008849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008850 active site 1167006008851 phosphorylation site [posttranslational modification] 1167006008852 intermolecular recognition site; other site 1167006008853 dimerization interface [polypeptide binding]; other site 1167006008854 aconitate hydratase; Validated; Region: PRK09277 1167006008855 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1167006008856 substrate binding site [chemical binding]; other site 1167006008857 ligand binding site [chemical binding]; other site 1167006008858 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 1167006008859 substrate binding site [chemical binding]; other site 1167006008860 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 1167006008861 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1167006008862 putative metal binding site [ion binding]; other site 1167006008863 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1167006008864 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 1167006008865 ABC-ATPase subunit interface; other site 1167006008866 dimer interface [polypeptide binding]; other site 1167006008867 putative PBP binding regions; other site 1167006008868 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1167006008869 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1167006008870 Walker A/P-loop; other site 1167006008871 ATP binding site [chemical binding]; other site 1167006008872 Q-loop/lid; other site 1167006008873 ABC transporter signature motif; other site 1167006008874 Walker B; other site 1167006008875 D-loop; other site 1167006008876 H-loop/switch region; other site 1167006008877 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1167006008878 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1167006008879 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 1167006008880 PEP-CTERM motif; Region: VPEP; pfam07589 1167006008881 Predicted membrane protein [Function unknown]; Region: COG3462 1167006008882 Short C-terminal domain; Region: SHOCT; pfam09851 1167006008883 multicopper oxidase; Provisional; Region: PRK10965 1167006008884 multicopper oxidase; Provisional; Region: PRK10965 1167006008885 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006008886 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006008887 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006008888 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 1167006008889 ligand binding site [chemical binding]; other site 1167006008890 flexible hinge region; other site 1167006008891 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006008892 PEP-CTERM motif; Region: VPEP; pfam07589 1167006008893 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006008894 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1167006008895 active site 1167006008896 metal binding site [ion binding]; metal-binding site 1167006008897 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 1167006008898 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1167006008899 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1167006008900 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1167006008901 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 1167006008902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006008903 homodimer interface [polypeptide binding]; other site 1167006008904 catalytic residue [active] 1167006008905 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 1167006008906 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1167006008907 active site 1167006008908 metal-binding site 1167006008909 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1167006008910 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1167006008911 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 1167006008912 active site 1167006008913 hydrophilic channel; other site 1167006008914 dimerization interface [polypeptide binding]; other site 1167006008915 catalytic residues [active] 1167006008916 active site lid [active] 1167006008917 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1167006008918 PhoH-like protein; Region: PhoH; pfam02562 1167006008919 Thioredoxin; Region: Thioredoxin_4; pfam13462 1167006008920 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1167006008921 trigger factor; Region: tig; TIGR00115 1167006008922 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1167006008923 Clp protease; Region: CLP_protease; pfam00574 1167006008924 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1167006008925 oligomer interface [polypeptide binding]; other site 1167006008926 active site residues [active] 1167006008927 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1167006008928 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1167006008929 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1167006008930 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 1167006008931 Walker A motif; other site 1167006008932 ATP binding site [chemical binding]; other site 1167006008933 Walker B motif; other site 1167006008934 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1167006008935 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1167006008936 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1167006008937 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 1167006008938 Walker A motif; other site 1167006008939 ATP binding site [chemical binding]; other site 1167006008940 Walker B motif; other site 1167006008941 arginine finger; other site 1167006008942 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1167006008943 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1167006008944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1167006008945 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 1167006008946 putative dimerization interface [polypeptide binding]; other site 1167006008947 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1167006008948 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1167006008949 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1167006008950 substrate binding pocket [chemical binding]; other site 1167006008951 dimer interface [polypeptide binding]; other site 1167006008952 inhibitor binding site; inhibition site 1167006008953 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006008954 B12 binding site [chemical binding]; other site 1167006008955 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1167006008956 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1167006008957 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1167006008958 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1167006008959 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1167006008960 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1167006008961 active site 1167006008962 catalytic site [active] 1167006008963 putative DNA binding site [nucleotide binding]; other site 1167006008964 GIY-YIG motif/motif A; other site 1167006008965 metal binding site [ion binding]; metal-binding site 1167006008966 UvrB/uvrC motif; Region: UVR; pfam02151 1167006008967 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1167006008968 Helix-hairpin-helix motif; Region: HHH; pfam00633 1167006008969 helix-hairpin-helix signature motif; other site 1167006008970 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 1167006008971 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1167006008972 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1167006008973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006008974 Walker A/P-loop; other site 1167006008975 ATP binding site [chemical binding]; other site 1167006008976 Q-loop/lid; other site 1167006008977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006008978 ABC transporter signature motif; other site 1167006008979 Walker B; other site 1167006008980 ABC transporter; Region: ABC_tran_2; pfam12848 1167006008981 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1167006008982 PAS domain S-box; Region: sensory_box; TIGR00229 1167006008983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006008984 putative active site [active] 1167006008985 heme pocket [chemical binding]; other site 1167006008986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006008987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006008988 ATP binding site [chemical binding]; other site 1167006008989 Mg2+ binding site [ion binding]; other site 1167006008990 G-X-G motif; other site 1167006008991 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006008992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006008993 active site 1167006008994 phosphorylation site [posttranslational modification] 1167006008995 intermolecular recognition site; other site 1167006008996 dimerization interface [polypeptide binding]; other site 1167006008997 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 1167006008998 Walker A motif; other site 1167006008999 ATP binding site [chemical binding]; other site 1167006009000 Walker B motif; other site 1167006009001 arginine finger; other site 1167006009002 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006009003 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1167006009004 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006009005 thiosulfate reductase PhsA; Provisional; Region: PRK15488 1167006009006 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 1167006009007 putative [Fe4-S4] binding site [ion binding]; other site 1167006009008 putative molybdopterin cofactor binding site [chemical binding]; other site 1167006009009 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 1167006009010 putative molybdopterin cofactor binding site; other site 1167006009011 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 1167006009012 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009013 PAS domain; Region: PAS_9; pfam13426 1167006009014 putative active site [active] 1167006009015 heme pocket [chemical binding]; other site 1167006009016 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1167006009017 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 1167006009018 Walker A motif; other site 1167006009019 ATP binding site [chemical binding]; other site 1167006009020 Walker B motif; other site 1167006009021 arginine finger; other site 1167006009022 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006009023 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1167006009024 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 1167006009025 FMN binding site [chemical binding]; other site 1167006009026 active site 1167006009027 catalytic residues [active] 1167006009028 substrate binding site [chemical binding]; other site 1167006009029 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 1167006009030 transketolase; Reviewed; Region: PRK05899 1167006009031 TPP-binding site [chemical binding]; other site 1167006009032 dimer interface [polypeptide binding]; other site 1167006009033 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 1167006009034 PYR/PP interface [polypeptide binding]; other site 1167006009035 dimer interface [polypeptide binding]; other site 1167006009036 TPP binding site [chemical binding]; other site 1167006009037 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1167006009038 Lipopolysaccharide-assembly; Region: LptE; cl01125 1167006009039 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1167006009040 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1167006009041 HIGH motif; other site 1167006009042 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1167006009043 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1167006009044 active site 1167006009045 KMSKS motif; other site 1167006009046 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1167006009047 tRNA binding surface [nucleotide binding]; other site 1167006009048 replicative DNA helicase; Region: DnaB; TIGR00665 1167006009049 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1167006009050 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 1167006009051 Walker A motif; other site 1167006009052 ATP binding site [chemical binding]; other site 1167006009053 Walker B motif; other site 1167006009054 DNA binding loops [nucleotide binding] 1167006009055 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1167006009056 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1167006009057 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1167006009058 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 1167006009059 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1167006009060 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 1167006009061 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 1167006009062 homodimer interface [polypeptide binding]; other site 1167006009063 metal binding site [ion binding]; metal-binding site 1167006009064 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1167006009065 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1167006009066 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1167006009067 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1167006009068 GTP1/OBG; Region: GTP1_OBG; pfam01018 1167006009069 Obg GTPase; Region: Obg; cd01898 1167006009070 G1 box; other site 1167006009071 GTP/Mg2+ binding site [chemical binding]; other site 1167006009072 Switch I region; other site 1167006009073 G2 box; other site 1167006009074 G3 box; other site 1167006009075 Switch II region; other site 1167006009076 G4 box; other site 1167006009077 G5 box; other site 1167006009078 gamma-glutamyl kinase; Provisional; Region: PRK05429 1167006009079 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 1167006009080 nucleotide binding site [chemical binding]; other site 1167006009081 homotetrameric interface [polypeptide binding]; other site 1167006009082 putative phosphate binding site [ion binding]; other site 1167006009083 putative allosteric binding site; other site 1167006009084 PUA domain; Region: PUA; pfam01472 1167006009085 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1167006009086 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1167006009087 putative catalytic cysteine [active] 1167006009088 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1167006009089 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1167006009090 active site 1167006009091 (T/H)XGH motif; other site 1167006009092 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1167006009093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009094 active site 1167006009095 phosphorylation site [posttranslational modification] 1167006009096 intermolecular recognition site; other site 1167006009097 CheB methylesterase; Region: CheB_methylest; pfam01339 1167006009098 PilZ domain; Region: PilZ; pfam07238 1167006009099 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1167006009100 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 1167006009101 putative substrate binding site [chemical binding]; other site 1167006009102 putative ATP binding site [chemical binding]; other site 1167006009103 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 1167006009104 Thymidylate synthase; Region: dTMP_synthase; pfam02593 1167006009105 Predicted permeases [General function prediction only]; Region: COG0795 1167006009106 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1167006009107 threonine synthase; Validated; Region: PRK06450 1167006009108 HYR domain; Region: HYR; pfam02494 1167006009109 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1167006009110 Peptidase family M23; Region: Peptidase_M23; pfam01551 1167006009111 ribonuclease G; Provisional; Region: PRK11712 1167006009112 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 1167006009113 homodimer interface [polypeptide binding]; other site 1167006009114 oligonucleotide binding site [chemical binding]; other site 1167006009115 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006009116 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 1167006009117 active site 1167006009118 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1167006009119 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1167006009120 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 1167006009121 dimer interface [polypeptide binding]; other site 1167006009122 ssDNA binding site [nucleotide binding]; other site 1167006009123 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1167006009124 chaperone protein DnaJ; Provisional; Region: PRK14299 1167006009125 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 1167006009126 HSP70 interaction site [polypeptide binding]; other site 1167006009127 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1167006009128 substrate binding site [polypeptide binding]; other site 1167006009129 dimer interface [polypeptide binding]; other site 1167006009130 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 1167006009131 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 1167006009132 substrate binding site [chemical binding]; other site 1167006009133 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1167006009134 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1167006009135 substrate binding site [chemical binding]; other site 1167006009136 ligand binding site [chemical binding]; other site 1167006009137 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1167006009138 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 1167006009139 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009141 active site 1167006009142 phosphorylation site [posttranslational modification] 1167006009143 intermolecular recognition site; other site 1167006009144 dimerization interface [polypeptide binding]; other site 1167006009145 PAS domain S-box; Region: sensory_box; TIGR00229 1167006009146 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009147 putative active site [active] 1167006009148 heme pocket [chemical binding]; other site 1167006009149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1167006009150 Histidine kinase; Region: HisKA_3; pfam07730 1167006009151 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009152 ATP binding site [chemical binding]; other site 1167006009153 Mg2+ binding site [ion binding]; other site 1167006009154 G-X-G motif; other site 1167006009155 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1167006009156 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1167006009157 EAL domain; Region: EAL; pfam00563 1167006009158 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 1167006009159 YcaO-like family; Region: YcaO; pfam02624 1167006009160 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1167006009161 TPR repeat; Region: TPR_11; pfam13414 1167006009162 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 1167006009163 binding surface 1167006009164 TPR motif; other site 1167006009165 TPR repeat; Region: TPR_11; pfam13414 1167006009166 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1167006009167 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 1167006009168 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 1167006009169 putative active site [active] 1167006009170 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1167006009171 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 1167006009172 active site 1167006009173 motif I; other site 1167006009174 motif II; other site 1167006009175 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1167006009176 dimer interface [polypeptide binding]; other site 1167006009177 catalytic triad [active] 1167006009178 pantothenate kinase; Reviewed; Region: PRK13318 1167006009179 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1167006009180 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1167006009181 zinc binding site [ion binding]; other site 1167006009182 putative ligand binding site [chemical binding]; other site 1167006009183 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006009184 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1167006009185 TM-ABC transporter signature motif; other site 1167006009186 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1167006009187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006009188 Walker A/P-loop; other site 1167006009189 ATP binding site [chemical binding]; other site 1167006009190 Q-loop/lid; other site 1167006009191 ABC transporter signature motif; other site 1167006009192 Walker B; other site 1167006009193 D-loop; other site 1167006009194 H-loop/switch region; other site 1167006009195 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1167006009196 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006009197 Zn2+ binding site [ion binding]; other site 1167006009198 Mg2+ binding site [ion binding]; other site 1167006009199 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1167006009200 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1167006009201 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 1167006009202 substrate binding site [chemical binding]; other site 1167006009203 dimer interface [polypeptide binding]; other site 1167006009204 ATP binding site [chemical binding]; other site 1167006009205 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1167006009206 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1167006009207 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 1167006009208 anchoring element; other site 1167006009209 dimer interface [polypeptide binding]; other site 1167006009210 ATP binding site [chemical binding]; other site 1167006009211 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1167006009212 active site 1167006009213 putative metal-binding site [ion binding]; other site 1167006009214 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1167006009215 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 1167006009216 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; cl00148 1167006009217 CAP-like domain; other site 1167006009218 active site 1167006009219 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1167006009220 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1167006009221 DHH family; Region: DHH; pfam01368 1167006009222 Bacterial SH3 domain; Region: SH3_3; pfam08239 1167006009223 Bacterial SH3 domain; Region: SH3_4; pfam06347 1167006009224 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009225 heme pocket [chemical binding]; other site 1167006009226 putative active site [active] 1167006009227 PAS domain S-box; Region: sensory_box; TIGR00229 1167006009228 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009229 putative active site [active] 1167006009230 heme pocket [chemical binding]; other site 1167006009231 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006009232 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009233 putative active site [active] 1167006009234 heme pocket [chemical binding]; other site 1167006009235 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 1167006009236 dimer interface [polypeptide binding]; other site 1167006009237 phosphorylation site [posttranslational modification] 1167006009238 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009239 ATP binding site [chemical binding]; other site 1167006009240 Mg2+ binding site [ion binding]; other site 1167006009241 G-X-G motif; other site 1167006009242 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006009243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009244 active site 1167006009245 phosphorylation site [posttranslational modification] 1167006009246 intermolecular recognition site; other site 1167006009247 dimerization interface [polypeptide binding]; other site 1167006009248 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1167006009249 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; cd00322 1167006009250 FAD binding pocket [chemical binding]; other site 1167006009251 conserved FAD binding motif [chemical binding]; other site 1167006009252 phosphate binding motif [ion binding]; other site 1167006009253 beta-alpha-beta structure motif; other site 1167006009254 NAD binding pocket [chemical binding]; other site 1167006009255 Repair protein; Region: Repair_PSII; pfam04536 1167006009256 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1167006009257 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1167006009258 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1167006009259 GTPase RsgA; Reviewed; Region: PRK01889 1167006009260 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 1167006009261 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1167006009262 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1167006009263 GTP/Mg2+ binding site [chemical binding]; other site 1167006009264 G4 box; other site 1167006009265 G5 box; other site 1167006009266 G1 box; other site 1167006009267 Switch I region; other site 1167006009268 G2 box; other site 1167006009269 G3 box; other site 1167006009270 Switch II region; other site 1167006009271 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 1167006009272 putative ligand binding site [chemical binding]; other site 1167006009273 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009275 active site 1167006009276 phosphorylation site [posttranslational modification] 1167006009277 intermolecular recognition site; other site 1167006009278 dimerization interface [polypeptide binding]; other site 1167006009279 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 1167006009280 dimerization interface [polypeptide binding]; other site 1167006009281 putative DNA binding site [nucleotide binding]; other site 1167006009282 putative Zn2+ binding site [ion binding]; other site 1167006009283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1167006009284 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 1167006009285 dimer interface [polypeptide binding]; other site 1167006009286 phosphorylation site [posttranslational modification] 1167006009287 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009288 ATP binding site [chemical binding]; other site 1167006009289 Mg2+ binding site [ion binding]; other site 1167006009290 G-X-G motif; other site 1167006009291 MltA-interacting protein MipA; Region: MipA; cl01504 1167006009292 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1167006009293 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1167006009294 PAS domain S-box; Region: sensory_box; TIGR00229 1167006009295 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009296 putative active site [active] 1167006009297 heme pocket [chemical binding]; other site 1167006009298 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006009299 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009300 putative active site [active] 1167006009301 heme pocket [chemical binding]; other site 1167006009302 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 1167006009303 dimer interface [polypeptide binding]; other site 1167006009304 phosphorylation site [posttranslational modification] 1167006009305 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009306 ATP binding site [chemical binding]; other site 1167006009307 Mg2+ binding site [ion binding]; other site 1167006009308 G-X-G motif; other site 1167006009309 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006009310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009311 active site 1167006009312 phosphorylation site [posttranslational modification] 1167006009313 intermolecular recognition site; other site 1167006009314 dimerization interface [polypeptide binding]; other site 1167006009315 MarR family; Region: MarR_2; cl17246 1167006009316 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1167006009317 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006009318 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1167006009319 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006009320 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1167006009321 Protein export membrane protein; Region: SecD_SecF; cl14618 1167006009322 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1167006009323 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 1167006009324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006009325 substrate binding pocket [chemical binding]; other site 1167006009326 membrane-bound complex binding site; other site 1167006009327 hinge residues; other site 1167006009328 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 1167006009329 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006009330 substrate binding pocket [chemical binding]; other site 1167006009331 membrane-bound complex binding site; other site 1167006009332 hinge residues; other site 1167006009333 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 1167006009334 dimer interface [polypeptide binding]; other site 1167006009335 phosphorylation site [posttranslational modification] 1167006009336 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009337 ATP binding site [chemical binding]; other site 1167006009338 Mg2+ binding site [ion binding]; other site 1167006009339 G-X-G motif; other site 1167006009340 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006009341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009342 active site 1167006009343 phosphorylation site [posttranslational modification] 1167006009344 intermolecular recognition site; other site 1167006009345 dimerization interface [polypeptide binding]; other site 1167006009346 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1167006009347 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1167006009348 tetramer interface [polypeptide binding]; other site 1167006009349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006009350 catalytic residue [active] 1167006009351 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 1167006009352 Ligand Binding Site [chemical binding]; other site 1167006009353 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1167006009354 Sodium Bile acid symporter family; Region: SBF; cl17470 1167006009355 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1167006009356 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1167006009357 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 1167006009358 FeS/SAM binding site; other site 1167006009359 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1167006009360 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 1167006009361 tetramer interface [polypeptide binding]; other site 1167006009362 active site 1167006009363 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1167006009364 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1167006009365 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1167006009366 DHH family; Region: DHH; pfam01368 1167006009367 DHHA1 domain; Region: DHHA1; pfam02272 1167006009368 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1167006009369 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1167006009370 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1167006009371 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1167006009372 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1167006009373 active site 1167006009374 catalytic residues [active] 1167006009375 metal binding site [ion binding]; metal-binding site 1167006009376 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1167006009377 aspartate kinase; Reviewed; Region: PRK06635 1167006009378 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 1167006009379 putative nucleotide binding site [chemical binding]; other site 1167006009380 putative catalytic residues [active] 1167006009381 putative Mg ion binding site [ion binding]; other site 1167006009382 putative aspartate binding site [chemical binding]; other site 1167006009383 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 1167006009384 putative allosteric regulatory site; other site 1167006009385 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 1167006009386 putative allosteric regulatory residue; other site 1167006009387 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1167006009388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006009389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006009390 metal binding site [ion binding]; metal-binding site 1167006009391 active site 1167006009392 I-site; other site 1167006009393 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1167006009394 homodimer interface [polypeptide binding]; other site 1167006009395 substrate-cofactor binding pocket; other site 1167006009396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006009397 catalytic residue [active] 1167006009398 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006009399 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 1167006009400 FeS/SAM binding site; other site 1167006009401 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 1167006009402 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 1167006009403 FeS/SAM binding site; other site 1167006009404 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1167006009405 putative FMN binding site [chemical binding]; other site 1167006009406 NADPH bind site [chemical binding]; other site 1167006009407 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1167006009408 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1167006009409 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1167006009410 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1167006009411 TPP-binding site [chemical binding]; other site 1167006009412 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 1167006009413 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1167006009414 dimer interface [polypeptide binding]; other site 1167006009415 PYR/PP interface [polypeptide binding]; other site 1167006009416 TPP binding site [chemical binding]; other site 1167006009417 substrate binding site [chemical binding]; other site 1167006009418 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1167006009419 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1167006009420 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006009421 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006009422 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1167006009423 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1167006009424 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1167006009425 active site 1167006009426 catalytic residues [active] 1167006009427 metal binding site [ion binding]; metal-binding site 1167006009428 homodimer binding site [polypeptide binding]; other site 1167006009429 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 1167006009430 carboxyltransferase (CT) interaction site; other site 1167006009431 biotinylation site [posttranslational modification]; other site 1167006009432 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 1167006009433 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1167006009434 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1167006009435 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1167006009436 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1167006009437 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12662 1167006009438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006009439 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 1167006009440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006009441 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1167006009442 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006009443 Predicted membrane protein [Function unknown]; Region: COG3431 1167006009444 Uncharacterized ArCR, COG1888; Region: DUF211; pfam02680 1167006009445 CCC1-related family of proteins; Region: CCC1_like; cl00278 1167006009446 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 1167006009447 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1167006009448 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1167006009449 Sporulation related domain; Region: SPOR; pfam05036 1167006009450 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 1167006009451 active site 1167006009452 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 1167006009453 active site 1167006009454 ribulose/triose binding site [chemical binding]; other site 1167006009455 phosphate binding site [ion binding]; other site 1167006009456 substrate (anthranilate) binding pocket [chemical binding]; other site 1167006009457 product (indole) binding pocket [chemical binding]; other site 1167006009458 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1167006009459 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1167006009460 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1167006009461 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1167006009462 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1167006009463 glutamine binding [chemical binding]; other site 1167006009464 catalytic triad [active] 1167006009465 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1167006009466 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1167006009467 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1167006009468 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1167006009469 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006009470 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 1167006009471 ligand binding site [chemical binding]; other site 1167006009472 flexible hinge region; other site 1167006009473 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1167006009474 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1167006009475 Peptidase family U32; Region: Peptidase_U32; pfam01136 1167006009476 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1167006009477 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006009478 active site 1167006009479 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 1167006009480 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1167006009481 active site 1167006009482 substrate binding site [chemical binding]; other site 1167006009483 cosubstrate binding site; other site 1167006009484 catalytic site [active] 1167006009485 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 1167006009486 purine monophosphate binding site [chemical binding]; other site 1167006009487 dimer interface [polypeptide binding]; other site 1167006009488 putative catalytic residues [active] 1167006009489 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 1167006009490 RNA binding surface [nucleotide binding]; other site 1167006009491 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 1167006009492 FAD binding site [chemical binding]; other site 1167006009493 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1167006009494 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1167006009495 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1167006009496 AAA domain; Region: AAA_30; pfam13604 1167006009497 Family description; Region: UvrD_C_2; pfam13538 1167006009498 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1167006009499 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1167006009500 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 1167006009501 inhibitor-cofactor binding pocket; inhibition site 1167006009502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006009503 catalytic residue [active] 1167006009504 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1167006009505 tetramerization interface [polypeptide binding]; other site 1167006009506 active site 1167006009507 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1167006009508 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1167006009509 active site 1167006009510 ATP-binding site [chemical binding]; other site 1167006009511 pantoate-binding site; other site 1167006009512 HXXH motif; other site 1167006009513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1167006009514 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1167006009515 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 1167006009516 generic binding surface II; other site 1167006009517 generic binding surface I; other site 1167006009518 integron integrase; Region: integrase_gron; TIGR02249 1167006009519 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1167006009520 Int/Topo IB signature motif; other site 1167006009521 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1167006009522 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1167006009523 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1167006009524 Coenzyme A binding pocket [chemical binding]; other site 1167006009525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1167006009526 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 1167006009527 oligomeric interface; other site 1167006009528 putative active site [active] 1167006009529 homodimer interface [polypeptide binding]; other site 1167006009530 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1167006009531 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1167006009532 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006009533 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006009534 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 1167006009535 Walker A motif; other site 1167006009536 ATP binding site [chemical binding]; other site 1167006009537 Walker B motif; other site 1167006009538 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006009539 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006009540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006009541 Integrase core domain; Region: rve; pfam00665 1167006009542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006009543 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 1167006009544 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1167006009545 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1167006009546 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1167006009547 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 1167006009548 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1167006009549 catalytic triad [active] 1167006009550 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1167006009551 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1167006009552 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 1167006009553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006009554 homodimer interface [polypeptide binding]; other site 1167006009555 catalytic residue [active] 1167006009556 cobyric acid synthase; Provisional; Region: PRK00784 1167006009557 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 1167006009558 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1167006009559 catalytic triad [active] 1167006009560 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1167006009561 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1167006009562 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1167006009563 putative dimer interface [polypeptide binding]; other site 1167006009564 active site pocket [active] 1167006009565 putative cataytic base [active] 1167006009566 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1167006009567 homotrimer interface [polypeptide binding]; other site 1167006009568 Walker A motif; other site 1167006009569 GTP binding site [chemical binding]; other site 1167006009570 Walker B motif; other site 1167006009571 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 1167006009572 catalytic core [active] 1167006009573 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1167006009574 active site 1167006009575 SAM binding site [chemical binding]; other site 1167006009576 homodimer interface [polypeptide binding]; other site 1167006009577 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1167006009578 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1167006009579 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1167006009580 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009582 active site 1167006009583 phosphorylation site [posttranslational modification] 1167006009584 intermolecular recognition site; other site 1167006009585 dimerization interface [polypeptide binding]; other site 1167006009586 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006009587 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 1167006009588 phosphorylation site [posttranslational modification] 1167006009589 dimer interface [polypeptide binding]; other site 1167006009590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009591 ATP binding site [chemical binding]; other site 1167006009592 Mg2+ binding site [ion binding]; other site 1167006009593 G-X-G motif; other site 1167006009594 PAS domain; Region: PAS; smart00091 1167006009595 PAS domain; Region: PAS_9; pfam13426 1167006009596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006009597 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 1167006009598 dimer interface [polypeptide binding]; other site 1167006009599 phosphorylation site [posttranslational modification] 1167006009600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009601 ATP binding site [chemical binding]; other site 1167006009602 Mg2+ binding site [ion binding]; other site 1167006009603 G-X-G motif; other site 1167006009604 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1167006009605 Sel1-like repeats; Region: SEL1; smart00671 1167006009606 Sel1 repeat; Region: Sel1; cl02723 1167006009607 Sel1-like repeats; Region: SEL1; smart00671 1167006009608 Sel1-like repeats; Region: SEL1; smart00671 1167006009609 Sel1-like repeats; Region: SEL1; smart00671 1167006009610 Bacterial SH3 domain; Region: SH3_4; pfam06347 1167006009611 Bacterial SH3 domain; Region: SH3_4; pfam06347 1167006009612 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1167006009613 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 1167006009614 ATP binding site [chemical binding]; other site 1167006009615 putative Mg++ binding site [ion binding]; other site 1167006009616 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 1167006009617 nucleotide binding region [chemical binding]; other site 1167006009618 ATP-binding site [chemical binding]; other site 1167006009619 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1167006009620 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1167006009621 active site 1167006009622 substrate binding site [chemical binding]; other site 1167006009623 catalytic site [active] 1167006009624 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1167006009625 Prephenate dehydratase; Region: PDT; pfam00800 1167006009626 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1167006009627 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1167006009628 thioredoxin reductase; Provisional; Region: PRK10262 1167006009629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1167006009630 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1167006009631 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 1167006009632 dimer interface [polypeptide binding]; other site 1167006009633 active site 1167006009634 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1167006009635 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1167006009636 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006009637 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1167006009638 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006009639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1167006009640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006009641 NAD(P) binding site [chemical binding]; other site 1167006009642 active site 1167006009643 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 1167006009644 TolQ protein; Region: tolQ; TIGR02796 1167006009645 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1167006009646 TolR protein; Region: tolR; TIGR02801 1167006009647 TonB C terminal; Region: TonB_2; pfam13103 1167006009648 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1167006009649 TolB amino-terminal domain; Region: TolB_N; pfam04052 1167006009650 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1167006009651 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1167006009652 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1167006009653 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1167006009654 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1167006009655 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1167006009656 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 1167006009657 RNA binding surface [nucleotide binding]; other site 1167006009658 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 1167006009659 S-adenosylmethionine binding site [chemical binding]; other site 1167006009660 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 1167006009661 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1167006009662 active site 1167006009663 catalytic tetrad [active] 1167006009664 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 1167006009665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009666 active site 1167006009667 phosphorylation site [posttranslational modification] 1167006009668 intermolecular recognition site; other site 1167006009669 dimerization interface [polypeptide binding]; other site 1167006009670 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 1167006009671 Walker A motif; other site 1167006009672 ATP binding site [chemical binding]; other site 1167006009673 Walker B motif; other site 1167006009674 arginine finger; other site 1167006009675 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 1167006009676 dimerization interface [polypeptide binding]; other site 1167006009677 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 1167006009678 dimer interface [polypeptide binding]; other site 1167006009679 phosphorylation site [posttranslational modification] 1167006009680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009681 ATP binding site [chemical binding]; other site 1167006009682 G-X-G motif; other site 1167006009683 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006009684 PBP superfamily domain; Region: PBP_like; cl17867 1167006009685 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 1167006009686 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 1167006009687 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1167006009688 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006009689 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 1167006009690 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1167006009691 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 1167006009692 molybdopterin cofactor binding site; other site 1167006009693 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 1167006009694 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1167006009695 molybdopterin cofactor binding site; other site 1167006009696 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1167006009697 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 1167006009698 binding surface 1167006009699 TPR motif; other site 1167006009700 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006009701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1167006009702 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 1167006009703 NAD(P) binding site [chemical binding]; other site 1167006009704 active site 1167006009705 peptide synthase; Provisional; Region: PRK09274 1167006009706 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 1167006009707 acyl-activating enzyme (AAE) consensus motif; other site 1167006009708 putative AMP binding site [chemical binding]; other site 1167006009709 putative active site [active] 1167006009710 putative CoA binding site [chemical binding]; other site 1167006009711 haloalkane dehalogenase; Provisional; Region: PRK03204 1167006009712 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1167006009713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1167006009714 Walker A/P-loop; other site 1167006009715 ATP binding site [chemical binding]; other site 1167006009716 Q-loop/lid; other site 1167006009717 ABC transporter signature motif; other site 1167006009718 Walker B; other site 1167006009719 D-loop; other site 1167006009720 H-loop/switch region; other site 1167006009721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1167006009722 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1167006009723 Walker A/P-loop; other site 1167006009724 ATP binding site [chemical binding]; other site 1167006009725 Q-loop/lid; other site 1167006009726 ABC transporter signature motif; other site 1167006009727 Walker B; other site 1167006009728 D-loop; other site 1167006009729 H-loop/switch region; other site 1167006009730 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1167006009731 putative binding surface; other site 1167006009732 active site 1167006009733 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1167006009734 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1167006009735 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1167006009736 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1167006009737 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1167006009738 AIR carboxylase; Region: AIRC; pfam00731 1167006009739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1167006009740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1167006009741 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1167006009742 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1167006009743 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1167006009744 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1167006009745 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1167006009746 binding surface 1167006009747 TPR motif; other site 1167006009748 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 1167006009749 binding surface 1167006009750 TPR motif; other site 1167006009751 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1167006009752 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 1167006009753 inhibitor-cofactor binding pocket; inhibition site 1167006009754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006009755 catalytic residue [active] 1167006009756 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1167006009757 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 1167006009758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006009759 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 1167006009760 DNA binding residues [nucleotide binding] 1167006009761 GTP-binding protein LepA; Provisional; Region: PRK05433 1167006009762 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1167006009763 G1 box; other site 1167006009764 putative GEF interaction site [polypeptide binding]; other site 1167006009765 GTP/Mg2+ binding site [chemical binding]; other site 1167006009766 Switch I region; other site 1167006009767 G2 box; other site 1167006009768 G3 box; other site 1167006009769 Switch II region; other site 1167006009770 G4 box; other site 1167006009771 G5 box; other site 1167006009772 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1167006009773 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 1167006009774 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1167006009775 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1167006009776 G1 box; other site 1167006009777 GTP/Mg2+ binding site [chemical binding]; other site 1167006009778 Switch I region; other site 1167006009779 G2 box; other site 1167006009780 G3 box; other site 1167006009781 Switch II region; other site 1167006009782 G4 box; other site 1167006009783 G5 box; other site 1167006009784 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1167006009785 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1167006009786 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1167006009787 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1167006009788 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1167006009789 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1167006009790 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 1167006009791 putative binding surface; other site 1167006009792 active site 1167006009793 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1167006009794 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1167006009795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009796 ATP binding site [chemical binding]; other site 1167006009797 Mg2+ binding site [ion binding]; other site 1167006009798 G-X-G motif; other site 1167006009799 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 1167006009800 CheW-like domain; Region: CheW; pfam01584 1167006009801 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006009802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009803 active site 1167006009804 phosphorylation site [posttranslational modification] 1167006009805 intermolecular recognition site; other site 1167006009806 dimerization interface [polypeptide binding]; other site 1167006009807 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 1167006009808 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1167006009809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009810 active site 1167006009811 phosphorylation site [posttranslational modification] 1167006009812 intermolecular recognition site; other site 1167006009813 dimerization interface [polypeptide binding]; other site 1167006009814 CheB methylesterase; Region: CheB_methylest; pfam01339 1167006009815 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1167006009816 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1167006009817 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1167006009818 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009820 active site 1167006009821 phosphorylation site [posttranslational modification] 1167006009822 intermolecular recognition site; other site 1167006009823 dimerization interface [polypeptide binding]; other site 1167006009824 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1167006009825 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006009826 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006009827 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1167006009828 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006009829 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1167006009830 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006009831 4Fe-4S binding domain; Region: Fer4; cl02805 1167006009832 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006009833 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006009834 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006009835 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006009836 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006009837 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009838 putative active site [active] 1167006009839 heme pocket [chemical binding]; other site 1167006009840 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 1167006009841 dimer interface [polypeptide binding]; other site 1167006009842 phosphorylation site [posttranslational modification] 1167006009843 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009844 ATP binding site [chemical binding]; other site 1167006009845 Mg2+ binding site [ion binding]; other site 1167006009846 G-X-G motif; other site 1167006009847 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009849 active site 1167006009850 phosphorylation site [posttranslational modification] 1167006009851 intermolecular recognition site; other site 1167006009852 dimerization interface [polypeptide binding]; other site 1167006009853 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009854 PAS domain; Region: PAS_9; pfam13426 1167006009855 putative active site [active] 1167006009856 heme pocket [chemical binding]; other site 1167006009857 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1167006009858 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 1167006009859 Walker A motif; other site 1167006009860 ATP binding site [chemical binding]; other site 1167006009861 Walker B motif; other site 1167006009862 arginine finger; other site 1167006009863 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006009864 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 1167006009865 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1167006009866 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 1167006009867 Walker A motif; other site 1167006009868 ATP binding site [chemical binding]; other site 1167006009869 Walker B motif; other site 1167006009870 arginine finger; other site 1167006009871 Peptidase family M41; Region: Peptidase_M41; pfam01434 1167006009872 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006009873 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006009874 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006009875 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006009876 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006009877 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006009878 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006009879 GAF domain; Region: GAF; pfam01590 1167006009880 PAS domain S-box; Region: sensory_box; TIGR00229 1167006009881 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009882 putative active site [active] 1167006009883 heme pocket [chemical binding]; other site 1167006009884 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006009885 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 1167006009886 dimer interface [polypeptide binding]; other site 1167006009887 phosphorylation site [posttranslational modification] 1167006009888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009889 ATP binding site [chemical binding]; other site 1167006009890 Mg2+ binding site [ion binding]; other site 1167006009891 G-X-G motif; other site 1167006009892 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1167006009893 PAS domain S-box; Region: sensory_box; TIGR00229 1167006009894 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009895 putative active site [active] 1167006009896 heme pocket [chemical binding]; other site 1167006009897 PAS fold; Region: PAS; pfam00989 1167006009898 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006009899 putative active site [active] 1167006009900 heme pocket [chemical binding]; other site 1167006009901 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006009902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006009903 active site 1167006009904 phosphorylation site [posttranslational modification] 1167006009905 intermolecular recognition site; other site 1167006009906 dimerization interface [polypeptide binding]; other site 1167006009907 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1167006009908 PAS domain; Region: PAS_9; pfam13426 1167006009909 putative active site [active] 1167006009910 heme pocket [chemical binding]; other site 1167006009911 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1167006009912 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 1167006009913 Walker A motif; other site 1167006009914 ATP binding site [chemical binding]; other site 1167006009915 Walker B motif; other site 1167006009916 arginine finger; other site 1167006009917 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006009918 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 1167006009919 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1167006009920 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1167006009921 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 1167006009922 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 1167006009923 Walker A motif; other site 1167006009924 ATP binding site [chemical binding]; other site 1167006009925 Walker B motif; other site 1167006009926 arginine finger; other site 1167006009927 Peptidase family M41; Region: Peptidase_M41; pfam01434 1167006009928 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 1167006009929 heme-binding residues [chemical binding]; other site 1167006009930 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006009931 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006009932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006009933 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1167006009934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1167006009935 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1167006009936 putative dimerization interface [polypeptide binding]; other site 1167006009937 amphi-Trp domain; Region: amphi-Trp; TIGR04354 1167006009938 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1167006009939 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1167006009940 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1167006009941 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1167006009942 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1167006009943 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1167006009944 Ion transport protein; Region: Ion_trans; pfam00520 1167006009945 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1167006009946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006009947 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 1167006009948 dimer interface [polypeptide binding]; other site 1167006009949 phosphorylation site [posttranslational modification] 1167006009950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006009951 ATP binding site [chemical binding]; other site 1167006009952 Mg2+ binding site [ion binding]; other site 1167006009953 G-X-G motif; other site 1167006009954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006009955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006009956 metal binding site [ion binding]; metal-binding site 1167006009957 active site 1167006009958 I-site; other site 1167006009959 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1167006009960 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 1167006009961 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1167006009962 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006009963 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006009964 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1167006009965 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006009966 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006009967 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 1167006009968 IMP binding site; other site 1167006009969 dimer interface [polypeptide binding]; other site 1167006009970 interdomain contacts; other site 1167006009971 partial ornithine binding site; other site 1167006009972 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1167006009973 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1167006009974 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1167006009975 catalytic site [active] 1167006009976 subunit interface [polypeptide binding]; other site 1167006009977 VanZ like family; Region: VanZ; pfam04892 1167006009978 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1167006009979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006009980 Tim44-like domain; Region: Tim44; pfam04280 1167006009981 AIR carboxylase; Region: AIRC; pfam00731 1167006009982 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1167006009983 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1167006009984 dimer interface [polypeptide binding]; other site 1167006009985 PYR/PP interface [polypeptide binding]; other site 1167006009986 TPP binding site [chemical binding]; other site 1167006009987 substrate binding site [chemical binding]; other site 1167006009988 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1167006009989 Domain of unknown function; Region: EKR; pfam10371 1167006009990 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 1167006009991 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1167006009992 TPP-binding site [chemical binding]; other site 1167006009993 dimer interface [polypeptide binding]; other site 1167006009994 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 1167006009995 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1167006009996 PYR/PP interface [polypeptide binding]; other site 1167006009997 TPP binding site [chemical binding]; other site 1167006009998 dimer interface [polypeptide binding]; other site 1167006009999 substrate binding site [chemical binding]; other site 1167006010000 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1167006010001 TPP-binding site; other site 1167006010002 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006010003 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 1167006010004 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1167006010005 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 1167006010006 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1167006010007 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1167006010008 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1167006010009 Staphylococcal nuclease homologues; Region: SNc; smart00318 1167006010010 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1167006010011 Catalytic site; other site 1167006010012 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006010013 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 1167006010014 ligand binding site [chemical binding]; other site 1167006010015 flexible hinge region; other site 1167006010016 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006010017 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 1167006010018 Walker A motif; other site 1167006010019 ATP binding site [chemical binding]; other site 1167006010020 Walker B motif; other site 1167006010021 arginine finger; other site 1167006010022 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1167006010023 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1167006010024 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1167006010025 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006010026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010027 active site 1167006010028 phosphorylation site [posttranslational modification] 1167006010029 intermolecular recognition site; other site 1167006010030 dimerization interface [polypeptide binding]; other site 1167006010031 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1167006010032 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1167006010033 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1167006010034 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1167006010035 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1167006010036 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1167006010037 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1167006010038 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1167006010039 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1167006010040 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1167006010041 FliG C-terminal domain; Region: FliG_C; pfam01706 1167006010042 Flagellar assembly protein FliH; Region: FliH; pfam02108 1167006010043 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1167006010044 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1167006010045 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 1167006010046 Walker A motif/ATP binding site; other site 1167006010047 Walker B motif; other site 1167006010048 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1167006010049 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1167006010050 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1167006010051 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1167006010052 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1167006010053 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1167006010054 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1167006010055 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1167006010056 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1167006010057 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1167006010058 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1167006010059 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1167006010060 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1167006010061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006010062 ligand binding site [chemical binding]; other site 1167006010063 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1167006010064 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 1167006010065 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1167006010066 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1167006010067 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 1167006010068 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1167006010069 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1167006010070 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1167006010071 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1167006010072 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1167006010073 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1167006010074 FHIPEP family; Region: FHIPEP; pfam00771 1167006010075 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1167006010076 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 1167006010077 septum site-determining protein MinD; Region: minD_bact; TIGR01968 1167006010078 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1167006010079 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1167006010080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1167006010081 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1167006010082 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 1167006010083 DNA binding residues [nucleotide binding] 1167006010084 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 1167006010085 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1167006010086 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1167006010087 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1167006010088 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1167006010089 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1167006010090 SAF-like; Region: SAF_2; pfam13144 1167006010091 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1167006010092 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1167006010093 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1167006010094 Flagellar L-ring protein; Region: FlgH; pfam02107 1167006010095 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1167006010096 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1167006010097 K+ potassium transporter; Region: K_trans; cl15781 1167006010098 Rod binding protein; Region: Rod-binding; pfam10135 1167006010099 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1167006010100 FlgN protein; Region: FlgN; cl09176 1167006010101 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 1167006010102 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1167006010103 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1167006010104 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1167006010105 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1167006010106 Global regulator protein family; Region: CsrA; pfam02599 1167006010107 flagellar assembly protein FliW; Provisional; Region: PRK13285 1167006010108 Flagellar protein FliS; Region: FliS; cl00654 1167006010109 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1167006010110 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1167006010111 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1167006010112 FlaG protein; Region: FlaG; pfam03646 1167006010113 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1167006010114 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1167006010115 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 1167006010116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1167006010117 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1167006010118 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1167006010119 ligand binding site; other site 1167006010120 tetramer interface; other site 1167006010121 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1167006010122 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1167006010123 active site 1167006010124 homodimer interface [polypeptide binding]; other site 1167006010125 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1167006010126 NeuB family; Region: NeuB; pfam03102 1167006010127 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1167006010128 NeuB binding interface [polypeptide binding]; other site 1167006010129 putative substrate binding site [chemical binding]; other site 1167006010130 PilZ domain; Region: PilZ; pfam07238 1167006010131 PilZ domain; Region: PilZ; pfam07238 1167006010132 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1167006010133 Predicted metalloprotease [General function prediction only]; Region: COG2321 1167006010134 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1167006010135 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1167006010136 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 1167006010137 interface (dimer of trimers) [polypeptide binding]; other site 1167006010138 Substrate-binding/catalytic site; other site 1167006010139 Zn-binding sites [ion binding]; other site 1167006010140 Domain of unknown function DUF21; Region: DUF21; pfam01595 1167006010141 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006010142 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 1167006010143 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1167006010144 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1167006010145 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 1167006010146 protein binding site [polypeptide binding]; other site 1167006010147 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1167006010148 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1167006010149 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 1167006010150 Divalent cation transporter; Region: MgtE; pfam01769 1167006010151 TPR repeat; Region: TPR_11; pfam13414 1167006010152 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 1167006010153 binding surface 1167006010154 TPR motif; other site 1167006010155 TPR repeat; Region: TPR_11; pfam13414 1167006010156 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 1167006010157 binding surface 1167006010158 TPR motif; other site 1167006010159 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1167006010160 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 1167006010161 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 1167006010162 S-adenosylmethionine binding site [chemical binding]; other site 1167006010163 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1167006010164 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1167006010165 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 1167006010166 dimerization interface [polypeptide binding]; other site 1167006010167 putative ATP binding site [chemical binding]; other site 1167006010168 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 1167006010169 MPT binding site; other site 1167006010170 trimer interface [polypeptide binding]; other site 1167006010171 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1167006010172 elongation factor G; Reviewed; Region: PRK12740 1167006010173 G1 box; other site 1167006010174 putative GEF interaction site [polypeptide binding]; other site 1167006010175 GTP/Mg2+ binding site [chemical binding]; other site 1167006010176 Switch I region; other site 1167006010177 G2 box; other site 1167006010178 G3 box; other site 1167006010179 Switch II region; other site 1167006010180 G4 box; other site 1167006010181 G5 box; other site 1167006010182 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 1167006010183 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 1167006010184 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 1167006010185 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1167006010186 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1167006010187 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1167006010188 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 1167006010189 ATP binding site [chemical binding]; other site 1167006010190 Mg++ binding site [ion binding]; other site 1167006010191 motif III; other site 1167006010192 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 1167006010193 nucleotide binding region [chemical binding]; other site 1167006010194 ATP-binding site [chemical binding]; other site 1167006010195 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1167006010196 RNA binding site [nucleotide binding]; other site 1167006010197 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1167006010198 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1167006010199 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 1167006010200 FMN binding site [chemical binding]; other site 1167006010201 active site 1167006010202 catalytic residues [active] 1167006010203 substrate binding site [chemical binding]; other site 1167006010204 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1167006010205 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 1167006010206 ligand binding site [chemical binding]; other site 1167006010207 flexible hinge region; other site 1167006010208 PilZ domain; Region: PilZ; pfam07238 1167006010209 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1167006010210 Sel1-like repeats; Region: SEL1; smart00671 1167006010211 Sel1 repeat; Region: Sel1; cl02723 1167006010212 Sel1-like repeats; Region: SEL1; smart00671 1167006010213 succinic semialdehyde dehydrogenase; Region: PLN02278 1167006010214 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1167006010215 tetramerization interface [polypeptide binding]; other site 1167006010216 NAD(P) binding site [chemical binding]; other site 1167006010217 catalytic residues [active] 1167006010218 S4 domain; Region: S4_2; pfam13275 1167006010219 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006010220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010221 active site 1167006010222 phosphorylation site [posttranslational modification] 1167006010223 intermolecular recognition site; other site 1167006010224 dimerization interface [polypeptide binding]; other site 1167006010225 GAF domain; Region: GAF; pfam01590 1167006010226 GAF domain; Region: GAF_2; pfam13185 1167006010227 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1167006010228 cyclase homology domain; Region: CHD; cd07302 1167006010229 nucleotidyl binding site; other site 1167006010230 metal binding site [ion binding]; metal-binding site 1167006010231 dimer interface [polypeptide binding]; other site 1167006010232 recombination factor protein RarA; Reviewed; Region: PRK13342 1167006010233 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 1167006010234 Walker A motif; other site 1167006010235 ATP binding site [chemical binding]; other site 1167006010236 Walker B motif; other site 1167006010237 arginine finger; other site 1167006010238 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1167006010239 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006010240 active site 1167006010241 metal binding site [ion binding]; metal-binding site 1167006010242 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 1167006010243 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1167006010244 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 1167006010245 DHHA2 domain; Region: DHHA2; pfam02833 1167006010246 SprA-related family; Region: SprA-related; pfam12118 1167006010247 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1167006010248 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1167006010249 active site 1167006010250 metal binding site [ion binding]; metal-binding site 1167006010251 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1167006010252 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 1167006010253 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1167006010254 catalytic residue [active] 1167006010255 PilZ domain; Region: PilZ; pfam07238 1167006010256 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006010257 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006010258 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006010259 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006010260 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1167006010261 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 1167006010262 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 1167006010263 molybdopterin cofactor binding site; other site 1167006010264 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 1167006010265 molybdopterin cofactor binding site; other site 1167006010266 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1167006010267 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 1167006010268 catalytic loop [active] 1167006010269 iron binding site [ion binding]; other site 1167006010270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006010271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006010272 4Fe-4S binding domain; Region: Fer4; pfam00037 1167006010273 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 1167006010274 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 1167006010275 Putative Fe-S cluster; Region: FeS; pfam04060 1167006010276 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 1167006010277 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 1167006010278 CODH interaction site; other site 1167006010279 metal cluster binding site [ion binding]; other site 1167006010280 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 1167006010281 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 1167006010282 FAD binding site [chemical binding]; other site 1167006010283 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 1167006010284 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 1167006010285 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 1167006010286 ACS interaction site; other site 1167006010287 CODH interaction site; other site 1167006010288 metal cluster binding site [ion binding]; other site 1167006010289 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 1167006010290 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1167006010291 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1167006010292 homodimer interface [polypeptide binding]; other site 1167006010293 NADP binding site [chemical binding]; other site 1167006010294 substrate binding site [chemical binding]; other site 1167006010295 malate dehydrogenase; Provisional; Region: PRK13529 1167006010296 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1167006010297 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1167006010298 NAD(P) binding site [chemical binding]; other site 1167006010299 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1167006010300 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 1167006010301 FeS/SAM binding site; other site 1167006010302 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1167006010303 HDOD domain; Region: HDOD; pfam08668 1167006010304 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006010305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006010306 metal binding site [ion binding]; metal-binding site 1167006010307 active site 1167006010308 I-site; other site 1167006010309 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 1167006010310 primosomal protein N' Region: priA; TIGR00595 1167006010311 ATP binding site [chemical binding]; other site 1167006010312 putative Mg++ binding site [ion binding]; other site 1167006010313 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1167006010314 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1167006010315 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 1167006010316 ATP binding site [chemical binding]; other site 1167006010317 putative Mg++ binding site [ion binding]; other site 1167006010318 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 1167006010319 nucleotide binding region [chemical binding]; other site 1167006010320 ATP-binding site [chemical binding]; other site 1167006010321 Helicase associated domain (HA2); Region: HA2; pfam04408 1167006010322 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1167006010323 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1167006010324 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1167006010325 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1167006010326 putative substrate binding pocket [chemical binding]; other site 1167006010327 dimer interface [polypeptide binding]; other site 1167006010328 phosphate binding site [ion binding]; other site 1167006010329 malate dehydrogenase; Reviewed; Region: PRK06223 1167006010330 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1167006010331 NAD(P) binding site [chemical binding]; other site 1167006010332 dimer interface [polypeptide binding]; other site 1167006010333 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1167006010334 substrate binding site [chemical binding]; other site 1167006010335 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1167006010336 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1167006010337 Ligand binding site; other site 1167006010338 oligomer interface; other site 1167006010339 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 1167006010340 S-adenosylmethionine binding site [chemical binding]; other site 1167006010341 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1167006010342 synthetase active site [active] 1167006010343 metal binding site [ion binding]; metal-binding site 1167006010344 NTP binding site [chemical binding]; other site 1167006010345 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1167006010346 Flagellin N-methylase; Region: FliB; cl00497 1167006010347 hypothetical protein; Validated; Region: PRK00228 1167006010348 glycogen branching enzyme; Provisional; Region: PRK05402 1167006010349 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1167006010350 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1167006010351 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1167006010352 active site 1167006010353 catalytic site [active] 1167006010354 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1167006010355 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1167006010356 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006010357 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010358 putative active site [active] 1167006010359 heme pocket [chemical binding]; other site 1167006010360 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 1167006010361 dimer interface [polypeptide binding]; other site 1167006010362 phosphorylation site [posttranslational modification] 1167006010363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010364 ATP binding site [chemical binding]; other site 1167006010365 Mg2+ binding site [ion binding]; other site 1167006010366 G-X-G motif; other site 1167006010367 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 1167006010368 DNA-binding site [nucleotide binding]; DNA binding site 1167006010369 RNA-binding motif; other site 1167006010370 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 1167006010371 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1167006010372 shikimate kinase; Reviewed; Region: aroK; PRK00131 1167006010373 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 1167006010374 ADP binding site [chemical binding]; other site 1167006010375 magnesium binding site [ion binding]; other site 1167006010376 putative shikimate binding site; other site 1167006010377 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 1167006010378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1167006010379 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 1167006010380 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 1167006010381 hypothetical protein; Provisional; Region: PRK01617 1167006010382 SEC-C motif; Region: SEC-C; pfam02810 1167006010383 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 1167006010384 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1167006010385 active site 1167006010386 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1167006010387 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1167006010388 DsrE/DsrF-like family; Region: DrsE; cl00672 1167006010389 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 1167006010390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006010391 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010392 ATP binding site [chemical binding]; other site 1167006010393 Mg2+ binding site [ion binding]; other site 1167006010394 G-X-G motif; other site 1167006010395 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1167006010396 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1167006010397 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 1167006010398 Ligand Binding Site [chemical binding]; other site 1167006010399 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1167006010400 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010401 putative active site [active] 1167006010402 heme pocket [chemical binding]; other site 1167006010403 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 1167006010404 dimer interface [polypeptide binding]; other site 1167006010405 phosphorylation site [posttranslational modification] 1167006010406 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010407 ATP binding site [chemical binding]; other site 1167006010408 Mg2+ binding site [ion binding]; other site 1167006010409 G-X-G motif; other site 1167006010410 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1167006010411 PAS fold; Region: PAS_3; pfam08447 1167006010412 putative active site [active] 1167006010413 heme pocket [chemical binding]; other site 1167006010414 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006010415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006010416 metal binding site [ion binding]; metal-binding site 1167006010417 active site 1167006010418 I-site; other site 1167006010419 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006010420 Zn2+ binding site [ion binding]; other site 1167006010421 Mg2+ binding site [ion binding]; other site 1167006010422 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1167006010423 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1167006010424 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 1167006010425 Cl- selectivity filter; other site 1167006010426 Cl- binding residues [ion binding]; other site 1167006010427 pore gating glutamate residue; other site 1167006010428 dimer interface [polypeptide binding]; other site 1167006010429 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006010430 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 1167006010431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006010432 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1167006010433 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006010434 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 1167006010435 substrate binding pocket [chemical binding]; other site 1167006010436 membrane-bound complex binding site; other site 1167006010437 hinge residues; other site 1167006010438 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1167006010439 catalytic motif [active] 1167006010440 Zn binding site [ion binding]; other site 1167006010441 thiamine monophosphate kinase; Provisional; Region: PRK05731 1167006010442 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 1167006010443 ATP binding site [chemical binding]; other site 1167006010444 dimerization interface [polypeptide binding]; other site 1167006010445 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 1167006010446 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1167006010447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010448 active site 1167006010449 phosphorylation site [posttranslational modification] 1167006010450 intermolecular recognition site; other site 1167006010451 dimerization interface [polypeptide binding]; other site 1167006010452 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006010453 Zn2+ binding site [ion binding]; other site 1167006010454 Mg2+ binding site [ion binding]; other site 1167006010455 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006010456 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010457 putative active site [active] 1167006010458 heme pocket [chemical binding]; other site 1167006010459 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 1167006010460 dimer interface [polypeptide binding]; other site 1167006010461 phosphorylation site [posttranslational modification] 1167006010462 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010463 ATP binding site [chemical binding]; other site 1167006010464 Mg2+ binding site [ion binding]; other site 1167006010465 G-X-G motif; other site 1167006010466 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006010467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010468 active site 1167006010469 phosphorylation site [posttranslational modification] 1167006010470 intermolecular recognition site; other site 1167006010471 dimerization interface [polypeptide binding]; other site 1167006010472 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006010473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010474 active site 1167006010475 phosphorylation site [posttranslational modification] 1167006010476 intermolecular recognition site; other site 1167006010477 dimerization interface [polypeptide binding]; other site 1167006010478 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 1167006010479 nucleophilic elbow; other site 1167006010480 catalytic triad; other site 1167006010481 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1167006010482 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1167006010483 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 1167006010484 nucleophilic elbow; other site 1167006010485 catalytic triad; other site 1167006010486 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1167006010487 Transposase IS200 like; Region: Y1_Tnp; cl00848 1167006010488 TIGR03032 family protein; Region: TIGR03032 1167006010489 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1167006010490 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1167006010491 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 1167006010492 Walker A motif; other site 1167006010493 ATP binding site [chemical binding]; other site 1167006010494 Walker B motif; other site 1167006010495 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1167006010496 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1167006010497 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 1167006010498 S-adenosylmethionine binding site [chemical binding]; other site 1167006010499 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1167006010500 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1167006010501 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1167006010502 active site 1167006010503 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1167006010504 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 1167006010505 FeS/SAM binding site; other site 1167006010506 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 1167006010507 putative MPT binding site; other site 1167006010508 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1167006010509 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1167006010510 active site 1167006010511 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1167006010512 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1167006010513 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1167006010514 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1167006010515 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1167006010516 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1167006010517 Walker A/P-loop; other site 1167006010518 ATP binding site [chemical binding]; other site 1167006010519 Q-loop/lid; other site 1167006010520 ABC transporter signature motif; other site 1167006010521 Walker B; other site 1167006010522 D-loop; other site 1167006010523 H-loop/switch region; other site 1167006010524 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1167006010525 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1167006010526 Walker A/P-loop; other site 1167006010527 ATP binding site [chemical binding]; other site 1167006010528 Q-loop/lid; other site 1167006010529 ABC transporter signature motif; other site 1167006010530 Walker B; other site 1167006010531 D-loop; other site 1167006010532 H-loop/switch region; other site 1167006010533 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1167006010534 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 1167006010535 TM-ABC transporter signature motif; other site 1167006010536 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006010537 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 1167006010538 TM-ABC transporter signature motif; other site 1167006010539 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1167006010540 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 1167006010541 dimerization interface [polypeptide binding]; other site 1167006010542 ligand binding site [chemical binding]; other site 1167006010543 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1167006010544 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1167006010545 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1167006010546 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1167006010547 PAS domain; Region: PAS; smart00091 1167006010548 PAS fold; Region: PAS_4; pfam08448 1167006010549 putative active site [active] 1167006010550 heme pocket [chemical binding]; other site 1167006010551 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1167006010552 GAF domain; Region: GAF_3; pfam13492 1167006010553 PAS fold; Region: PAS_3; pfam08447 1167006010554 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010555 heme pocket [chemical binding]; other site 1167006010556 putative active site [active] 1167006010557 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010558 PAS domain; Region: PAS_9; pfam13426 1167006010559 putative active site [active] 1167006010560 heme pocket [chemical binding]; other site 1167006010561 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006010562 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006010563 metal binding site [ion binding]; metal-binding site 1167006010564 active site 1167006010565 I-site; other site 1167006010566 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 1167006010567 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1167006010568 Transposase; Region: HTH_Tnp_1; cl17663 1167006010569 imidazole glycerol phosphate synthase hisHF; Region: PLN02617 1167006010570 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1167006010571 putative active site [active] 1167006010572 oxyanion strand; other site 1167006010573 catalytic triad [active] 1167006010574 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 1167006010575 substrate binding site [chemical binding]; other site 1167006010576 glutamase interaction surface [polypeptide binding]; other site 1167006010577 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1167006010578 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1167006010579 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1167006010580 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1167006010581 Walker A motif; other site 1167006010582 homodimer interface [polypeptide binding]; other site 1167006010583 ATP binding site [chemical binding]; other site 1167006010584 hydroxycobalamin binding site [chemical binding]; other site 1167006010585 Walker B motif; other site 1167006010586 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1167006010587 active site 1167006010588 SAM binding site [chemical binding]; other site 1167006010589 homodimer interface [polypeptide binding]; other site 1167006010590 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1167006010591 active site 1167006010592 SAM binding site [chemical binding]; other site 1167006010593 putative homodimer interface [polypeptide binding]; other site 1167006010594 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1167006010595 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 1167006010596 S-adenosylmethionine binding site [chemical binding]; other site 1167006010597 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1167006010598 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1167006010599 RNA/DNA hybrid binding site [nucleotide binding]; other site 1167006010600 active site 1167006010601 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 1167006010602 active site 1167006010603 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 1167006010604 S-adenosylmethionine binding site [chemical binding]; other site 1167006010605 hybrid cluster protein; Provisional; Region: PRK05290 1167006010606 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 1167006010607 ACS interaction site; other site 1167006010608 CODH interaction site; other site 1167006010609 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1167006010610 hybrid metal cluster; other site 1167006010611 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1167006010612 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 1167006010613 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 1167006010614 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006010615 substrate binding pocket [chemical binding]; other site 1167006010616 membrane-bound complex binding site; other site 1167006010617 hinge residues; other site 1167006010618 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 1167006010619 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1167006010620 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1167006010621 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1167006010622 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 1167006010623 motif II; other site 1167006010624 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1167006010625 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1167006010626 putative Iron-sulfur protein interface [polypeptide binding]; other site 1167006010627 proximal heme binding site [chemical binding]; other site 1167006010628 distal heme binding site [chemical binding]; other site 1167006010629 putative dimer interface [polypeptide binding]; other site 1167006010630 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1167006010631 L-aspartate oxidase; Provisional; Region: PRK06175 1167006010632 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1167006010633 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1167006010634 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1167006010635 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 1167006010636 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1167006010637 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1167006010638 aminopeptidase N; Provisional; Region: pepN; PRK14015 1167006010639 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1167006010640 active site 1167006010641 Zn binding site [ion binding]; other site 1167006010642 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 1167006010643 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 1167006010644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006010645 homodimer interface [polypeptide binding]; other site 1167006010646 catalytic residue [active] 1167006010647 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1167006010648 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1167006010649 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1167006010650 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1167006010651 active site 1167006010652 NAD binding site [chemical binding]; other site 1167006010653 metal binding site [ion binding]; metal-binding site 1167006010654 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1167006010655 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1167006010656 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 1167006010657 membrane-bound complex binding site; other site 1167006010658 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1167006010659 DctM-like transporters; Region: DctM; pfam06808 1167006010660 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1167006010661 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1167006010662 HPP family; Region: HPP; pfam04982 1167006010663 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 1167006010664 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006010665 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 1167006010666 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1167006010667 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1167006010668 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1167006010669 4Fe-4S binding domain; Region: Fer4; cl02805 1167006010670 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1167006010671 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 1167006010672 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 1167006010673 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1167006010674 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 1167006010675 [4Fe-4S] binding site [ion binding]; other site 1167006010676 molybdopterin cofactor binding site; other site 1167006010677 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 1167006010678 molybdopterin cofactor binding site; other site 1167006010679 Helix-turn-helix domain; Region: HTH_17; pfam12728 1167006010680 PBP superfamily domain; Region: PBP_like; pfam12727 1167006010681 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 1167006010682 PBP superfamily domain; Region: PBP_like_2; pfam12849 1167006010683 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 1167006010684 dimer interface [polypeptide binding]; other site 1167006010685 conserved gate region; other site 1167006010686 putative PBP binding loops; other site 1167006010687 ABC-ATPase subunit interface; other site 1167006010688 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1167006010689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006010690 Walker A/P-loop; other site 1167006010691 ATP binding site [chemical binding]; other site 1167006010692 Q-loop/lid; other site 1167006010693 ABC transporter signature motif; other site 1167006010694 Walker B; other site 1167006010695 D-loop; other site 1167006010696 H-loop/switch region; other site 1167006010697 TOBE domain; Region: TOBE_2; pfam08402 1167006010698 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 1167006010699 homodimer interface [polypeptide binding]; other site 1167006010700 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1167006010701 active site pocket [active] 1167006010702 AAA domain; Region: AAA_32; pfam13654 1167006010703 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1167006010704 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1167006010705 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]; Region: NMD3; COG1499 1167006010706 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006010707 B12 binding site [chemical binding]; other site 1167006010708 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006010709 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1167006010710 RNA methyltransferase, RsmE family; Region: TIGR00046 1167006010711 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1167006010712 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006010713 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006010714 Walker A/P-loop; other site 1167006010715 ATP binding site [chemical binding]; other site 1167006010716 Q-loop/lid; other site 1167006010717 ABC transporter signature motif; other site 1167006010718 Walker B; other site 1167006010719 D-loop; other site 1167006010720 H-loop/switch region; other site 1167006010721 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1167006010722 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006010723 FtsX-like permease family; Region: FtsX; pfam02687 1167006010724 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1167006010725 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006010726 FtsX-like permease family; Region: FtsX; pfam02687 1167006010727 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1167006010728 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1167006010729 PAS domain S-box; Region: sensory_box; TIGR00229 1167006010730 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010731 putative active site [active] 1167006010732 heme pocket [chemical binding]; other site 1167006010733 PAS fold; Region: PAS_4; pfam08448 1167006010734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006010735 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 1167006010736 dimer interface [polypeptide binding]; other site 1167006010737 phosphorylation site [posttranslational modification] 1167006010738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010739 ATP binding site [chemical binding]; other site 1167006010740 Mg2+ binding site [ion binding]; other site 1167006010741 G-X-G motif; other site 1167006010742 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006010743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010744 active site 1167006010745 phosphorylation site [posttranslational modification] 1167006010746 intermolecular recognition site; other site 1167006010747 dimerization interface [polypeptide binding]; other site 1167006010748 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1167006010749 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1167006010750 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1167006010751 Competence protein; Region: Competence; pfam03772 1167006010752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1167006010753 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1167006010754 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 1167006010755 putative substrate translocation pore; other site 1167006010756 H+ Antiporter protein; Region: 2A0121; TIGR00900 1167006010757 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1167006010758 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1167006010759 Walker A motif; other site 1167006010760 ATP binding site [chemical binding]; other site 1167006010761 Walker B motif; other site 1167006010762 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1167006010763 TPR repeat; Region: TPR_11; pfam13414 1167006010764 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 1167006010765 TPR motif; other site 1167006010766 binding surface 1167006010767 TPR repeat; Region: TPR_11; pfam13414 1167006010768 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 1167006010769 TPR repeat; Region: TPR_11; pfam13414 1167006010770 binding surface 1167006010771 TPR motif; other site 1167006010772 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 1167006010773 TPR motif; other site 1167006010774 binding surface 1167006010775 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1167006010776 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1167006010777 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1167006010778 catalytic residue [active] 1167006010779 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 1167006010780 salt bridge; other site 1167006010781 non-specific DNA binding site [nucleotide binding]; other site 1167006010782 sequence-specific DNA binding site [nucleotide binding]; other site 1167006010783 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006010784 active site 1167006010785 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1167006010786 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1167006010787 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 1167006010788 Walker A motif; other site 1167006010789 ATP binding site [chemical binding]; other site 1167006010790 Walker B motif; other site 1167006010791 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1167006010792 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1167006010793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006010794 Integrase core domain; Region: rve; pfam00665 1167006010795 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1167006010796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1167006010797 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1167006010798 Predicted methyltransferases [General function prediction only]; Region: COG0313 1167006010799 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1167006010800 putative SAM binding site [chemical binding]; other site 1167006010801 putative homodimer interface [polypeptide binding]; other site 1167006010802 FliW protein; Region: FliW; cl00740 1167006010803 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1167006010804 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 1167006010805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006010806 catalytic residue [active] 1167006010807 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 1167006010808 substrate binding site [chemical binding]; other site 1167006010809 active site 1167006010810 catalytic residues [active] 1167006010811 heterodimer interface [polypeptide binding]; other site 1167006010812 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006010813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010814 intermolecular recognition site; other site 1167006010815 active site 1167006010816 dimerization interface [polypeptide binding]; other site 1167006010817 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 1167006010818 Walker A motif; other site 1167006010819 ATP binding site [chemical binding]; other site 1167006010820 Walker B motif; other site 1167006010821 arginine finger; other site 1167006010822 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006010823 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 1167006010824 nucleoside/Zn binding site; other site 1167006010825 dimer interface [polypeptide binding]; other site 1167006010826 catalytic motif [active] 1167006010827 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1167006010828 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 1167006010829 substrate binding pocket [chemical binding]; other site 1167006010830 membrane-bound complex binding site; other site 1167006010831 hinge residues; other site 1167006010832 histidine kinase; Provisional; Region: PRK13557 1167006010833 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006010834 putative active site [active] 1167006010835 heme pocket [chemical binding]; other site 1167006010836 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 1167006010837 dimer interface [polypeptide binding]; other site 1167006010838 phosphorylation site [posttranslational modification] 1167006010839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006010840 ATP binding site [chemical binding]; other site 1167006010841 Mg2+ binding site [ion binding]; other site 1167006010842 G-X-G motif; other site 1167006010843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006010844 active site 1167006010845 phosphorylation site [posttranslational modification] 1167006010846 intermolecular recognition site; other site 1167006010847 dimerization interface [polypeptide binding]; other site 1167006010848 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1167006010849 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 1167006010850 Walker A motif; other site 1167006010851 ATP binding site [chemical binding]; other site 1167006010852 Walker B motif; other site 1167006010853 arginine finger; other site 1167006010854 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1167006010855 hypothetical protein; Validated; Region: PRK00153 1167006010856 recombination protein RecR; Reviewed; Region: recR; PRK00076 1167006010857 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1167006010858 helix-hairpin-helix signature motif; other site 1167006010859 RecR protein; Region: RecR; pfam02132 1167006010860 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 1167006010861 putative active site [active] 1167006010862 putative metal-binding site [ion binding]; other site 1167006010863 tetramer interface [polypeptide binding]; other site 1167006010864 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1167006010865 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 1167006010866 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1167006010867 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 1167006010868 active site 1167006010869 dimer interface [polypeptide binding]; other site 1167006010870 motif 1; other site 1167006010871 motif 2; other site 1167006010872 motif 3; other site 1167006010873 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 1167006010874 anticodon binding site; other site 1167006010875 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1167006010876 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1167006010877 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1167006010878 23S rRNA binding site [nucleotide binding]; other site 1167006010879 L21 binding site [polypeptide binding]; other site 1167006010880 L13 binding site [polypeptide binding]; other site 1167006010881 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1167006010882 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1167006010883 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 1167006010884 dimer interface [polypeptide binding]; other site 1167006010885 motif 1; other site 1167006010886 active site 1167006010887 motif 2; other site 1167006010888 motif 3; other site 1167006010889 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1167006010890 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 1167006010891 putative tRNA-binding site [nucleotide binding]; other site 1167006010892 B3/4 domain; Region: B3_4; pfam03483 1167006010893 tRNA synthetase B5 domain; Region: B5; pfam03484 1167006010894 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 1167006010895 dimer interface [polypeptide binding]; other site 1167006010896 motif 1; other site 1167006010897 motif 3; other site 1167006010898 motif 2; other site 1167006010899 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1167006010900 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 1167006010901 IHF - DNA interface [nucleotide binding]; other site 1167006010902 IHF dimer interface [polypeptide binding]; other site 1167006010903 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1167006010904 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1167006010905 DNA binding residues [nucleotide binding] 1167006010906 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 1167006010907 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1167006010908 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1167006010909 P-loop; other site 1167006010910 signal recognition particle protein; Provisional; Region: PRK10867 1167006010911 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1167006010912 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 1167006010913 P loop; other site 1167006010914 GTP binding site [chemical binding]; other site 1167006010915 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1167006010916 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1167006010917 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1167006010918 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 1167006010919 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1167006010920 RimM N-terminal domain; Region: RimM; pfam01782 1167006010921 PRC-barrel domain; Region: PRC; pfam05239 1167006010922 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1167006010923 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 1167006010924 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1167006010925 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1167006010926 RNA/DNA hybrid binding site [nucleotide binding]; other site 1167006010927 active site 1167006010928 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1167006010929 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1167006010930 thymidylate kinase; Validated; Region: tmk; PRK00698 1167006010931 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 1167006010932 TMP-binding site; other site 1167006010933 ATP-binding site [chemical binding]; other site 1167006010934 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 1167006010935 TPR motif; other site 1167006010936 binding surface 1167006010937 TPR repeat; Region: TPR_11; pfam13414 1167006010938 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 1167006010939 binding surface 1167006010940 TPR motif; other site 1167006010941 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1167006010942 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 1167006010943 binding surface 1167006010944 TPR motif; other site 1167006010945 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1167006010946 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 1167006010947 binding surface 1167006010948 TPR motif; other site 1167006010949 TPR repeat; Region: TPR_11; pfam13414 1167006010950 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 1167006010951 binding surface 1167006010952 TPR repeat; Region: TPR_11; pfam13414 1167006010953 TPR motif; other site 1167006010954 TPR repeat; Region: TPR_11; pfam13414 1167006010955 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 1167006010956 AMIN domain; Region: AMIN; pfam11741 1167006010957 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1167006010958 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006010959 B12 binding site [chemical binding]; other site 1167006010960 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 1167006010961 FeS/SAM binding site; other site 1167006010962 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1167006010963 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1167006010964 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1167006010965 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 1167006010966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006010967 catalytic residue [active] 1167006010968 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1167006010969 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1167006010970 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1167006010971 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006010972 active site residue [active] 1167006010973 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1167006010974 active site residue [active] 1167006010975 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 1167006010976 active site residue [active] 1167006010977 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1167006010978 exonuclease subunit SbcD; Provisional; Region: PRK10966 1167006010979 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1167006010980 active site 1167006010981 metal binding site [ion binding]; metal-binding site 1167006010982 DNA binding site [nucleotide binding] 1167006010983 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1167006010984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006010985 AAA domain; Region: AAA_23; pfam13476 1167006010986 Walker A/P-loop; other site 1167006010987 ATP binding site [chemical binding]; other site 1167006010988 Q-loop/lid; other site 1167006010989 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1167006010990 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1167006010991 ABC transporter signature motif; other site 1167006010992 Walker B; other site 1167006010993 D-loop; other site 1167006010994 H-loop/switch region; other site 1167006010995 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1167006010996 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 1167006010997 P-loop; other site 1167006010998 Magnesium ion binding site [ion binding]; other site 1167006010999 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 1167006011000 Magnesium ion binding site [ion binding]; other site 1167006011001 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1167006011002 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1167006011003 Chain length determinant protein; Region: Wzz; cl15801 1167006011004 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 1167006011005 non-specific DNA binding site [nucleotide binding]; other site 1167006011006 salt bridge; other site 1167006011007 sequence-specific DNA binding site [nucleotide binding]; other site 1167006011008 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1167006011009 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1167006011010 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1167006011011 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 1167006011012 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 1167006011013 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1167006011014 DXD motif; other site 1167006011015 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1167006011016 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1167006011017 Probable Catalytic site; other site 1167006011018 metal-binding site 1167006011019 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1167006011020 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 1167006011021 active site 1167006011022 catalytic triad [active] 1167006011023 oxyanion hole [active] 1167006011024 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 1167006011025 trimer interface [polypeptide binding]; other site 1167006011026 active site 1167006011027 substrate binding site [chemical binding]; other site 1167006011028 CoA binding site [chemical binding]; other site 1167006011029 Right handed beta helix region; Region: Beta_helix; pfam13229 1167006011030 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1167006011031 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 1167006011032 active site 1167006011033 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1167006011034 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1167006011035 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1167006011036 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1167006011037 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 1167006011038 active site 1167006011039 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 1167006011040 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1167006011041 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1167006011042 CoA-binding domain; Region: CoA_binding_3; pfam13727 1167006011043 CoA binding domain; Region: CoA_binding; smart00881 1167006011044 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1167006011045 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1167006011046 active site 1167006011047 NTP binding site [chemical binding]; other site 1167006011048 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1167006011049 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1167006011050 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1167006011051 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1167006011052 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1167006011053 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1167006011054 Beta-Casp domain; Region: Beta-Casp; smart01027 1167006011055 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1167006011056 UDP-glucose 4-epimerase; Region: PLN02240 1167006011057 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1167006011058 NAD binding site [chemical binding]; other site 1167006011059 homodimer interface [polypeptide binding]; other site 1167006011060 active site 1167006011061 substrate binding site [chemical binding]; other site 1167006011062 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1167006011063 SLBB domain; Region: SLBB; pfam10531 1167006011064 SLBB domain; Region: SLBB; pfam10531 1167006011065 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1167006011066 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 1167006011067 binding surface 1167006011068 TPR motif; other site 1167006011069 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 1167006011070 binding surface 1167006011071 TPR motif; other site 1167006011072 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 1167006011073 binding surface 1167006011074 TPR motif; other site 1167006011075 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 1167006011076 binding surface 1167006011077 TPR motif; other site 1167006011078 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 1167006011079 TPR motif; other site 1167006011080 binding surface 1167006011081 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 1167006011082 binding surface 1167006011083 TPR motif; other site 1167006011084 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 1167006011085 TPR motif; other site 1167006011086 binding surface 1167006011087 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 1167006011088 binding surface 1167006011089 TPR motif; other site 1167006011090 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 1167006011091 binding surface 1167006011092 TPR motif; other site 1167006011093 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1167006011094 AAA domain; Region: AAA_26; pfam13500 1167006011095 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1167006011096 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 1167006011097 S-adenosylmethionine binding site [chemical binding]; other site 1167006011098 Protein of unknown function (DUF452); Region: DUF452; cl01062 1167006011099 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1167006011100 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 1167006011101 substrate-cofactor binding pocket; other site 1167006011102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011103 catalytic residue [active] 1167006011104 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1167006011105 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 1167006011106 inhibitor-cofactor binding pocket; inhibition site 1167006011107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011108 catalytic residue [active] 1167006011109 biotin synthase; Region: bioB; TIGR00433 1167006011110 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 1167006011111 FeS/SAM binding site; other site 1167006011112 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1167006011113 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1167006011114 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1167006011115 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1167006011116 lipoprotein signal peptidase; Provisional; Region: PRK14787 1167006011117 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1167006011118 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1167006011119 active site 1167006011120 HIGH motif; other site 1167006011121 nucleotide binding site [chemical binding]; other site 1167006011122 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1167006011123 active site 1167006011124 KMSKS motif; other site 1167006011125 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1167006011126 tRNA binding surface [nucleotide binding]; other site 1167006011127 anticodon binding site; other site 1167006011128 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1167006011129 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 1167006011130 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1167006011131 P-loop; other site 1167006011132 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 1167006011133 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1167006011134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006011135 Walker A/P-loop; other site 1167006011136 ATP binding site [chemical binding]; other site 1167006011137 Q-loop/lid; other site 1167006011138 ABC transporter signature motif; other site 1167006011139 Walker B; other site 1167006011140 D-loop; other site 1167006011141 H-loop/switch region; other site 1167006011142 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1167006011143 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1167006011144 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1167006011145 Peptidase family M23; Region: Peptidase_M23; pfam01551 1167006011146 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1167006011147 C-terminal peptidase (prc); Region: prc; TIGR00225 1167006011148 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 1167006011149 protein binding site [polypeptide binding]; other site 1167006011150 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1167006011151 Catalytic dyad [active] 1167006011152 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 1167006011153 binding surface 1167006011154 TPR motif; other site 1167006011155 TPR repeat; Region: TPR_11; pfam13414 1167006011156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1167006011157 ligand binding site [chemical binding]; other site 1167006011158 GTPase Era; Reviewed; Region: era; PRK00089 1167006011159 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1167006011160 G1 box; other site 1167006011161 GTP/Mg2+ binding site [chemical binding]; other site 1167006011162 Switch I region; other site 1167006011163 G2 box; other site 1167006011164 Switch II region; other site 1167006011165 G3 box; other site 1167006011166 G4 box; other site 1167006011167 G5 box; other site 1167006011168 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1167006011169 RNB domain; Region: RNB; pfam00773 1167006011170 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1167006011171 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1167006011172 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1167006011173 NAD binding site [chemical binding]; other site 1167006011174 substrate binding site [chemical binding]; other site 1167006011175 homodimer interface [polypeptide binding]; other site 1167006011176 active site 1167006011177 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1167006011178 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1167006011179 G1 box; other site 1167006011180 putative GEF interaction site [polypeptide binding]; other site 1167006011181 GTP/Mg2+ binding site [chemical binding]; other site 1167006011182 Switch I region; other site 1167006011183 G2 box; other site 1167006011184 G3 box; other site 1167006011185 Switch II region; other site 1167006011186 G4 box; other site 1167006011187 G5 box; other site 1167006011188 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 1167006011189 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1167006011190 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1167006011191 DNA binding residues [nucleotide binding] 1167006011192 Uncharacterized conserved protein [Function unknown]; Region: COG1433 1167006011193 Sodium Bile acid symporter family; Region: SBF; cl17470 1167006011194 Domain of unknown function DUF302; Region: DUF302; cl01364 1167006011195 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1167006011196 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1167006011197 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 1167006011198 dimerization interface [polypeptide binding]; other site 1167006011199 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006011200 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006011201 putative active site [active] 1167006011202 heme pocket [chemical binding]; other site 1167006011203 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 1167006011204 dimer interface [polypeptide binding]; other site 1167006011205 phosphorylation site [posttranslational modification] 1167006011206 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011207 ATP binding site [chemical binding]; other site 1167006011208 Mg2+ binding site [ion binding]; other site 1167006011209 G-X-G motif; other site 1167006011210 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006011211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011212 active site 1167006011213 phosphorylation site [posttranslational modification] 1167006011214 intermolecular recognition site; other site 1167006011215 dimerization interface [polypeptide binding]; other site 1167006011216 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 1167006011217 Walker A motif; other site 1167006011218 ATP binding site [chemical binding]; other site 1167006011219 Walker B motif; other site 1167006011220 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006011221 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1167006011222 dimer interface [polypeptide binding]; other site 1167006011223 active site 1167006011224 Schiff base residues; other site 1167006011225 Yqey-like protein; Region: YqeY; cl17540 1167006011226 Predicted integral membrane protein [Function unknown]; Region: COG5652 1167006011227 SEC-C motif; Region: SEC-C; pfam02810 1167006011228 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 1167006011229 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1167006011230 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1167006011231 active site 1167006011232 dimer interface [polypeptide binding]; other site 1167006011233 effector binding site; other site 1167006011234 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1167006011235 TSCPD domain; Region: TSCPD; cl14834 1167006011236 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1167006011237 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 1167006011238 homodimer interface [polypeptide binding]; other site 1167006011239 substrate-cofactor binding pocket; other site 1167006011240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011241 catalytic residue [active] 1167006011242 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1167006011243 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1167006011244 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1167006011245 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 1167006011246 S-adenosylmethionine binding site [chemical binding]; other site 1167006011247 MoxR-like ATPases [General function prediction only]; Region: COG0714 1167006011248 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 1167006011249 Walker A motif; other site 1167006011250 ATP binding site [chemical binding]; other site 1167006011251 Walker B motif; other site 1167006011252 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1167006011253 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 1167006011254 metal ion-dependent adhesion site (MIDAS); other site 1167006011255 Cell division inhibitor SulA; Region: SulA; cl01880 1167006011256 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1167006011257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1167006011258 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1167006011259 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1167006011260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1167006011261 Peptidase M15; Region: Peptidase_M15_3; cl01194 1167006011262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1167006011263 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011264 ATP binding site [chemical binding]; other site 1167006011265 Mg2+ binding site [ion binding]; other site 1167006011266 G-X-G motif; other site 1167006011267 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006011268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011269 ATP binding site [chemical binding]; other site 1167006011270 Mg2+ binding site [ion binding]; other site 1167006011271 G-X-G motif; other site 1167006011272 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006011273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011274 active site 1167006011275 phosphorylation site [posttranslational modification] 1167006011276 intermolecular recognition site; other site 1167006011277 dimerization interface [polypeptide binding]; other site 1167006011278 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1167006011279 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006011280 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1167006011281 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006011282 FtsX-like permease family; Region: FtsX; pfam02687 1167006011283 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006011284 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006011285 Walker A/P-loop; other site 1167006011286 ATP binding site [chemical binding]; other site 1167006011287 Q-loop/lid; other site 1167006011288 ABC transporter signature motif; other site 1167006011289 Walker B; other site 1167006011290 D-loop; other site 1167006011291 H-loop/switch region; other site 1167006011292 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 1167006011293 active site 1167006011294 catalytic residues [active] 1167006011295 DNA binding site [nucleotide binding] 1167006011296 Int/Topo IB signature motif; other site 1167006011297 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1167006011298 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 1167006011299 active site 1167006011300 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1167006011301 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006011302 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1167006011303 catalytic residues [active] 1167006011304 Homeodomain-like domain; Region: HTH_32; pfam13565 1167006011305 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1167006011306 Part of AAA domain; Region: AAA_19; pfam13245 1167006011307 Family description; Region: UvrD_C_2; pfam13538 1167006011308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1167006011309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1167006011310 metal binding site [ion binding]; metal-binding site 1167006011311 active site 1167006011312 I-site; other site 1167006011313 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1167006011314 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1167006011315 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 1167006011316 TM2 domain; Region: TM2; cl00984 1167006011317 TM2 domain; Region: TM2; cl00984 1167006011318 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006011319 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006011320 putative active site [active] 1167006011321 heme pocket [chemical binding]; other site 1167006011322 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 1167006011323 dimer interface [polypeptide binding]; other site 1167006011324 phosphorylation site [posttranslational modification] 1167006011325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011326 ATP binding site [chemical binding]; other site 1167006011327 Mg2+ binding site [ion binding]; other site 1167006011328 G-X-G motif; other site 1167006011329 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006011330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011331 active site 1167006011332 phosphorylation site [posttranslational modification] 1167006011333 intermolecular recognition site; other site 1167006011334 dimerization interface [polypeptide binding]; other site 1167006011335 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1167006011336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011337 active site 1167006011338 phosphorylation site [posttranslational modification] 1167006011339 intermolecular recognition site; other site 1167006011340 dimerization interface [polypeptide binding]; other site 1167006011341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006011342 Zn2+ binding site [ion binding]; other site 1167006011343 Mg2+ binding site [ion binding]; other site 1167006011344 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 1167006011345 dimerization interface [polypeptide binding]; other site 1167006011346 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 1167006011347 dimer interface [polypeptide binding]; other site 1167006011348 phosphorylation site [posttranslational modification] 1167006011349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011350 ATP binding site [chemical binding]; other site 1167006011351 Mg2+ binding site [ion binding]; other site 1167006011352 G-X-G motif; other site 1167006011353 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006011354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011355 active site 1167006011356 phosphorylation site [posttranslational modification] 1167006011357 intermolecular recognition site; other site 1167006011358 dimerization interface [polypeptide binding]; other site 1167006011359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006011360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011361 active site 1167006011362 phosphorylation site [posttranslational modification] 1167006011363 intermolecular recognition site; other site 1167006011364 dimerization interface [polypeptide binding]; other site 1167006011365 Hpt domain; Region: Hpt; pfam01627 1167006011366 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1167006011367 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1167006011368 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 1167006011369 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1167006011370 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1167006011371 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1167006011372 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1167006011373 Walker A/P-loop; other site 1167006011374 ATP binding site [chemical binding]; other site 1167006011375 Q-loop/lid; other site 1167006011376 ABC transporter signature motif; other site 1167006011377 Walker B; other site 1167006011378 D-loop; other site 1167006011379 H-loop/switch region; other site 1167006011380 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1167006011381 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006011382 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1167006011383 TM-ABC transporter signature motif; other site 1167006011384 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1167006011385 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1167006011386 TM-ABC transporter signature motif; other site 1167006011387 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1167006011388 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1167006011389 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1167006011390 substrate-cofactor binding pocket; other site 1167006011391 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1167006011392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011393 FOG: CBS domain [General function prediction only]; Region: COG0517 1167006011394 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 1167006011395 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1167006011396 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1167006011397 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1167006011398 dimer interface [polypeptide binding]; other site 1167006011399 PYR/PP interface [polypeptide binding]; other site 1167006011400 TPP binding site [chemical binding]; other site 1167006011401 substrate binding site [chemical binding]; other site 1167006011402 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1167006011403 Domain of unknown function; Region: EKR; pfam10371 1167006011404 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1167006011405 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1167006011406 TPP-binding site [chemical binding]; other site 1167006011407 dimer interface [polypeptide binding]; other site 1167006011408 Flagellin N-methylase; Region: FliB; pfam03692 1167006011409 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1167006011410 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 1167006011411 active site 1167006011412 dimer interface [polypeptide binding]; other site 1167006011413 HEAT repeats; Region: HEAT_2; pfam13646 1167006011414 HEAT repeats; Region: HEAT_2; pfam13646 1167006011415 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006011416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011417 active site 1167006011418 phosphorylation site [posttranslational modification] 1167006011419 intermolecular recognition site; other site 1167006011420 dimerization interface [polypeptide binding]; other site 1167006011421 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1167006011422 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1167006011423 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1167006011424 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 1167006011425 active site residue [active] 1167006011426 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1167006011427 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1167006011428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006011429 Walker A/P-loop; other site 1167006011430 ATP binding site [chemical binding]; other site 1167006011431 Q-loop/lid; other site 1167006011432 ABC transporter signature motif; other site 1167006011433 Walker B; other site 1167006011434 D-loop; other site 1167006011435 H-loop/switch region; other site 1167006011436 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 1167006011437 dimer interface [polypeptide binding]; other site 1167006011438 phosphorylation site [posttranslational modification] 1167006011439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011440 ATP binding site [chemical binding]; other site 1167006011441 Mg2+ binding site [ion binding]; other site 1167006011442 G-X-G motif; other site 1167006011443 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1167006011444 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1167006011445 B12 binding site [chemical binding]; other site 1167006011446 cell division protein FtsZ; Validated; Region: PRK09330 1167006011447 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 1167006011448 nucleotide binding site [chemical binding]; other site 1167006011449 SulA interaction site; other site 1167006011450 cell division protein FtsA; Region: ftsA; TIGR01174 1167006011451 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1167006011452 nucleotide binding site [chemical binding]; other site 1167006011453 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1167006011454 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1167006011455 Cell division protein FtsA; Region: FtsA; pfam14450 1167006011456 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1167006011457 Cell division protein FtsQ; Region: FtsQ; pfam03799 1167006011458 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1167006011459 FAD binding domain; Region: FAD_binding_4; pfam01565 1167006011460 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1167006011461 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1167006011462 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1167006011463 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1167006011464 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006011465 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1167006011466 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 1167006011467 active site 1167006011468 homodimer interface [polypeptide binding]; other site 1167006011469 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1167006011470 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1167006011471 NAD(P) binding pocket [chemical binding]; other site 1167006011472 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; cd01983 1167006011473 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1167006011474 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 1167006011475 Mg++ binding site [ion binding]; other site 1167006011476 putative catalytic motif [active] 1167006011477 putative substrate binding site [chemical binding]; other site 1167006011478 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1167006011479 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1167006011480 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1167006011481 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006011482 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1167006011483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1167006011484 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1167006011485 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1167006011486 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1167006011487 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1167006011488 MraW methylase family; Region: Methyltransf_5; cl17771 1167006011489 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1167006011490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1167006011491 MraZ protein; Region: MraZ; pfam02381 1167006011492 MraZ protein; Region: MraZ; pfam02381 1167006011493 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1167006011494 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 1167006011495 active site 1167006011496 oligomerization interface [polypeptide binding]; other site 1167006011497 metal binding site [ion binding]; metal-binding site 1167006011498 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1167006011499 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 1167006011500 Walker A motif; other site 1167006011501 ATP binding site [chemical binding]; other site 1167006011502 Walker B motif; other site 1167006011503 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1167006011504 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1167006011505 RuvA N terminal domain; Region: RuvA_N; pfam01330 1167006011506 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1167006011507 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 1167006011508 dimer interface [polypeptide binding]; other site 1167006011509 active site 1167006011510 putative DNA-binding cleft [nucleotide binding]; other site 1167006011511 hypothetical protein; Validated; Region: PRK00110 1167006011512 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1167006011513 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1167006011514 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1167006011515 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1167006011516 active site 1167006011517 NTP binding site [chemical binding]; other site 1167006011518 metal binding triad [ion binding]; metal-binding site 1167006011519 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1167006011520 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1167006011521 Zn2+ binding site [ion binding]; other site 1167006011522 Mg2+ binding site [ion binding]; other site 1167006011523 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1167006011524 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1167006011525 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1167006011526 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 1167006011527 FMN binding site [chemical binding]; other site 1167006011528 active site 1167006011529 catalytic residues [active] 1167006011530 substrate binding site [chemical binding]; other site 1167006011531 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1167006011532 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 1167006011533 Substrate binding site; other site 1167006011534 metal-binding site 1167006011535 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 1167006011536 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1167006011537 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 1167006011538 active site 1167006011539 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 1167006011540 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1167006011541 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1167006011542 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 1167006011543 trimer interface [polypeptide binding]; other site 1167006011544 active site 1167006011545 UDP-GlcNAc binding site [chemical binding]; other site 1167006011546 lipid binding site [chemical binding]; lipid-binding site 1167006011547 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1167006011548 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1167006011549 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 1167006011550 glutaminase active site [active] 1167006011551 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 1167006011552 dimer interface [polypeptide binding]; other site 1167006011553 active site 1167006011554 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 1167006011555 dimer interface [polypeptide binding]; other site 1167006011556 active site 1167006011557 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006011558 active site 1167006011559 PilZ domain; Region: PilZ; pfam07238 1167006011560 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1167006011561 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1167006011562 HflX GTPase family; Region: HflX; cd01878 1167006011563 G1 box; other site 1167006011564 GTP/Mg2+ binding site [chemical binding]; other site 1167006011565 Switch I region; other site 1167006011566 G2 box; other site 1167006011567 G3 box; other site 1167006011568 Switch II region; other site 1167006011569 G4 box; other site 1167006011570 G5 box; other site 1167006011571 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1167006011572 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 1167006011573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011574 homodimer interface [polypeptide binding]; other site 1167006011575 catalytic residue [active] 1167006011576 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1167006011577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011578 active site 1167006011579 phosphorylation site [posttranslational modification] 1167006011580 intermolecular recognition site; other site 1167006011581 dimerization interface [polypeptide binding]; other site 1167006011582 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 1167006011583 Walker A motif; other site 1167006011584 ATP binding site [chemical binding]; other site 1167006011585 Walker B motif; other site 1167006011586 arginine finger; other site 1167006011587 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1167006011588 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1167006011589 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1167006011590 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1167006011591 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006011592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006011593 Walker A/P-loop; other site 1167006011594 ATP binding site [chemical binding]; other site 1167006011595 Q-loop/lid; other site 1167006011596 ABC transporter signature motif; other site 1167006011597 Walker B; other site 1167006011598 D-loop; other site 1167006011599 H-loop/switch region; other site 1167006011600 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1167006011601 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1167006011602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1167006011603 Walker A/P-loop; other site 1167006011604 ATP binding site [chemical binding]; other site 1167006011605 Q-loop/lid; other site 1167006011606 ABC transporter signature motif; other site 1167006011607 Walker B; other site 1167006011608 D-loop; other site 1167006011609 H-loop/switch region; other site 1167006011610 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1167006011611 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 1167006011612 HlyD family secretion protein; Region: HlyD_3; pfam13437 1167006011613 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1167006011614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011615 active site 1167006011616 phosphorylation site [posttranslational modification] 1167006011617 intermolecular recognition site; other site 1167006011618 dimerization interface [polypeptide binding]; other site 1167006011619 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1167006011620 GEMM cis-regulatory element; IMG reference gene:2512883168; UWK_03522 1167006011621 VCBS repeat; Region: VCBS_repeat; TIGR01965 1167006011622 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1167006011623 Ca2+ binding site [ion binding]; other site 1167006011624 VCBS repeat; Region: VCBS_repeat; TIGR01965 1167006011625 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 1167006011626 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 1167006011627 Outer membrane efflux protein; Region: OEP; pfam02321 1167006011628 Outer membrane efflux protein; Region: OEP; pfam02321 1167006011629 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1167006011630 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1167006011631 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1167006011632 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1167006011633 Fic/DOC family; Region: Fic; pfam02661 1167006011634 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 1167006011635 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1167006011636 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1167006011637 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 1167006011638 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1167006011639 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 1167006011640 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 1167006011641 non-heme iron binding site [ion binding]; other site 1167006011642 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1167006011643 TRAM domain; Region: TRAM; cl01282 1167006011644 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 1167006011645 S-adenosylmethionine binding site [chemical binding]; other site 1167006011646 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1167006011647 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1167006011648 dimer interface [polypeptide binding]; other site 1167006011649 putative anticodon binding site; other site 1167006011650 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1167006011651 motif 1; other site 1167006011652 active site 1167006011653 motif 2; other site 1167006011654 motif 3; other site 1167006011655 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1167006011656 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1167006011657 FtsX-like permease family; Region: FtsX; pfam02687 1167006011658 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1167006011659 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1167006011660 Walker A/P-loop; other site 1167006011661 ATP binding site [chemical binding]; other site 1167006011662 Q-loop/lid; other site 1167006011663 ABC transporter signature motif; other site 1167006011664 Walker B; other site 1167006011665 D-loop; other site 1167006011666 H-loop/switch region; other site 1167006011667 PIF1-like helicase; Region: PIF1; pfam05970 1167006011668 AAA domain; Region: AAA_30; pfam13604 1167006011669 Family description; Region: UvrD_C_2; pfam13538 1167006011670 HRDC domain; Region: HRDC; pfam00570 1167006011671 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; cl17315 1167006011672 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 1167006011673 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1167006011674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1167006011675 active site 1167006011676 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1167006011677 tartrate dehydrogenase; Region: TTC; TIGR02089 1167006011678 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006011679 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1167006011680 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 1167006011681 dimerization interface [polypeptide binding]; other site 1167006011682 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1167006011683 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1167006011684 putative active site [active] 1167006011685 heme pocket [chemical binding]; other site 1167006011686 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 1167006011687 dimer interface [polypeptide binding]; other site 1167006011688 phosphorylation site [posttranslational modification] 1167006011689 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1167006011690 ATP binding site [chemical binding]; other site 1167006011691 Mg2+ binding site [ion binding]; other site 1167006011692 G-X-G motif; other site 1167006011693 Response regulator receiver domain; Region: Response_reg; pfam00072 1167006011694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1167006011695 active site 1167006011696 phosphorylation site [posttranslational modification] 1167006011697 intermolecular recognition site; other site 1167006011698 dimerization interface [polypeptide binding]; other site 1167006011699 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1167006011700 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 1167006011701 substrate binding pocket [chemical binding]; other site 1167006011702 membrane-bound complex binding site; other site 1167006011703 hinge residues; other site 1167006011704 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1167006011705 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1167006011706 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 1167006011707 histidinol dehydrogenase; Region: hisD; TIGR00069 1167006011708 NAD binding site [chemical binding]; other site 1167006011709 dimerization interface [polypeptide binding]; other site 1167006011710 product binding site; other site 1167006011711 substrate binding site [chemical binding]; other site 1167006011712 zinc binding site [ion binding]; other site 1167006011713 catalytic residues [active] 1167006011714 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1167006011715 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 1167006011716 S-adenosylmethionine binding site [chemical binding]; other site 1167006011717 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1167006011718 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1167006011719 putative dimer interface [polypeptide binding]; other site 1167006011720 putative anticodon binding site; other site 1167006011721 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1167006011722 homodimer interface [polypeptide binding]; other site 1167006011723 motif 1; other site 1167006011724 motif 2; other site 1167006011725 active site 1167006011726 motif 3; other site 1167006011727 Protein of unknown function DUF89; Region: DUF89; cl15397 1167006011728 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1167006011729 Ligand Binding Site [chemical binding]; other site 1167006011730 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1167006011731 putative active site pocket [active] 1167006011732 4-fold oligomerization interface [polypeptide binding]; other site 1167006011733 metal binding residues [ion binding]; metal-binding site 1167006011734 3-fold/trimer interface [polypeptide binding]; other site 1167006011735 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 1167006011736 23S rRNA interface [nucleotide binding]; other site 1167006011737 L3 interface [polypeptide binding]; other site 1167006011738 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1167006011739 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1167006011740 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1167006011741 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1167006011742 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1167006011743 dimerization interface 3.5A [polypeptide binding]; other site 1167006011744 active site 1167006011745 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1167006011746 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 1167006011747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1167006011748 homodimer interface [polypeptide binding]; other site 1167006011749 catalytic residue [active] 1167006011750 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1167006011751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1167006011752 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 1167006011753 putative dimerization interface [polypeptide binding]; other site 1167006011754 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1167006011755 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1167006011756 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 1167006011757 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1167006011758 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1167006011759 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1167006011760 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1167006011761 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1167006011762 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1167006011763 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1167006011764 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1167006011765 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1167006011766 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006011767 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1167006011768 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006011769 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1167006011770 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006011771 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1167006011772 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1167006011773 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 1167006011774 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1167006011775 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1167006011776 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1167006011777 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1167006011778 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 1167006011779 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1167006011780 catalytic triad [active] 1167006011781 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1167006011782 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1167006011783 NAD binding site [chemical binding]; other site 1167006011784 glutathione synthetase, prokaryotic; Region: glut_syn; TIGR01380 1167006011785 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1167006011786 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1167006011787 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 1167006011788 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1167006011789 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1167006011790 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 1167006011791 P-loop; other site 1167006011792 Magnesium ion binding site [ion binding]; other site 1167006011793 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1167006011794 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 1167006011795 Walker A motif; other site 1167006011796 ATP binding site [chemical binding]; other site 1167006011797 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1167006011798 RNA binding site [nucleotide binding]; other site 1167006011799 Initiator Replication protein; Region: Rep_3; pfam01051 1167006011800 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1167006011801 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1167006011802 Catalytic site; other site 1167006011803 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1167006011804 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 1167006011805 non-specific DNA binding site [nucleotide binding]; other site 1167006011806 salt bridge; other site 1167006011807 sequence-specific DNA binding site [nucleotide binding]; other site 1167006011808 DNA primase, catalytic core; Region: dnaG; TIGR01391 1167006011809 CHC2 zinc finger; Region: zf-CHC2; cl17510 1167006011810 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1167006011811 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1167006011812 active site 1167006011813 metal binding site [ion binding]; metal-binding site 1167006011814 interdomain interaction site; other site 1167006011815 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 1167006011816 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1167006011817 active site 1167006011818 DNA binding site [nucleotide binding] 1167006011819 Int/Topo IB signature motif; other site 1167006011820 AAA domain; Region: AAA_22; pfam13401 1167006011821 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1167006011822 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 1167006011823 IHF dimer interface [polypeptide binding]; other site 1167006011824 IHF - DNA interface [nucleotide binding]; other site 1167006011825 Restriction endonuclease BamHI; Region: BamHI; pfam02923 1167006011826 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 1167006011827 non-specific DNA binding site [nucleotide binding]; other site 1167006011828 salt bridge; other site 1167006011829 sequence-specific DNA binding site [nucleotide binding]; other site 1167006011830 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1167006011831 DNA methylase; Region: N6_N4_Mtase; pfam01555 1167006011832 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1167006011833 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1167006011834 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 1167006011835 catalytic residues [active] 1167006011836 catalytic nucleophile [active] 1167006011837 Presynaptic Site I dimer interface [polypeptide binding]; other site 1167006011838 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1167006011839 Synaptic Flat tetramer interface [polypeptide binding]; other site 1167006011840 Synaptic Site I dimer interface [polypeptide binding]; other site 1167006011841 DNA binding site [nucleotide binding] 1167006011842 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1167006011843 DNA-binding interface [nucleotide binding]; DNA binding site 1167006011844 SnoaL-like domain; Region: SnoaL_2; pfam12680