-- dump date 20140619_030156 -- class Genbank::misc_feature -- table misc_feature_note -- id note 565050000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 565050000002 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 565050000003 active site 565050000004 dimer interface [polypeptide binding]; other site 565050000005 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 565050000006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 565050000007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 565050000008 shikimate binding site; other site 565050000009 NAD(P) binding site [chemical binding]; other site 565050000010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 565050000011 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 565050000012 CoA-binding site [chemical binding]; other site 565050000013 ATP-binding [chemical binding]; other site 565050000014 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 565050000015 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 565050000016 active site 565050000017 catalytic site [active] 565050000018 substrate binding site [chemical binding]; other site 565050000019 enoyl-CoA hydratase; Provisional; Region: PRK05862 565050000020 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050000021 substrate binding site [chemical binding]; other site 565050000022 oxyanion hole (OAH) forming residues; other site 565050000023 trimer interface [polypeptide binding]; other site 565050000024 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 565050000025 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 565050000026 DnaA N-terminal domain; Region: DnaA_N; pfam11638 565050000027 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 565050000028 Walker A motif; other site 565050000029 ATP binding site [chemical binding]; other site 565050000030 Walker B motif; other site 565050000031 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 565050000032 DnaA box-binding interface [nucleotide binding]; other site 565050000033 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; cl17321 565050000034 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 565050000035 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 565050000036 nucleotide binding site [chemical binding]; other site 565050000037 NEF interaction site [polypeptide binding]; other site 565050000038 SBD interface [polypeptide binding]; other site 565050000039 chaperone protein DnaJ; Provisional; Region: PRK10767 565050000040 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 565050000041 HSP70 interaction site [polypeptide binding]; other site 565050000042 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 565050000043 substrate binding site [polypeptide binding]; other site 565050000044 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 565050000045 Zn binding sites [ion binding]; other site 565050000046 dimer interface [polypeptide binding]; other site 565050000047 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 565050000048 MutS domain I; Region: MutS_I; pfam01624 565050000049 MutS domain II; Region: MutS_II; pfam05188 565050000050 MutS domain III; Region: MutS_III; pfam05192 565050000051 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 565050000052 Walker A/P-loop; other site 565050000053 ATP binding site [chemical binding]; other site 565050000054 Q-loop/lid; other site 565050000055 ABC transporter signature motif; other site 565050000056 Walker B; other site 565050000057 D-loop; other site 565050000058 H-loop/switch region; other site 565050000059 PII uridylyl-transferase; Provisional; Region: PRK05092 565050000060 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 565050000061 metal binding triad; other site 565050000062 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 565050000063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565050000064 Zn2+ binding site [ion binding]; other site 565050000065 Mg2+ binding site [ion binding]; other site 565050000066 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 565050000067 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 565050000068 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 565050000069 trimer interface [polypeptide binding]; other site 565050000070 dimer interface [polypeptide binding]; other site 565050000071 putative active site [active] 565050000072 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 565050000073 MPT binding site; other site 565050000074 trimer interface [polypeptide binding]; other site 565050000075 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 565050000076 MoaE homodimer interface [polypeptide binding]; other site 565050000077 MoaD interaction [polypeptide binding]; other site 565050000078 active site residues [active] 565050000079 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 565050000080 MoaE interaction surface [polypeptide binding]; other site 565050000081 MoeB interaction surface [polypeptide binding]; other site 565050000082 thiocarboxylated glycine; other site 565050000083 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 565050000084 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 565050000085 FeS/SAM binding site; other site 565050000086 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 565050000087 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 565050000088 Ligand binding site; other site 565050000089 metal-binding site 565050000090 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 565050000091 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 565050000092 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 565050000093 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 565050000094 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 565050000095 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 565050000096 catalytic loop [active] 565050000097 iron binding site [ion binding]; other site 565050000098 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 565050000099 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 565050000100 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 565050000101 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 565050000102 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 565050000103 homodimer interface [polypeptide binding]; other site 565050000104 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 565050000105 metabolite-proton symporter; Region: 2A0106; TIGR00883 565050000106 putative substrate translocation pore; other site 565050000107 PAS domain S-box; Region: sensory_box; TIGR00229 565050000108 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000109 putative active site [active] 565050000110 heme pocket [chemical binding]; other site 565050000111 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000112 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050000113 putative active site [active] 565050000114 heme pocket [chemical binding]; other site 565050000115 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 565050000116 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000117 putative active site [active] 565050000118 heme pocket [chemical binding]; other site 565050000119 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000120 putative active site [active] 565050000121 heme pocket [chemical binding]; other site 565050000122 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 565050000123 dimer interface [polypeptide binding]; other site 565050000124 phosphorylation site [posttranslational modification] 565050000125 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000126 ATP binding site [chemical binding]; other site 565050000127 Mg2+ binding site [ion binding]; other site 565050000128 G-X-G motif; other site 565050000129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050000130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000131 active site 565050000132 phosphorylation site [posttranslational modification] 565050000133 intermolecular recognition site; other site 565050000134 dimerization interface [polypeptide binding]; other site 565050000135 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 565050000136 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 565050000137 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 565050000138 B1 nucleotide binding pocket [chemical binding]; other site 565050000139 B2 nucleotide binding pocket [chemical binding]; other site 565050000140 CAS motifs; other site 565050000141 active site 565050000142 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 565050000143 oligomeric interface; other site 565050000144 putative active site [active] 565050000145 homodimer interface [polypeptide binding]; other site 565050000146 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 565050000147 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 565050000148 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 565050000149 RNase E interface [polypeptide binding]; other site 565050000150 trimer interface [polypeptide binding]; other site 565050000151 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 565050000152 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 565050000153 RNase E interface [polypeptide binding]; other site 565050000154 trimer interface [polypeptide binding]; other site 565050000155 active site 565050000156 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 565050000157 putative nucleic acid binding region [nucleotide binding]; other site 565050000158 G-X-X-G motif; other site 565050000159 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 565050000160 RNA binding site [nucleotide binding]; other site 565050000161 domain interface; other site 565050000162 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 565050000163 16S/18S rRNA binding site [nucleotide binding]; other site 565050000164 S13e-L30e interaction site [polypeptide binding]; other site 565050000165 25S rRNA binding site [nucleotide binding]; other site 565050000166 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 565050000167 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 565050000168 RNA binding site [nucleotide binding]; other site 565050000169 active site 565050000170 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 565050000171 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 565050000172 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050000173 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 565050000174 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 565050000175 translation initiation factor IF-2; Region: IF-2; TIGR00487 565050000176 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 565050000177 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 565050000178 G1 box; other site 565050000179 putative GEF interaction site [polypeptide binding]; other site 565050000180 GTP/Mg2+ binding site [chemical binding]; other site 565050000181 Switch I region; other site 565050000182 G2 box; other site 565050000183 G3 box; other site 565050000184 Switch II region; other site 565050000185 G4 box; other site 565050000186 G5 box; other site 565050000187 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 565050000188 Translation-initiation factor 2; Region: IF-2; pfam11987 565050000189 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 565050000190 hypothetical protein; Provisional; Region: PRK09190 565050000191 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 565050000192 putative RNA binding cleft [nucleotide binding]; other site 565050000193 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 565050000194 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 565050000195 NusA N-terminal domain; Region: NusA_N; pfam08529 565050000196 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 565050000197 RNA binding site [nucleotide binding]; other site 565050000198 homodimer interface [polypeptide binding]; other site 565050000199 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 565050000200 G-X-X-G motif; other site 565050000201 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 565050000202 G-X-X-G motif; other site 565050000203 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 565050000204 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 565050000205 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 565050000206 putative oligomer interface [polypeptide binding]; other site 565050000207 putative RNA binding site [nucleotide binding]; other site 565050000208 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 565050000209 dimer interface [polypeptide binding]; other site 565050000210 substrate binding site [chemical binding]; other site 565050000211 metal binding sites [ion binding]; metal-binding site 565050000212 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 565050000213 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 565050000214 S-adenosylmethionine binding site [chemical binding]; other site 565050000215 S-adenosylmethionine synthetase; Validated; Region: PRK05250 565050000216 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 565050000217 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 565050000218 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 565050000219 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050000220 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 565050000221 non-specific DNA binding site [nucleotide binding]; other site 565050000222 salt bridge; other site 565050000223 sequence-specific DNA binding site [nucleotide binding]; other site 565050000224 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 565050000225 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 565050000226 putative active site [active] 565050000227 catalytic triad [active] 565050000228 putative dimer interface [polypeptide binding]; other site 565050000229 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 565050000230 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 565050000231 Transporter associated domain; Region: CorC_HlyC; smart01091 565050000232 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 565050000233 PhoH-like protein; Region: PhoH; pfam02562 565050000234 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 565050000235 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 565050000236 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 565050000237 FeS/SAM binding site; other site 565050000238 TRAM domain; Region: TRAM; cl01282 565050000239 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 565050000240 metal binding site 2 [ion binding]; metal-binding site 565050000241 putative DNA binding helix; other site 565050000242 metal binding site 1 [ion binding]; metal-binding site 565050000243 dimer interface [polypeptide binding]; other site 565050000244 structural Zn2+ binding site [ion binding]; other site 565050000245 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 565050000246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050000247 Coenzyme A binding pocket [chemical binding]; other site 565050000248 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 565050000249 Glycoprotease family; Region: Peptidase_M22; pfam00814 565050000250 Protein of unknown function (DUF1131); Region: DUF1131; cl19739 565050000251 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 565050000252 putative FMN binding site [chemical binding]; other site 565050000253 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 565050000254 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 565050000255 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 565050000256 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 565050000257 active site 565050000258 HIGH motif; other site 565050000259 dimer interface [polypeptide binding]; other site 565050000260 KMSKS motif; other site 565050000261 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 565050000262 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 565050000263 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 565050000264 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050000265 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050000266 dimer interface [polypeptide binding]; other site 565050000267 putative CheW interface [polypeptide binding]; other site 565050000268 Methyltransferase domain; Region: Methyltransf_24; pfam13578 565050000269 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 565050000270 iron-sulfur cluster [ion binding]; other site 565050000271 [2Fe-2S] cluster binding site [ion binding]; other site 565050000272 YCII-related domain; Region: YCII; cl00999 565050000273 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 565050000274 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 565050000275 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 565050000276 UGMP family protein; Validated; Region: PRK09604 565050000277 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 565050000278 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 565050000279 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 565050000280 domain interfaces; other site 565050000281 active site 565050000282 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 565050000283 active site 565050000284 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 565050000285 HemY protein N-terminus; Region: HemY_N; pfam07219 565050000286 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 565050000287 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050000288 substrate binding site [chemical binding]; other site 565050000289 oxyanion hole (OAH) forming residues; other site 565050000290 trimer interface [polypeptide binding]; other site 565050000291 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 565050000292 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050000293 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050000294 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 565050000295 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050000296 dimer interface [polypeptide binding]; other site 565050000297 active site 565050000298 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050000299 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050000300 active site 565050000301 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 565050000302 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 565050000303 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050000304 active site 565050000305 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 565050000306 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 565050000307 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 565050000308 DNA binding residues [nucleotide binding] 565050000309 putative dimer interface [polypeptide binding]; other site 565050000310 Predicted transcriptional regulator [Transcription]; Region: COG2932 565050000311 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 565050000312 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 565050000313 Catalytic site [active] 565050000314 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 565050000315 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565050000316 active site 565050000317 nucleotide binding site [chemical binding]; other site 565050000318 HIGH motif; other site 565050000319 KMSKS motif; other site 565050000320 phosphoglucomutase; Validated; Region: PRK07564 565050000321 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 565050000322 active site 565050000323 substrate binding site [chemical binding]; other site 565050000324 metal binding site [ion binding]; metal-binding site 565050000325 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 565050000326 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 565050000327 purine monophosphate binding site [chemical binding]; other site 565050000328 dimer interface [polypeptide binding]; other site 565050000329 putative catalytic residues [active] 565050000330 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 565050000331 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050000332 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050000333 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 565050000334 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 565050000335 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 565050000336 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 565050000337 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 565050000338 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 565050000339 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 565050000340 PAS domain S-box; Region: sensory_box; TIGR00229 565050000341 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000342 putative active site [active] 565050000343 heme pocket [chemical binding]; other site 565050000344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050000345 metal binding site [ion binding]; metal-binding site 565050000346 active site 565050000347 I-site; other site 565050000348 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 565050000349 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 565050000350 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 565050000351 NAD binding site [chemical binding]; other site 565050000352 homodimer interface [polypeptide binding]; other site 565050000353 active site 565050000354 substrate binding site [chemical binding]; other site 565050000355 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565050000356 EamA-like transporter family; Region: EamA; pfam00892 565050000357 EamA-like transporter family; Region: EamA; pfam00892 565050000358 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 565050000359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050000360 NAD(P) binding site [chemical binding]; other site 565050000361 active site 565050000362 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 565050000363 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 565050000364 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 565050000365 NAD(P) binding site [chemical binding]; other site 565050000366 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 565050000367 catalytic nucleophile [active] 565050000368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 565050000369 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 565050000370 substrate binding site [chemical binding]; other site 565050000371 hexamer interface [polypeptide binding]; other site 565050000372 metal binding site [ion binding]; metal-binding site 565050000373 NusB family; Region: NusB; pfam01029 565050000374 putative RNA binding site [nucleotide binding]; other site 565050000375 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 565050000376 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 565050000377 S-adenosylmethionine binding site [chemical binding]; other site 565050000378 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 565050000379 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 565050000380 active site 565050000381 dimer interface [polypeptide binding]; other site 565050000382 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 565050000383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050000384 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 565050000385 Uncharacterized conserved protein [Function unknown]; Region: COG2835 565050000386 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 565050000387 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 565050000388 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565050000389 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 565050000390 Tetratricopeptide repeat; Region: TPR_20; pfam14561 565050000391 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 565050000392 putative deacylase active site [active] 565050000393 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 565050000394 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 565050000395 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050000396 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 565050000397 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 565050000398 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 565050000399 active site 565050000400 substrate binding site [chemical binding]; other site 565050000401 metal binding site [ion binding]; metal-binding site 565050000402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 565050000403 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 565050000404 glutaminase active site [active] 565050000405 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 565050000406 dimer interface [polypeptide binding]; other site 565050000407 active site 565050000408 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 565050000409 dimer interface [polypeptide binding]; other site 565050000410 active site 565050000411 Tetratricopeptide repeat; Region: TPR_16; pfam13432 565050000412 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 565050000413 TPR motif; other site 565050000414 binding surface 565050000415 Tetratricopeptide repeat; Region: TPR_19; pfam14559 565050000416 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 565050000417 binding surface 565050000418 TPR motif; other site 565050000419 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 565050000420 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 565050000421 TPR motif; other site 565050000422 binding surface 565050000423 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 565050000424 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 565050000425 homodimer interaction site [polypeptide binding]; other site 565050000426 cofactor binding site; other site 565050000427 Predicted acetyltransferase [General function prediction only]; Region: COG5628 565050000428 Uncharacterized conserved protein [Function unknown]; Region: COG3339 565050000429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050000430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050000431 NAD(P) binding site [chemical binding]; other site 565050000432 active site 565050000433 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 565050000434 MAPEG family; Region: MAPEG; pfam01124 565050000435 KTSC domain; Region: KTSC; pfam13619 565050000436 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 565050000437 ANP binding site [chemical binding]; other site 565050000438 Substrate Binding Site II [chemical binding]; other site 565050000439 Substrate Binding Site I [chemical binding]; other site 565050000440 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 565050000441 Predicted transcriptional regulator [Transcription]; Region: COG1959 565050000442 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 565050000443 classical (c) SDRs; Region: SDR_c; cd05233 565050000444 NAD(P) binding site [chemical binding]; other site 565050000445 active site 565050000446 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 565050000447 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 565050000448 FeS/SAM binding site; other site 565050000449 Predicted membrane protein [Function unknown]; Region: COG3766 565050000450 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 565050000451 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 565050000452 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050000453 muropeptide transporter; Reviewed; Region: ampG; cl17669 565050000454 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 565050000455 dimer interface [polypeptide binding]; other site 565050000456 phosphorylation site [posttranslational modification] 565050000457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000458 ATP binding site [chemical binding]; other site 565050000459 Mg2+ binding site [ion binding]; other site 565050000460 G-X-G motif; other site 565050000461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000462 active site 565050000463 phosphorylation site [posttranslational modification] 565050000464 intermolecular recognition site; other site 565050000465 dimerization interface [polypeptide binding]; other site 565050000466 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 565050000467 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 565050000468 N-terminal plug; other site 565050000469 ligand-binding site [chemical binding]; other site 565050000470 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 565050000471 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 565050000472 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 565050000473 Walker A motif; other site 565050000474 ATP binding site [chemical binding]; other site 565050000475 Walker B motif; other site 565050000476 arginine finger; other site 565050000477 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 565050000478 glutathione synthetase; Provisional; Region: PRK05246 565050000479 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 565050000480 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 565050000481 Uncharacterized conserved protein [Function unknown]; Region: COG2912 565050000482 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 565050000483 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 565050000484 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 565050000485 putative SAM binding site [chemical binding]; other site 565050000486 putative homodimer interface [polypeptide binding]; other site 565050000487 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 565050000488 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 565050000489 FeS/SAM binding site; other site 565050000490 HemN C-terminal domain; Region: HemN_C; pfam06969 565050000491 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 565050000492 active site 565050000493 dimerization interface [polypeptide binding]; other site 565050000494 putative glutathione S-transferase; Provisional; Region: PRK10357 565050000495 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 565050000496 putative C-terminal domain interface [polypeptide binding]; other site 565050000497 putative GSH binding site (G-site) [chemical binding]; other site 565050000498 putative dimer interface [polypeptide binding]; other site 565050000499 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 565050000500 N-terminal domain interface [polypeptide binding]; other site 565050000501 dimer interface [polypeptide binding]; other site 565050000502 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 565050000503 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 565050000504 non-specific DNA binding site [nucleotide binding]; other site 565050000505 salt bridge; other site 565050000506 sequence-specific DNA binding site [nucleotide binding]; other site 565050000507 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 565050000508 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050000509 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050000510 protein binding site [polypeptide binding]; other site 565050000511 ribonuclease PH; Reviewed; Region: rph; PRK00173 565050000512 Ribonuclease PH; Region: RNase_PH_bact; cd11362 565050000513 hexamer interface [polypeptide binding]; other site 565050000514 active site 565050000515 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 565050000516 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 565050000517 HrcA protein C terminal domain; Region: HrcA; pfam01628 565050000518 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 565050000519 dimer interface [polypeptide binding]; other site 565050000520 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 565050000521 Predicted membrane protein [Function unknown]; Region: COG3205 565050000522 DNA polymerase III subunit beta; Validated; Region: PRK05643 565050000523 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 565050000524 putative DNA binding surface [nucleotide binding]; other site 565050000525 dimer interface [polypeptide binding]; other site 565050000526 beta-clamp/clamp loader binding surface; other site 565050000527 beta-clamp/translesion DNA polymerase binding surface; other site 565050000528 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 565050000529 recombination protein F; Reviewed; Region: recF; PRK00064 565050000530 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 565050000531 Walker A/P-loop; other site 565050000532 ATP binding site [chemical binding]; other site 565050000533 Q-loop/lid; other site 565050000534 ABC transporter signature motif; other site 565050000535 Walker B; other site 565050000536 D-loop; other site 565050000537 H-loop/switch region; other site 565050000538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 565050000539 putative CheW interface [polypeptide binding]; other site 565050000540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 565050000541 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 565050000542 Chain length determinant protein; Region: Wzz; pfam02706 565050000543 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 565050000544 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 565050000545 AAA domain; Region: AAA_31; pfam13614 565050000546 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 565050000547 O-Antigen ligase; Region: Wzy_C; pfam04932 565050000548 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 565050000549 putative protein phosphatase; Region: PHA02239 565050000550 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 565050000551 active site 565050000552 metal binding site [ion binding]; metal-binding site 565050000553 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050000554 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 565050000555 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 565050000556 type II secretion system protein D; Region: type_II_gspD; TIGR02517 565050000557 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 565050000558 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 565050000559 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 565050000560 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 565050000561 type II secretion system protein E; Region: type_II_gspE; TIGR02533 565050000562 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 565050000563 Walker A motif; other site 565050000564 ATP binding site [chemical binding]; other site 565050000565 Walker B motif; other site 565050000566 type II secretion system protein F; Region: GspF; TIGR02120 565050000567 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 565050000568 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 565050000569 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 565050000570 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 565050000571 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 565050000572 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 565050000573 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 565050000574 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 565050000575 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 565050000576 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 565050000577 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 565050000578 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 565050000579 GspL periplasmic domain; Region: GspL_C; pfam12693 565050000580 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 565050000581 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 565050000582 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 565050000583 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 565050000584 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 565050000585 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050000586 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 565050000587 N-terminal plug; other site 565050000588 ligand-binding site [chemical binding]; other site 565050000589 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 565050000590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 565050000591 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050000592 Coenzyme A binding pocket [chemical binding]; other site 565050000593 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 565050000594 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 565050000595 dimer interface [polypeptide binding]; other site 565050000596 acyl-activating enzyme (AAE) consensus motif; other site 565050000597 putative active site [active] 565050000598 AMP binding site [chemical binding]; other site 565050000599 putative CoA binding site [chemical binding]; other site 565050000600 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 565050000601 Uncharacterized conserved protein [Function unknown]; Region: COG1359 565050000602 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 565050000603 substrate binding site [chemical binding]; other site 565050000604 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 565050000605 substrate binding site [chemical binding]; other site 565050000606 ligand binding site [chemical binding]; other site 565050000607 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 565050000608 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 565050000609 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 565050000610 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 565050000611 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 565050000612 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 565050000613 metal ion-dependent adhesion site (MIDAS); other site 565050000614 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 565050000615 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 565050000616 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 565050000617 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 565050000618 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 565050000619 ligand binding site [chemical binding]; other site 565050000620 Fatty acid desaturase; Region: FA_desaturase; pfam00487 565050000621 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 565050000622 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 565050000623 TrkA-N domain; Region: TrkA_N; pfam02254 565050000624 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 565050000625 Coenzyme A transferase; Region: CoA_trans; cl17247 565050000626 DJ-1 family protein; Region: not_thiJ; TIGR01383 565050000627 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 565050000628 conserved cys residue [active] 565050000629 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 565050000630 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 565050000631 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 565050000632 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 565050000633 putative active site; other site 565050000634 catalytic triad [active] 565050000635 putative dimer interface [polypeptide binding]; other site 565050000636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050000637 SapC; Region: SapC; pfam07277 565050000638 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 565050000639 active site 1 [active] 565050000640 active site 2 [active] 565050000641 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 565050000642 putative catalytic residue [active] 565050000643 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 565050000644 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 565050000645 active site 565050000646 dimer interface [polypeptide binding]; other site 565050000647 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 565050000648 dimer interface [polypeptide binding]; other site 565050000649 active site 565050000650 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050000651 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050000652 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 565050000653 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050000654 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; pfam09857 565050000655 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 565050000656 S-adenosylmethionine binding site [chemical binding]; other site 565050000657 Predicted integral membrane protein [Function unknown]; Region: COG3548 565050000658 CAAX protease self-immunity; Region: Abi; pfam02517 565050000659 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 565050000660 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 565050000661 RNA binding surface [nucleotide binding]; other site 565050000662 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 565050000663 probable active site [active] 565050000664 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 565050000665 nucleoside/Zn binding site; other site 565050000666 dimer interface [polypeptide binding]; other site 565050000667 catalytic motif [active] 565050000668 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 565050000669 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 565050000670 NAD(P) binding site [chemical binding]; other site 565050000671 homodimer interface [polypeptide binding]; other site 565050000672 substrate binding site [chemical binding]; other site 565050000673 active site 565050000674 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 565050000675 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 565050000676 inhibitor-cofactor binding pocket; inhibition site 565050000677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050000678 catalytic residue [active] 565050000679 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050000680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000681 active site 565050000682 phosphorylation site [posttranslational modification] 565050000683 intermolecular recognition site; other site 565050000684 dimerization interface [polypeptide binding]; other site 565050000685 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 565050000686 DNA binding site [nucleotide binding] 565050000687 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 565050000688 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 565050000689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050000690 HAMP domain; Region: HAMP; pfam00672 565050000691 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 565050000692 dimer interface [polypeptide binding]; other site 565050000693 phosphorylation site [posttranslational modification] 565050000694 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000695 ATP binding site [chemical binding]; other site 565050000696 Mg2+ binding site [ion binding]; other site 565050000697 G-X-G motif; other site 565050000698 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 565050000699 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 565050000700 Hpr binding site; other site 565050000701 active site 565050000702 homohexamer subunit interaction site [polypeptide binding]; other site 565050000703 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 565050000704 active pocket/dimerization site; other site 565050000705 active site 565050000706 phosphorylation site [posttranslational modification] 565050000707 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 565050000708 dimerization domain swap beta strand [polypeptide binding]; other site 565050000709 regulatory protein interface [polypeptide binding]; other site 565050000710 active site 565050000711 regulatory phosphorylation site [posttranslational modification]; other site 565050000712 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 565050000713 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 565050000714 motif II; other site 565050000715 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 565050000716 aromatic arch; other site 565050000717 DCoH dimer interaction site [polypeptide binding]; other site 565050000718 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 565050000719 DCoH tetramer interaction site [polypeptide binding]; other site 565050000720 substrate binding site [chemical binding]; other site 565050000721 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 565050000722 short chain dehydrogenase; Validated; Region: PRK07069 565050000723 NAD(P) binding site [chemical binding]; other site 565050000724 active site 565050000725 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 565050000726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000727 active site 565050000728 phosphorylation site [posttranslational modification] 565050000729 intermolecular recognition site; other site 565050000730 dimerization interface [polypeptide binding]; other site 565050000731 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 565050000732 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 565050000733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050000734 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 565050000735 phosphorylation site [posttranslational modification] 565050000736 dimer interface [polypeptide binding]; other site 565050000737 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000738 ATP binding site [chemical binding]; other site 565050000739 Mg2+ binding site [ion binding]; other site 565050000740 G-X-G motif; other site 565050000741 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565050000742 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 565050000743 Cu(I) binding site [ion binding]; other site 565050000744 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 565050000745 Transglycosylase; Region: Transgly; pfam00912 565050000746 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 565050000747 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565050000748 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 565050000749 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 565050000750 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 565050000751 Predicted permeases [General function prediction only]; Region: RarD; COG2962 565050000752 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050000753 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 565050000754 pyridoxal binding site [chemical binding]; other site 565050000755 dimer interface [polypeptide binding]; other site 565050000756 ATP binding site [chemical binding]; other site 565050000757 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 565050000758 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 565050000759 homotetramer interface [polypeptide binding]; other site 565050000760 ligand binding site [chemical binding]; other site 565050000761 catalytic site [active] 565050000762 NAD binding site [chemical binding]; other site 565050000763 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 565050000764 dimer interface [polypeptide binding]; other site 565050000765 putative radical transfer pathway; other site 565050000766 diiron center [ion binding]; other site 565050000767 tyrosyl radical; other site 565050000768 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 565050000769 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 565050000770 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 565050000771 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 565050000772 AMP nucleosidase; Provisional; Region: PRK08292 565050000773 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 565050000774 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 565050000775 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 565050000776 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050000777 dimer interface [polypeptide binding]; other site 565050000778 active site 565050000779 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 565050000780 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 565050000781 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 565050000782 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 565050000783 putative NADH binding site [chemical binding]; other site 565050000784 putative active site [active] 565050000785 nudix motif; other site 565050000786 putative metal binding site [ion binding]; other site 565050000787 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 565050000788 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 565050000789 Walker A motif; other site 565050000790 ATP binding site [chemical binding]; other site 565050000791 Walker B motif; other site 565050000792 arginine finger; other site 565050000793 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 565050000794 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 565050000795 hypothetical protein; Provisional; Region: PRK14625 565050000796 recombination protein RecR; Reviewed; Region: recR; PRK00076 565050000797 RecR protein; Region: RecR; pfam02132 565050000798 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 565050000799 putative active site [active] 565050000800 putative metal-binding site [ion binding]; other site 565050000801 tetramer interface [polypeptide binding]; other site 565050000802 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 565050000803 RmuC family; Region: RmuC; pfam02646 565050000804 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 565050000805 active site 565050000806 catalytic residues [active] 565050000807 metal binding site [ion binding]; metal-binding site 565050000808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 565050000809 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 565050000810 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 565050000811 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 565050000812 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 565050000813 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 565050000814 metal binding site [ion binding]; metal-binding site 565050000815 dimer interface [polypeptide binding]; other site 565050000816 glutaminase; Provisional; Region: PRK00971 565050000817 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 565050000818 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 565050000819 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 565050000820 dimerization interface 3.5A [polypeptide binding]; other site 565050000821 active site 565050000822 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 565050000823 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 565050000824 putative active site [active] 565050000825 substrate binding site [chemical binding]; other site 565050000826 putative cosubstrate binding site; other site 565050000827 catalytic site [active] 565050000828 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 565050000829 substrate binding site [chemical binding]; other site 565050000830 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 565050000831 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 565050000832 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 565050000833 trimer interface [polypeptide binding]; other site 565050000834 active site 565050000835 substrate binding site [chemical binding]; other site 565050000836 CoA binding site [chemical binding]; other site 565050000837 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 565050000838 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 565050000839 motif II; other site 565050000840 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 565050000841 feedback inhibition sensing region; other site 565050000842 homohexameric interface [polypeptide binding]; other site 565050000843 nucleotide binding site [chemical binding]; other site 565050000844 N-acetyl-L-glutamate binding site [chemical binding]; other site 565050000845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000846 active site 565050000847 phosphorylation site [posttranslational modification] 565050000848 intermolecular recognition site; other site 565050000849 dimerization interface [polypeptide binding]; other site 565050000850 hypothetical protein; Provisional; Region: PRK13559 565050000851 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050000852 putative active site [active] 565050000853 heme pocket [chemical binding]; other site 565050000854 Histidine kinase; Region: HisKA_2; pfam07568 565050000855 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000856 ATP binding site [chemical binding]; other site 565050000857 Mg2+ binding site [ion binding]; other site 565050000858 G-X-G motif; other site 565050000859 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 565050000860 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050000861 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 565050000862 dimer interface [polypeptide binding]; other site 565050000863 phosphorylation site [posttranslational modification] 565050000864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050000865 ATP binding site [chemical binding]; other site 565050000866 Mg2+ binding site [ion binding]; other site 565050000867 G-X-G motif; other site 565050000868 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 565050000869 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 565050000870 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 565050000871 dimer interface [polypeptide binding]; other site 565050000872 conserved gate region; other site 565050000873 putative PBP binding loops; other site 565050000874 ABC-ATPase subunit interface; other site 565050000875 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 565050000876 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 565050000877 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 565050000878 dimer interface [polypeptide binding]; other site 565050000879 conserved gate region; other site 565050000880 putative PBP binding loops; other site 565050000881 ABC-ATPase subunit interface; other site 565050000882 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 565050000883 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 565050000884 Walker A/P-loop; other site 565050000885 ATP binding site [chemical binding]; other site 565050000886 Q-loop/lid; other site 565050000887 ABC transporter signature motif; other site 565050000888 Walker B; other site 565050000889 D-loop; other site 565050000890 H-loop/switch region; other site 565050000891 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 565050000892 PhoU domain; Region: PhoU; pfam01895 565050000893 PhoU domain; Region: PhoU; pfam01895 565050000894 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 565050000895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050000896 active site 565050000897 phosphorylation site [posttranslational modification] 565050000898 intermolecular recognition site; other site 565050000899 dimerization interface [polypeptide binding]; other site 565050000900 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 565050000901 DNA binding site [nucleotide binding] 565050000902 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 565050000903 LytTr DNA-binding domain; Region: LytTR; smart00850 565050000904 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 565050000905 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 565050000906 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 565050000907 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 565050000908 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 565050000909 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 565050000910 Phosphotransferase enzyme family; Region: APH; pfam01636 565050000911 putative active site [active] 565050000912 putative substrate binding site [chemical binding]; other site 565050000913 ATP binding site [chemical binding]; other site 565050000914 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 565050000915 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 565050000916 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 565050000917 active site 565050000918 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 565050000919 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 565050000920 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 565050000921 putative acyl-acceptor binding pocket; other site 565050000922 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565050000923 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050000924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050000925 Walker A/P-loop; other site 565050000926 ATP binding site [chemical binding]; other site 565050000927 Q-loop/lid; other site 565050000928 ABC transporter signature motif; other site 565050000929 Walker B; other site 565050000930 D-loop; other site 565050000931 H-loop/switch region; other site 565050000932 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 565050000933 Putative phosphatase (DUF442); Region: DUF442; cl17385 565050000934 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 565050000935 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 565050000936 active site 565050000937 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 565050000938 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 565050000939 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 565050000940 putative active site [active] 565050000941 Zn binding site [ion binding]; other site 565050000942 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 565050000943 gamma-glutamyl kinase; Provisional; Region: PRK05429 565050000944 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 565050000945 nucleotide binding site [chemical binding]; other site 565050000946 homotetrameric interface [polypeptide binding]; other site 565050000947 putative phosphate binding site [ion binding]; other site 565050000948 putative allosteric binding site; other site 565050000949 PUA domain; Region: PUA; pfam01472 565050000950 GTPase CgtA; Reviewed; Region: obgE; PRK12299 565050000951 GTP1/OBG; Region: GTP1_OBG; pfam01018 565050000952 Obg GTPase; Region: Obg; cd01898 565050000953 G1 box; other site 565050000954 GTP/Mg2+ binding site [chemical binding]; other site 565050000955 Switch I region; other site 565050000956 G2 box; other site 565050000957 G3 box; other site 565050000958 Switch II region; other site 565050000959 G4 box; other site 565050000960 G5 box; other site 565050000961 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 565050000962 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050000963 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 565050000964 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 565050000965 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 565050000966 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 565050000967 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 565050000968 P-loop, Walker A motif; other site 565050000969 Base recognition motif; other site 565050000970 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 565050000971 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 565050000972 FOG: WD40 repeat [General function prediction only]; Region: COG2319 565050000973 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 565050000974 structural tetrad; other site 565050000975 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 565050000976 putative FMN binding site [chemical binding]; other site 565050000977 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 565050000978 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 565050000979 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050000980 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 565050000981 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 565050000982 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 565050000983 TOBE domain; Region: TOBE; cl01440 565050000984 TOBE domain; Region: TOBE; pfam03459 565050000985 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 565050000986 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 565050000987 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 565050000988 dimer interface [polypeptide binding]; other site 565050000989 conserved gate region; other site 565050000990 putative PBP binding loops; other site 565050000991 ABC-ATPase subunit interface; other site 565050000992 Predicted membrane protein [Function unknown]; Region: COG5395 565050000993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4704 565050000994 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 565050000995 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050000996 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 565050000997 N-terminal plug; other site 565050000998 ligand-binding site [chemical binding]; other site 565050000999 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 565050001000 D-galactonate transporter; Region: 2A0114; TIGR00893 565050001001 putative substrate translocation pore; other site 565050001002 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 565050001003 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 565050001004 CoA-ligase; Region: Ligase_CoA; pfam00549 565050001005 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 565050001006 CoA binding domain; Region: CoA_binding; pfam02629 565050001007 CoA-ligase; Region: Ligase_CoA; pfam00549 565050001008 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 565050001009 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 565050001010 TPP-binding site [chemical binding]; other site 565050001011 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 565050001012 dimer interface [polypeptide binding]; other site 565050001013 PYR/PP interface [polypeptide binding]; other site 565050001014 TPP binding site [chemical binding]; other site 565050001015 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 565050001016 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 565050001017 E3 interaction surface; other site 565050001018 lipoyl attachment site [posttranslational modification]; other site 565050001019 e3 binding domain; Region: E3_binding; pfam02817 565050001020 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 565050001021 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001022 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050001023 dimer interface [polypeptide binding]; other site 565050001024 putative CheW interface [polypeptide binding]; other site 565050001025 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 565050001026 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 565050001027 active site 565050001028 DNA binding site [nucleotide binding] 565050001029 Int/Topo IB signature motif; other site 565050001030 Protein of unknown function, DUF484; Region: DUF484; pfam04340 565050001031 primosome assembly protein PriA; Validated; Region: PRK05580 565050001032 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 565050001033 ATP binding site [chemical binding]; other site 565050001034 putative Mg++ binding site [ion binding]; other site 565050001035 helicase superfamily c-terminal domain; Region: HELICc; smart00490 565050001036 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 565050001037 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 565050001038 CHAP domain; Region: CHAP; pfam05257 565050001039 Surface antigen [General function prediction only]; Region: COG3942 565050001040 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 565050001041 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001042 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001043 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001044 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001045 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001046 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001047 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001048 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 565050001049 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050001050 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050001051 TAP-like protein; Region: Abhydrolase_4; pfam08386 565050001052 enoyl-CoA hydratase; Provisional; Region: PRK06142 565050001053 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050001054 substrate binding site [chemical binding]; other site 565050001055 oxyanion hole (OAH) forming residues; other site 565050001056 trimer interface [polypeptide binding]; other site 565050001057 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050001058 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050001059 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 565050001060 active site 565050001061 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 565050001062 active site 565050001063 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 565050001064 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 565050001065 active site 565050001066 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 565050001067 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 565050001068 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 565050001069 dimer interface [polypeptide binding]; other site 565050001070 active site 565050001071 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565050001072 catalytic residues [active] 565050001073 substrate binding site [chemical binding]; other site 565050001074 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 565050001075 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 565050001076 Walker A/P-loop; other site 565050001077 ATP binding site [chemical binding]; other site 565050001078 Q-loop/lid; other site 565050001079 ABC transporter signature motif; other site 565050001080 Walker B; other site 565050001081 D-loop; other site 565050001082 H-loop/switch region; other site 565050001083 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 565050001084 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 565050001085 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 565050001086 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 565050001087 dimer interface [polypeptide binding]; other site 565050001088 conserved gate region; other site 565050001089 putative PBP binding loops; other site 565050001090 ABC-ATPase subunit interface; other site 565050001091 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 565050001092 Domain of unknown function DUF21; Region: DUF21; pfam01595 565050001093 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 565050001094 Transporter associated domain; Region: CorC_HlyC; smart01091 565050001095 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 565050001096 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 565050001097 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 565050001098 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 565050001099 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 565050001100 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 565050001101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 565050001102 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 565050001103 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 565050001104 Walker A/P-loop; other site 565050001105 ATP binding site [chemical binding]; other site 565050001106 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 565050001107 ABC transporter signature motif; other site 565050001108 Walker B; other site 565050001109 D-loop; other site 565050001110 H-loop/switch region; other site 565050001111 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 565050001112 Thioredoxin; Region: Thioredoxin_4; pfam13462 565050001113 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 565050001114 Thioredoxin; Region: Thioredoxin_4; pfam13462 565050001115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 565050001116 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 565050001117 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565050001118 minor groove reading motif; other site 565050001119 helix-hairpin-helix signature motif; other site 565050001120 substrate binding pocket [chemical binding]; other site 565050001121 active site 565050001122 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 565050001123 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 565050001124 DNA binding and oxoG recognition site [nucleotide binding] 565050001125 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 565050001126 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 565050001127 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 565050001128 RNA/DNA hybrid binding site [nucleotide binding]; other site 565050001129 active site 565050001130 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 565050001131 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 565050001132 active site 565050001133 catalytic residues [active] 565050001134 H+ Antiporter protein; Region: 2A0121; TIGR00900 565050001135 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 565050001136 putative substrate translocation pore; other site 565050001137 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 565050001138 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050001139 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050001140 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 565050001141 Aminomethyltransferase folate-binding domain; Region: GCV_T; cl01893 565050001142 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 565050001143 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 565050001144 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 565050001145 putative active site [active] 565050001146 dihydroorotase; Validated; Region: PRK09060 565050001147 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 565050001148 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 565050001149 active site 565050001150 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 565050001151 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 565050001152 feruloyl-CoA synthase; Reviewed; Region: PRK08180 565050001153 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 565050001154 acyl-activating enzyme (AAE) consensus motif; other site 565050001155 putative AMP binding site [chemical binding]; other site 565050001156 putative active site [active] 565050001157 putative CoA binding site [chemical binding]; other site 565050001158 Predicted membrane protein [Function unknown]; Region: COG3714 565050001159 hypothetical protein; Validated; Region: PRK07586 565050001160 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 565050001161 PYR/PP interface [polypeptide binding]; other site 565050001162 dimer interface [polypeptide binding]; other site 565050001163 TPP binding site [chemical binding]; other site 565050001164 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 565050001165 TPP-binding site [chemical binding]; other site 565050001166 dimer interface [polypeptide binding]; other site 565050001167 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050001168 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 565050001169 enoyl-CoA hydratase; Provisional; Region: PRK06688 565050001170 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050001171 substrate binding site [chemical binding]; other site 565050001172 oxyanion hole (OAH) forming residues; other site 565050001173 trimer interface [polypeptide binding]; other site 565050001174 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 565050001175 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 565050001176 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 565050001177 putative NAD(P) binding site [chemical binding]; other site 565050001178 active site 565050001179 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 565050001180 short chain dehydrogenase; Provisional; Region: PRK08278 565050001181 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 565050001182 NAD(P) binding site [chemical binding]; other site 565050001183 homodimer interface [polypeptide binding]; other site 565050001184 active site 565050001185 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050001186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050001187 Coenzyme A binding pocket [chemical binding]; other site 565050001188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050001189 Coenzyme A binding pocket [chemical binding]; other site 565050001190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 565050001191 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 565050001192 putative active site [active] 565050001193 putative CoA binding site [chemical binding]; other site 565050001194 nudix motif; other site 565050001195 metal binding site [ion binding]; metal-binding site 565050001196 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 565050001197 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 565050001198 catalytic triad [active] 565050001199 Predicted membrane protein [Function unknown]; Region: COG3671 565050001200 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 565050001201 Fasciclin domain; Region: Fasciclin; pfam02469 565050001202 short chain dehydrogenase; Provisional; Region: PRK09134 565050001203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050001204 NAD(P) binding site [chemical binding]; other site 565050001205 active site 565050001206 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 565050001207 nudix motif; other site 565050001208 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 565050001209 NAD binding site [chemical binding]; other site 565050001210 catalytic residues [active] 565050001211 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 565050001212 putative active site [active] 565050001213 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 565050001214 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 565050001215 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 565050001216 putative DNA binding site [nucleotide binding]; other site 565050001217 putative Zn2+ binding site [ion binding]; other site 565050001218 AsnC family; Region: AsnC_trans_reg; pfam01037 565050001219 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 565050001220 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050001221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050001222 active site 565050001223 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 565050001224 heme-binding site [chemical binding]; other site 565050001225 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001226 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050001227 dimer interface [polypeptide binding]; other site 565050001228 putative CheW interface [polypeptide binding]; other site 565050001229 HAMP domain; Region: HAMP; pfam00672 565050001230 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 565050001231 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001232 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050001233 dimer interface [polypeptide binding]; other site 565050001234 putative CheW interface [polypeptide binding]; other site 565050001235 STAS domain; Region: STAS_2; pfam13466 565050001236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001237 active site 565050001238 phosphorylation site [posttranslational modification] 565050001239 intermolecular recognition site; other site 565050001240 dimerization interface [polypeptide binding]; other site 565050001241 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 565050001242 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 565050001243 putative binding surface; other site 565050001244 active site 565050001245 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 565050001246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050001247 ATP binding site [chemical binding]; other site 565050001248 Mg2+ binding site [ion binding]; other site 565050001249 G-X-G motif; other site 565050001250 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 565050001251 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 565050001252 putative CheA interaction surface; other site 565050001253 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 565050001254 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 565050001255 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 565050001256 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 565050001257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001258 active site 565050001259 phosphorylation site [posttranslational modification] 565050001260 intermolecular recognition site; other site 565050001261 dimerization interface [polypeptide binding]; other site 565050001262 CheB methylesterase; Region: CheB_methylest; pfam01339 565050001263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001264 active site 565050001265 phosphorylation site [posttranslational modification] 565050001266 intermolecular recognition site; other site 565050001267 dimerization interface [polypeptide binding]; other site 565050001268 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 565050001269 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050001270 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001271 active site 565050001272 phosphorylation site [posttranslational modification] 565050001273 intermolecular recognition site; other site 565050001274 dimerization interface [polypeptide binding]; other site 565050001275 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050001276 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 565050001277 N-terminal plug; other site 565050001278 ligand-binding site [chemical binding]; other site 565050001279 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 565050001280 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 565050001281 active site 565050001282 dimer interface [polypeptide binding]; other site 565050001283 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 565050001284 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 565050001285 dimer interface [polypeptide binding]; other site 565050001286 active site 565050001287 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 565050001288 dimer interface [polypeptide binding]; other site 565050001289 active site 565050001290 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 565050001291 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050001292 DNA-binding site [nucleotide binding]; DNA binding site 565050001293 UTRA domain; Region: UTRA; pfam07702 565050001294 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050001295 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 565050001296 N-terminal plug; other site 565050001297 ligand-binding site [chemical binding]; other site 565050001298 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 565050001299 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 565050001300 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 565050001301 active site 565050001302 Fn3 associated; Region: Fn3_assoc; pfam13287 565050001303 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 565050001304 HPr interaction site; other site 565050001305 glycerol kinase (GK) interaction site [polypeptide binding]; other site 565050001306 active site 565050001307 phosphorylation site [posttranslational modification] 565050001308 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 565050001309 dimerization domain swap beta strand [polypeptide binding]; other site 565050001310 regulatory protein interface [polypeptide binding]; other site 565050001311 active site 565050001312 regulatory phosphorylation site [posttranslational modification]; other site 565050001313 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 565050001314 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 565050001315 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 565050001316 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 565050001317 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 565050001318 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 565050001319 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 565050001320 active site turn [active] 565050001321 phosphorylation site [posttranslational modification] 565050001322 Phosphotransferase system IIB components [Carbohydrate transport and metabolism]; Region: PtsG; COG1264 565050001323 active site turn [active] 565050001324 phosphorylation site [posttranslational modification] 565050001325 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 565050001326 prophage element 565050001327 Bacterial sugar transferase; Region: Bac_transf; cl00939 565050001328 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050001329 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 565050001330 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 565050001331 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 565050001332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050001333 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 565050001334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050001335 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 565050001336 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 565050001337 NADP binding site [chemical binding]; other site 565050001338 active site 565050001339 putative substrate binding site [chemical binding]; other site 565050001340 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 565050001341 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 565050001342 NADP-binding site; other site 565050001343 homotetramer interface [polypeptide binding]; other site 565050001344 substrate binding site [chemical binding]; other site 565050001345 homodimer interface [polypeptide binding]; other site 565050001346 active site 565050001347 TrwC relaxase; Region: TrwC; pfam08751 565050001348 AAA domain; Region: AAA_30; pfam13604 565050001349 AAA domain; Region: AAA_11; pfam13086 565050001350 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 565050001351 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 565050001352 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 565050001353 Walker A motif; other site 565050001354 ATP binding site [chemical binding]; other site 565050001355 Walker B motif; other site 565050001356 Helix-turn-helix domain; Region: HTH_17; cl17695 565050001357 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 565050001358 non-specific DNA binding site [nucleotide binding]; other site 565050001359 salt bridge; other site 565050001360 sequence-specific DNA binding site [nucleotide binding]; other site 565050001361 HipA N-terminal domain; Region: Couple_hipA; pfam13657 565050001362 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 565050001363 HipA-like N-terminal domain; Region: HipA_N; pfam07805 565050001364 HipA-like C-terminal domain; Region: HipA_C; pfam07804 565050001365 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 565050001366 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 565050001367 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 565050001368 RNA binding surface [nucleotide binding]; other site 565050001369 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 565050001370 active site 565050001371 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050001372 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 565050001373 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 565050001374 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 565050001375 putative active site [active] 565050001376 putative metal binding site [ion binding]; other site 565050001377 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 565050001378 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 565050001379 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 565050001380 active site 565050001381 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 565050001382 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 565050001383 active site 565050001384 HIGH motif; other site 565050001385 KMSKS motif; other site 565050001386 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 565050001387 tRNA binding surface [nucleotide binding]; other site 565050001388 anticodon binding site; other site 565050001389 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 565050001390 putative hydrophobic ligand binding site [chemical binding]; other site 565050001391 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 565050001392 trimerization site [polypeptide binding]; other site 565050001393 active site 565050001394 hypothetical protein; Provisional; Region: PRK14387 565050001395 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 565050001396 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 565050001397 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 565050001398 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 565050001399 active site 565050001400 dimer interface [polypeptide binding]; other site 565050001401 motif 1; other site 565050001402 motif 2; other site 565050001403 motif 3; other site 565050001404 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 565050001405 anticodon binding site; other site 565050001406 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 565050001407 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 565050001408 Probable Catalytic site; other site 565050001409 metal-binding site 565050001410 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 565050001411 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 565050001412 active site 565050001413 catalytic residues [active] 565050001414 metal binding site [ion binding]; metal-binding site 565050001415 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 565050001416 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 565050001417 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 565050001418 Ligand binding site; other site 565050001419 Putative Catalytic site; other site 565050001420 DXD motif; other site 565050001421 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 565050001422 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 565050001423 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 565050001424 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 565050001425 [2Fe-2S] cluster binding site [ion binding]; other site 565050001426 cytochrome b; Provisional; Region: CYTB; MTH00191 565050001427 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 565050001428 Qi binding site; other site 565050001429 intrachain domain interface; other site 565050001430 interchain domain interface [polypeptide binding]; other site 565050001431 heme bH binding site [chemical binding]; other site 565050001432 heme bL binding site [chemical binding]; other site 565050001433 Qo binding site; other site 565050001434 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 565050001435 interchain domain interface [polypeptide binding]; other site 565050001436 intrachain domain interface; other site 565050001437 Qi binding site; other site 565050001438 Qo binding site; other site 565050001439 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 565050001440 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 565050001441 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 565050001442 inhibitor binding site; inhibition site 565050001443 catalytic motif [active] 565050001444 Catalytic residue [active] 565050001445 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 565050001446 catalytic core [active] 565050001447 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050001448 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050001449 GTP-binding protein YchF; Reviewed; Region: PRK09601 565050001450 YchF GTPase; Region: YchF; cd01900 565050001451 G1 box; other site 565050001452 GTP/Mg2+ binding site [chemical binding]; other site 565050001453 Switch I region; other site 565050001454 G2 box; other site 565050001455 Switch II region; other site 565050001456 G3 box; other site 565050001457 G4 box; other site 565050001458 G5 box; other site 565050001459 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 565050001460 Pirin-related protein [General function prediction only]; Region: COG1741 565050001461 Pirin; Region: Pirin; pfam02678 565050001462 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 565050001463 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 565050001464 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 565050001465 THF binding site; other site 565050001466 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 565050001467 substrate binding site [chemical binding]; other site 565050001468 THF binding site; other site 565050001469 zinc-binding site [ion binding]; other site 565050001470 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 565050001471 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 565050001472 TPR motif; other site 565050001473 binding surface 565050001474 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 565050001475 putative active site [active] 565050001476 catalytic residue [active] 565050001477 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 565050001478 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 565050001479 5S rRNA interface [nucleotide binding]; other site 565050001480 CTC domain interface [polypeptide binding]; other site 565050001481 L16 interface [polypeptide binding]; other site 565050001482 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 565050001483 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 565050001484 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 565050001485 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565050001486 active site 565050001487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 565050001488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 565050001489 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 565050001490 Uncharacterized conserved protein [Function unknown]; Region: COG1565 565050001491 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 565050001492 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 565050001493 Membrane fusogenic activity; Region: BMFP; pfam04380 565050001494 Uncharacterized conserved protein [Function unknown]; Region: COG5465 565050001495 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 565050001496 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 565050001497 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 565050001498 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 565050001499 23S rRNA interface [nucleotide binding]; other site 565050001500 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 565050001501 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 565050001502 peripheral dimer interface [polypeptide binding]; other site 565050001503 core dimer interface [polypeptide binding]; other site 565050001504 L10 interface [polypeptide binding]; other site 565050001505 L11 interface [polypeptide binding]; other site 565050001506 putative EF-Tu interaction site [polypeptide binding]; other site 565050001507 putative EF-G interaction site [polypeptide binding]; other site 565050001508 RDD family; Region: RDD; pfam06271 565050001509 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 565050001510 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 565050001511 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 565050001512 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 565050001513 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 565050001514 RPB12 interaction site [polypeptide binding]; other site 565050001515 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 565050001516 RPB1 interaction site [polypeptide binding]; other site 565050001517 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 565050001518 RPB10 interaction site [polypeptide binding]; other site 565050001519 RPB11 interaction site [polypeptide binding]; other site 565050001520 RPB3 interaction site [polypeptide binding]; other site 565050001521 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 565050001522 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 565050001523 beta and beta' interface [polypeptide binding]; other site 565050001524 beta' and sigma factor interface [polypeptide binding]; other site 565050001525 Zn-binding [ion binding]; other site 565050001526 active site region [active] 565050001527 catalytic site [active] 565050001528 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 565050001529 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 565050001530 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 565050001531 G-loop; other site 565050001532 DNA binding site [nucleotide binding] 565050001533 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 565050001534 dimerization interface [polypeptide binding]; other site 565050001535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050001537 dimer interface [polypeptide binding]; other site 565050001538 putative CheW interface [polypeptide binding]; other site 565050001539 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 565050001540 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 565050001541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 565050001542 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 565050001543 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 565050001544 putative acyltransferase; Provisional; Region: PRK05790 565050001545 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050001546 dimer interface [polypeptide binding]; other site 565050001547 active site 565050001548 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 565050001549 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 565050001550 NAD(P) binding site [chemical binding]; other site 565050001551 homotetramer interface [polypeptide binding]; other site 565050001552 homodimer interface [polypeptide binding]; other site 565050001553 active site 565050001554 Transposase; Region: HTH_Tnp_1; pfam01527 565050001555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 565050001556 HTH-like domain; Region: HTH_21; pfam13276 565050001557 Integrase core domain; Region: rve; pfam00665 565050001558 Integrase core domain; Region: rve_3; pfam13683 565050001559 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050001560 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050001561 DNA binding site [nucleotide binding] 565050001562 domain linker motif; other site 565050001563 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 565050001564 putative dimerization interface [polypeptide binding]; other site 565050001565 putative ligand binding site [chemical binding]; other site 565050001566 Uncharacterized conserved protein [Function unknown]; Region: COG3542 565050001567 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 565050001568 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 565050001569 S-adenosylmethionine binding site [chemical binding]; other site 565050001570 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 565050001571 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 565050001572 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 565050001573 putative active site [active] 565050001574 catalytic site [active] 565050001575 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 565050001576 PLD-like domain; Region: PLDc_2; pfam13091 565050001577 putative active site [active] 565050001578 catalytic site [active] 565050001579 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 565050001580 putative catalytic site [active] 565050001581 putative metal binding site [ion binding]; other site 565050001582 putative phosphate binding site [ion binding]; other site 565050001583 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 565050001584 S-adenosylmethionine binding site [chemical binding]; other site 565050001585 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 565050001586 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 565050001587 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 565050001588 catalytic core [active] 565050001589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 565050001590 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 565050001591 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 565050001592 quinone interaction residues [chemical binding]; other site 565050001593 active site 565050001594 catalytic residues [active] 565050001595 FMN binding site [chemical binding]; other site 565050001596 substrate binding site [chemical binding]; other site 565050001597 Uncharacterized conserved protein [Function unknown]; Region: COG0398 565050001598 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050001599 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 565050001600 dimer interface [polypeptide binding]; other site 565050001601 phosphorylation site [posttranslational modification] 565050001602 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050001603 ATP binding site [chemical binding]; other site 565050001604 Mg2+ binding site [ion binding]; other site 565050001605 G-X-G motif; other site 565050001606 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 565050001607 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 565050001608 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 565050001609 metal binding site [ion binding]; metal-binding site 565050001610 substrate binding pocket [chemical binding]; other site 565050001611 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 565050001612 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 565050001613 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 565050001614 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 565050001615 active site 565050001616 dimer interface [polypeptide binding]; other site 565050001617 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 565050001618 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 565050001619 dimer interface [polypeptide binding]; other site 565050001620 active site 565050001621 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 565050001622 dimer interface [polypeptide binding]; other site 565050001623 active site 565050001624 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 565050001625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050001626 DNA-binding site [nucleotide binding]; DNA binding site 565050001627 UTRA domain; Region: UTRA; pfam07702 565050001628 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 565050001629 HPr interaction site; other site 565050001630 glycerol kinase (GK) interaction site [polypeptide binding]; other site 565050001631 active site 565050001632 phosphorylation site [posttranslational modification] 565050001633 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 565050001634 dimerization domain swap beta strand [polypeptide binding]; other site 565050001635 regulatory protein interface [polypeptide binding]; other site 565050001636 active site 565050001637 regulatory phosphorylation site [posttranslational modification]; other site 565050001638 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 565050001639 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 565050001640 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 565050001641 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 565050001642 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 565050001643 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 565050001644 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 565050001645 active site turn [active] 565050001646 phosphorylation site [posttranslational modification] 565050001647 Phosphotransferase system IIB components [Carbohydrate transport and metabolism]; Region: PtsG; COG1264 565050001648 active site turn [active] 565050001649 phosphorylation site [posttranslational modification] 565050001650 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 565050001651 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 565050001652 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 565050001653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 565050001654 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 565050001655 catalytic core [active] 565050001656 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 565050001657 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050001658 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 565050001659 active site 565050001660 substrate binding site [chemical binding]; other site 565050001661 Mg2+ binding site [ion binding]; other site 565050001662 AAA ATPase domain; Region: AAA_16; pfam13191 565050001663 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 565050001664 LytTr DNA-binding domain; Region: LytTR; pfam04397 565050001665 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050001666 TAP-like protein; Region: Abhydrolase_4; pfam08386 565050001667 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 565050001668 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050001669 amidophosphoribosyltransferase; Provisional; Region: PRK07847 565050001670 Ferritin-like; Region: Ferritin-like; pfam12902 565050001671 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 565050001672 FecR protein; Region: FecR; pfam04773 565050001673 Secretin and TonB N terminus short domain; Region: STN; smart00965 565050001674 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050001675 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 565050001676 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050001677 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 565050001678 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 565050001679 MoxR-like ATPases [General function prediction only]; Region: COG0714 565050001680 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 565050001681 Walker A motif; other site 565050001682 ATP binding site [chemical binding]; other site 565050001683 Walker B motif; other site 565050001684 arginine finger; other site 565050001685 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 565050001686 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565050001687 metal ion-dependent adhesion site (MIDAS); other site 565050001688 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 565050001689 Predicted membrane protein/domain [Function unknown]; Region: COG1714 565050001690 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050001691 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 565050001692 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 565050001693 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 565050001694 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050001695 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050001696 DNA binding site [nucleotide binding] 565050001697 domain linker motif; other site 565050001698 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 565050001699 dimerization interface [polypeptide binding]; other site 565050001700 ligand binding site [chemical binding]; other site 565050001701 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 565050001702 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 565050001703 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050001704 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 565050001705 catalytic nucleophile [active] 565050001706 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 565050001707 proposed catalytic triad [active] 565050001708 active site nucleophile [active] 565050001709 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050001710 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 565050001711 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 565050001712 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 565050001713 NAD(P) binding site [chemical binding]; other site 565050001714 catalytic residues [active] 565050001715 Succinylarginine dihydrolase; Region: AstB; pfam04996 565050001716 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 565050001717 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 565050001718 inhibitor-cofactor binding pocket; inhibition site 565050001719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050001720 catalytic residue [active] 565050001721 PAS domain S-box; Region: sensory_box; TIGR00229 565050001722 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001723 putative active site [active] 565050001724 heme pocket [chemical binding]; other site 565050001725 PAS domain S-box; Region: sensory_box; TIGR00229 565050001726 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001727 putative active site [active] 565050001728 heme pocket [chemical binding]; other site 565050001729 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 565050001730 dimer interface [polypeptide binding]; other site 565050001731 phosphorylation site [posttranslational modification] 565050001732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050001733 ATP binding site [chemical binding]; other site 565050001734 Mg2+ binding site [ion binding]; other site 565050001735 G-X-G motif; other site 565050001736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 565050001737 phosphorylation site [posttranslational modification] 565050001738 intermolecular recognition site; other site 565050001739 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 565050001740 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001741 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001742 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001743 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001744 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050001745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050001746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001747 active site 565050001748 phosphorylation site [posttranslational modification] 565050001749 intermolecular recognition site; other site 565050001750 dimerization interface [polypeptide binding]; other site 565050001751 HAMP domain; Region: HAMP; pfam00672 565050001752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050001754 dimer interface [polypeptide binding]; other site 565050001755 putative CheW interface [polypeptide binding]; other site 565050001756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001757 active site 565050001758 phosphorylation site [posttranslational modification] 565050001759 intermolecular recognition site; other site 565050001760 dimerization interface [polypeptide binding]; other site 565050001761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050001762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 565050001763 dimer interface [polypeptide binding]; other site 565050001764 putative CheW interface [polypeptide binding]; other site 565050001765 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 565050001766 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 565050001767 putative binding surface; other site 565050001768 active site 565050001769 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 565050001770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050001771 ATP binding site [chemical binding]; other site 565050001772 Mg2+ binding site [ion binding]; other site 565050001773 G-X-G motif; other site 565050001774 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 565050001775 CheW-like domain; Region: CheW; pfam01584 565050001776 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 565050001777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050001778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001779 active site 565050001780 phosphorylation site [posttranslational modification] 565050001781 intermolecular recognition site; other site 565050001782 dimerization interface [polypeptide binding]; other site 565050001783 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 565050001784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001785 active site 565050001786 phosphorylation site [posttranslational modification] 565050001787 intermolecular recognition site; other site 565050001788 dimerization interface [polypeptide binding]; other site 565050001789 CheB methylesterase; Region: CheB_methylest; pfam01339 565050001790 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 565050001791 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 565050001792 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 565050001793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 565050001794 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 565050001795 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 565050001796 putative internal virion protein; Provisional; Region: PHA03415 565050001797 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 565050001798 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 565050001799 Surface antigen; Region: Bac_surface_Ag; pfam01103 565050001800 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 565050001801 NMT1-like family; Region: NMT1_2; pfam13379 565050001802 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 565050001803 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 565050001804 dimer interface [polypeptide binding]; other site 565050001805 conserved gate region; other site 565050001806 putative PBP binding loops; other site 565050001807 ABC-ATPase subunit interface; other site 565050001808 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 565050001809 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 565050001810 Walker A/P-loop; other site 565050001811 ATP binding site [chemical binding]; other site 565050001812 Q-loop/lid; other site 565050001813 ABC transporter signature motif; other site 565050001814 Walker B; other site 565050001815 D-loop; other site 565050001816 H-loop/switch region; other site 565050001817 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 565050001818 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 565050001819 active site 565050001820 phosphorylation site [posttranslational modification] 565050001821 intermolecular recognition site; other site 565050001822 ANTAR domain; Region: ANTAR; pfam03861 565050001823 NMT1-like family; Region: NMT1_2; pfam13379 565050001824 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 565050001825 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 565050001826 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050001827 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565050001828 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050001829 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 565050001830 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 565050001831 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 565050001832 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 565050001833 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 565050001834 [2Fe-2S] cluster binding site [ion binding]; other site 565050001835 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 565050001836 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 565050001837 [4Fe-4S] binding site [ion binding]; other site 565050001838 molybdopterin cofactor binding site; other site 565050001839 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 565050001840 molybdopterin cofactor binding site; other site 565050001841 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 565050001842 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 565050001843 active site 565050001844 SAM binding site [chemical binding]; other site 565050001845 homodimer interface [polypeptide binding]; other site 565050001846 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 565050001847 HsdM N-terminal domain; Region: HsdM_N; pfam12161 565050001848 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565050001849 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 565050001850 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 565050001851 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 565050001852 Uncharacterized conserved protein [Function unknown]; Region: COG4127 565050001853 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 565050001854 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 565050001855 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 565050001856 ATP binding site [chemical binding]; other site 565050001857 putative Mg++ binding site [ion binding]; other site 565050001858 Helix-turn-helix domain; Region: HTH_28; pfam13518 565050001859 putative transposase OrfB; Reviewed; Region: PHA02517 565050001860 Homeodomain-like domain; Region: HTH_32; pfam13565 565050001861 Integrase core domain; Region: rve; pfam00665 565050001862 Integrase core domain; Region: rve_3; pfam13683 565050001863 Transposase; Region: HTH_Tnp_1; cl17663 565050001864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 565050001865 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 565050001866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050001867 HWE histidine kinase; Region: HWE_HK; pfam07536 565050001868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001869 active site 565050001870 phosphorylation site [posttranslational modification] 565050001871 intermolecular recognition site; other site 565050001872 dimerization interface [polypeptide binding]; other site 565050001873 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]; Region: COG4421 565050001874 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]; Region: COG4421 565050001875 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 565050001876 putative ligand binding site [chemical binding]; other site 565050001877 putative catalytic site [active] 565050001878 Rhamnan synthesis protein F; Region: RgpF; pfam05045 565050001879 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 565050001880 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 565050001881 Walker A/P-loop; other site 565050001882 ATP binding site [chemical binding]; other site 565050001883 Q-loop/lid; other site 565050001884 ABC transporter signature motif; other site 565050001885 Walker B; other site 565050001886 D-loop; other site 565050001887 H-loop/switch region; other site 565050001888 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 565050001889 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 565050001890 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 565050001891 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 565050001892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050001893 Predicted flavoproteins [General function prediction only]; Region: COG2081 565050001894 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050001895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050001896 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 565050001897 putative active site [active] 565050001898 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 565050001899 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 565050001900 mRNA/rRNA interface [nucleotide binding]; other site 565050001901 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 565050001902 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 565050001903 23S rRNA interface [nucleotide binding]; other site 565050001904 L7/L12 interface [polypeptide binding]; other site 565050001905 putative thiostrepton binding site; other site 565050001906 L25 interface [polypeptide binding]; other site 565050001907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 565050001908 Transposase; Region: DEDD_Tnp_IS110; pfam01548 565050001909 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 565050001910 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 565050001911 putative catalytic residue [active] 565050001912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050001913 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 565050001914 NAD(P) binding site [chemical binding]; other site 565050001915 active site 565050001916 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 565050001917 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 565050001918 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 565050001919 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 565050001920 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 565050001921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050001922 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 565050001923 DNA binding residues [nucleotide binding] 565050001924 Peptidase family S41; Region: Peptidase_S41; pfam03572 565050001925 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001926 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050001927 putative active site [active] 565050001928 heme pocket [chemical binding]; other site 565050001929 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001930 putative active site [active] 565050001931 heme pocket [chemical binding]; other site 565050001932 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050001933 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001934 putative active site [active] 565050001935 heme pocket [chemical binding]; other site 565050001936 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 565050001937 dimer interface [polypeptide binding]; other site 565050001938 phosphorylation site [posttranslational modification] 565050001939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050001940 ATP binding site [chemical binding]; other site 565050001941 Mg2+ binding site [ion binding]; other site 565050001942 G-X-G motif; other site 565050001943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050001944 active site 565050001945 phosphorylation site [posttranslational modification] 565050001946 intermolecular recognition site; other site 565050001947 dimerization interface [polypeptide binding]; other site 565050001948 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 565050001949 Ferredoxin [Energy production and conversion]; Region: COG1146 565050001950 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 565050001951 4Fe-4S binding domain; Region: Fer4; pfam00037 565050001952 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 565050001953 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050001954 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050001955 putative active site [active] 565050001956 heme pocket [chemical binding]; other site 565050001957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050001958 metal binding site [ion binding]; metal-binding site 565050001959 active site 565050001960 I-site; other site 565050001961 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 565050001962 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 565050001963 RNA binding surface [nucleotide binding]; other site 565050001964 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 565050001965 ATP binding site [chemical binding]; other site 565050001966 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 565050001967 putative Mg++ binding site [ion binding]; other site 565050001968 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 565050001969 nucleotide binding region [chemical binding]; other site 565050001970 CRISPR/Cas system-associated protein Cas3; Distinct Cas3 family with HD domain fused to C-termus of Helicase domain; Region: Cas3_I; cd09696 565050001971 ATP-binding site [chemical binding]; other site 565050001972 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 565050001973 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 565050001974 active site 565050001975 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 565050001976 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 565050001977 DNA binding site [nucleotide binding] 565050001978 active site 565050001979 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 565050001980 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 565050001981 DNA-binding site [nucleotide binding]; DNA binding site 565050001982 RNA-binding motif; other site 565050001983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 565050001984 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 565050001985 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 565050001986 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 565050001987 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 565050001988 metal ion-dependent adhesion site (MIDAS); other site 565050001989 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 565050001990 Inner membrane complex protein; Region: IMCp; pfam12314 565050001991 Inner membrane complex protein; Region: IMCp; pfam12314 565050001992 CAAX protease self-immunity; Region: Abi; pfam02517 565050001993 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 565050001994 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 565050001995 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050001996 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 565050001997 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_C39C; cd02419 565050001998 putative active site [active] 565050001999 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050002000 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 565050002001 Walker A/P-loop; other site 565050002002 ATP binding site [chemical binding]; other site 565050002003 Q-loop/lid; other site 565050002004 ABC transporter signature motif; other site 565050002005 Walker B; other site 565050002006 D-loop; other site 565050002007 H-loop/switch region; other site 565050002008 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 565050002009 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 565050002010 ring oligomerisation interface [polypeptide binding]; other site 565050002011 ATP/Mg binding site [chemical binding]; other site 565050002012 stacking interactions; other site 565050002013 hinge regions; other site 565050002014 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 565050002015 oligomerisation interface [polypeptide binding]; other site 565050002016 mobile loop; other site 565050002017 roof hairpin; other site 565050002018 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 565050002019 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 565050002020 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 565050002021 DNA binding site [nucleotide binding] 565050002022 active site 565050002023 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050002024 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050002025 active site 565050002026 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 565050002027 DNA binding residues [nucleotide binding] 565050002028 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 565050002029 dimer interface [polypeptide binding]; other site 565050002030 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 565050002031 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 565050002032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002033 ATP binding site [chemical binding]; other site 565050002034 Mg2+ binding site [ion binding]; other site 565050002035 G-X-G motif; other site 565050002036 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 565050002037 ATP binding site [chemical binding]; other site 565050002038 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 565050002039 TraB family; Region: TraB; pfam01963 565050002040 TraB family; Region: TraB; pfam01963 565050002041 TraB family; Region: TraB; pfam01963 565050002042 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 565050002043 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 565050002044 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565050002045 active site 565050002046 HIGH motif; other site 565050002047 nucleotide binding site [chemical binding]; other site 565050002048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565050002049 active site 565050002050 KMSKS motif; other site 565050002051 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 565050002052 tRNA binding surface [nucleotide binding]; other site 565050002053 anticodon binding site; other site 565050002054 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050002055 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050002056 protein binding site [polypeptide binding]; other site 565050002057 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 565050002058 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 565050002059 active site 565050002060 Riboflavin kinase; Region: Flavokinase; pfam01687 565050002061 Predicted membrane protein [Function unknown]; Region: COG4094 565050002062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 565050002063 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 565050002064 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 565050002065 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 565050002066 DNA binding site [nucleotide binding] 565050002067 active site 565050002068 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 565050002069 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 565050002070 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 565050002071 G1 box; other site 565050002072 GTP/Mg2+ binding site [chemical binding]; other site 565050002073 Switch I region; other site 565050002074 G2 box; other site 565050002075 G3 box; other site 565050002076 Switch II region; other site 565050002077 G4 box; other site 565050002078 G5 box; other site 565050002079 Nucleoside recognition; Region: Gate; pfam07670 565050002080 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 565050002081 Nucleoside recognition; Region: Gate; pfam07670 565050002082 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 565050002083 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 565050002084 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050002085 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 565050002086 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 565050002087 FeS/SAM binding site; other site 565050002088 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 565050002089 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 565050002090 tellurite resistance protein terB; Region: terB; cd07176 565050002091 putative metal binding site [ion binding]; other site 565050002092 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 565050002093 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 565050002094 motif 1; other site 565050002095 dimer interface [polypeptide binding]; other site 565050002096 active site 565050002097 motif 2; other site 565050002098 motif 3; other site 565050002099 elongation factor P; Validated; Region: PRK00529 565050002100 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 565050002101 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 565050002102 RNA binding site [nucleotide binding]; other site 565050002103 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 565050002104 RNA binding site [nucleotide binding]; other site 565050002105 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050002106 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 565050002107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050002108 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 565050002109 dimer interface [polypeptide binding]; other site 565050002110 phosphorylation site [posttranslational modification] 565050002111 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002112 ATP binding site [chemical binding]; other site 565050002113 Mg2+ binding site [ion binding]; other site 565050002114 G-X-G motif; other site 565050002115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002116 active site 565050002117 phosphorylation site [posttranslational modification] 565050002118 intermolecular recognition site; other site 565050002119 dimerization interface [polypeptide binding]; other site 565050002120 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 565050002121 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 565050002122 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 565050002123 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 565050002124 Ligand binding site [chemical binding]; other site 565050002125 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 565050002126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002128 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002129 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002130 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 565050002131 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 565050002132 [2Fe-2S] cluster binding site [ion binding]; other site 565050002133 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 565050002134 hydrophobic ligand binding site; other site 565050002135 hypothetical protein; Provisional; Region: PRK08912 565050002136 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 565050002137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050002138 homodimer interface [polypeptide binding]; other site 565050002139 catalytic residue [active] 565050002140 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 565050002141 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 565050002142 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 565050002143 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 565050002144 G1 box; other site 565050002145 putative GEF interaction site [polypeptide binding]; other site 565050002146 GTP/Mg2+ binding site [chemical binding]; other site 565050002147 Switch I region; other site 565050002148 G2 box; other site 565050002149 G3 box; other site 565050002150 Switch II region; other site 565050002151 G4 box; other site 565050002152 G5 box; other site 565050002153 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 565050002154 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 565050002155 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 565050002156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002157 active site 565050002158 phosphorylation site [posttranslational modification] 565050002159 intermolecular recognition site; other site 565050002160 dimerization interface [polypeptide binding]; other site 565050002161 Zinc-dependent metalloprotease; Region: ZnMc; smart00235 565050002162 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 565050002163 active site 565050002164 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 565050002165 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 565050002166 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 565050002167 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 565050002168 ligand binding site [chemical binding]; other site 565050002169 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 565050002170 Uncharacterized conserved protein [Function unknown]; Region: COG4121 565050002171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050002172 flagellar motor protein MotA; Validated; Region: PRK09110 565050002173 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 565050002174 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 565050002175 ligand binding site [chemical binding]; other site 565050002176 flexible hinge region; other site 565050002177 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 565050002178 putative switch regulator; other site 565050002179 non-specific DNA interactions [nucleotide binding]; other site 565050002180 DNA binding site [nucleotide binding] 565050002181 sequence specific DNA binding site [nucleotide binding]; other site 565050002182 putative cAMP binding site [chemical binding]; other site 565050002183 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002184 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 565050002185 Predicted permeases [General function prediction only]; Region: COG0795 565050002186 response regulator FixJ; Provisional; Region: fixJ; PRK09390 565050002187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002188 active site 565050002189 phosphorylation site [posttranslational modification] 565050002190 intermolecular recognition site; other site 565050002191 dimerization interface [polypeptide binding]; other site 565050002192 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 565050002193 DNA binding residues [nucleotide binding] 565050002194 dimerization interface [polypeptide binding]; other site 565050002195 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 565050002196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050002197 Walker A/P-loop; other site 565050002198 ATP binding site [chemical binding]; other site 565050002199 Q-loop/lid; other site 565050002200 ABC transporter signature motif; other site 565050002201 Walker B; other site 565050002202 D-loop; other site 565050002203 H-loop/switch region; other site 565050002204 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 565050002205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050002206 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 565050002207 Walker A/P-loop; other site 565050002208 ATP binding site [chemical binding]; other site 565050002209 Q-loop/lid; other site 565050002210 ABC transporter signature motif; other site 565050002211 Walker B; other site 565050002212 D-loop; other site 565050002213 H-loop/switch region; other site 565050002214 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 565050002215 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 565050002216 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 565050002217 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 565050002218 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 565050002219 membrane protein insertase; Provisional; Region: PRK01318 565050002220 YidC periplasmic domain; Region: YidC_periplas; pfam14849 565050002221 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 565050002222 RNase P protein component [Translation, ribosomal structure and biogenesis]; Region: RnpA; COG0594 565050002223 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 565050002224 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 565050002225 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 565050002226 NAD(P) binding site [chemical binding]; other site 565050002227 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050002228 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 565050002229 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 565050002230 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 565050002231 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 565050002232 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 565050002233 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 565050002234 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050002235 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 565050002236 putative C-terminal domain interface [polypeptide binding]; other site 565050002237 putative GSH binding site (G-site) [chemical binding]; other site 565050002238 putative dimer interface [polypeptide binding]; other site 565050002239 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 565050002240 N-terminal domain interface [polypeptide binding]; other site 565050002241 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 565050002242 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050002243 dimer interface [polypeptide binding]; other site 565050002244 active site 565050002245 Transcriptional regulators [Transcription]; Region: FadR; COG2186 565050002246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050002247 DNA-binding site [nucleotide binding]; DNA binding site 565050002248 FCD domain; Region: FCD; pfam07729 565050002249 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 565050002250 active site 565050002251 intersubunit interface [polypeptide binding]; other site 565050002252 catalytic residue [active] 565050002253 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 565050002254 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050002255 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 565050002256 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050002257 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 565050002258 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 565050002259 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 565050002260 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 565050002261 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; cl08459 565050002262 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 565050002263 putative active site [active] 565050002264 putative catalytic site [active] 565050002265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050002266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050002267 LysR substrate binding domain; Region: LysR_substrate; pfam03466 565050002268 dimerization interface [polypeptide binding]; other site 565050002269 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 565050002270 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050002271 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050002272 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050002273 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050002274 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050002275 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050002276 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050002277 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050002278 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050002279 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 565050002280 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 565050002281 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565050002282 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050002283 Domain of unknown function (DUF303); Region: DUF303; pfam03629 565050002284 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 565050002285 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 565050002286 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 565050002287 substrate binding pocket [chemical binding]; other site 565050002288 catalytic triad [active] 565050002289 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 565050002290 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 565050002291 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 565050002292 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 565050002293 Proline dehydrogenase; Region: Pro_dh; pfam01619 565050002294 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 565050002295 Glutamate binding site [chemical binding]; other site 565050002296 NAD binding site [chemical binding]; other site 565050002297 catalytic residues [active] 565050002298 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 565050002299 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 565050002300 putative DNA binding site [nucleotide binding]; other site 565050002301 putative Zn2+ binding site [ion binding]; other site 565050002302 AsnC family; Region: AsnC_trans_reg; pfam01037 565050002303 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 565050002304 Outer membrane efflux protein; Region: OEP; pfam02321 565050002305 Outer membrane efflux protein; Region: OEP; pfam02321 565050002306 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 565050002307 MMPL family; Region: MMPL; cl14618 565050002308 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 565050002309 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 565050002310 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050002311 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002312 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002313 Helix-turn-helix domain; Region: HTH_40; pfam14493 565050002314 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 565050002315 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565050002316 Beta-Casp domain; Region: Beta-Casp; smart01027 565050002317 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 565050002318 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 565050002319 active site 565050002320 catalytic triad [active] 565050002321 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 565050002322 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 565050002323 active site 565050002324 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050002325 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 565050002326 Outer membrane protein beta-barrel family; Region: OMP_b-brl_3; pfam14905 565050002327 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 565050002328 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 565050002329 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050002330 classical (c) SDRs; Region: SDR_c; cd05233 565050002331 NAD(P) binding site [chemical binding]; other site 565050002332 active site 565050002333 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 565050002334 NAD(P) binding site [chemical binding]; other site 565050002335 catalytic residues [active] 565050002336 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 565050002337 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 565050002338 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 565050002339 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565050002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 565050002341 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 565050002342 putative active site [active] 565050002343 catalytic triad [active] 565050002344 dimer interface [polypeptide binding]; other site 565050002345 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 565050002346 GSH binding site [chemical binding]; other site 565050002347 catalytic residues [active] 565050002348 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 565050002349 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565050002350 active site 565050002351 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 565050002352 Methyltransferase domain; Region: Methyltransf_11; pfam08241 565050002353 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 565050002354 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 565050002355 active site 565050002356 8-oxo-dGMP binding site [chemical binding]; other site 565050002357 nudix motif; other site 565050002358 metal binding site [ion binding]; metal-binding site 565050002359 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 565050002360 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 565050002361 ATP binding site [chemical binding]; other site 565050002362 Mg++ binding site [ion binding]; other site 565050002363 motif III; other site 565050002364 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 565050002365 nucleotide binding region [chemical binding]; other site 565050002366 ATP-binding site [chemical binding]; other site 565050002367 PAS fold; Region: PAS_3; pfam08447 565050002368 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050002369 heme pocket [chemical binding]; other site 565050002370 putative active site [active] 565050002371 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050002372 PAS fold; Region: PAS_3; pfam08447 565050002373 putative active site [active] 565050002374 heme pocket [chemical binding]; other site 565050002375 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050002376 PAS fold; Region: PAS_3; pfam08447 565050002377 putative active site [active] 565050002378 heme pocket [chemical binding]; other site 565050002379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050002380 HWE histidine kinase; Region: HWE_HK; pfam07536 565050002381 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 565050002382 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 565050002383 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565050002384 Walker A/P-loop; other site 565050002385 ATP binding site [chemical binding]; other site 565050002386 Q-loop/lid; other site 565050002387 ABC transporter signature motif; other site 565050002388 Walker B; other site 565050002389 D-loop; other site 565050002390 H-loop/switch region; other site 565050002391 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; pfam05433 565050002392 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 565050002393 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 565050002394 S-adenosylmethionine binding site [chemical binding]; other site 565050002395 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 565050002396 putative active site [active] 565050002397 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 565050002398 aspartate kinase; Reviewed; Region: PRK06635 565050002399 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 565050002400 putative nucleotide binding site [chemical binding]; other site 565050002401 putative catalytic residues [active] 565050002402 putative Mg ion binding site [ion binding]; other site 565050002403 putative aspartate binding site [chemical binding]; other site 565050002404 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 565050002405 putative allosteric regulatory site; other site 565050002406 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 565050002407 Chemoreceptor zinc-binding domain; Region: CZB; pfam13682 565050002408 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565050002409 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 565050002410 GAF domain; Region: GAF; pfam01590 565050002411 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 565050002412 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 565050002413 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 565050002414 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 565050002415 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 565050002416 non-specific DNA binding site [nucleotide binding]; other site 565050002417 salt bridge; other site 565050002418 sequence-specific DNA binding site [nucleotide binding]; other site 565050002419 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 565050002420 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 565050002421 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 565050002422 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 565050002423 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 565050002424 RNA binding surface [nucleotide binding]; other site 565050002425 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 565050002426 active site 565050002427 peptide chain release factor 1; Validated; Region: prfA; PRK00591 565050002428 This domain is found in peptide chain release factors; Region: PCRF; smart00937 565050002429 RF-1 domain; Region: RF-1; pfam00472 565050002430 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 565050002431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050002432 metal binding site [ion binding]; metal-binding site 565050002433 active site 565050002434 I-site; other site 565050002435 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 565050002436 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050002437 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 565050002438 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 565050002439 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 565050002440 ligand binding site [chemical binding]; other site 565050002441 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 565050002442 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 565050002443 Walker A/P-loop; other site 565050002444 ATP binding site [chemical binding]; other site 565050002445 Q-loop/lid; other site 565050002446 ABC transporter signature motif; other site 565050002447 Walker B; other site 565050002448 D-loop; other site 565050002449 H-loop/switch region; other site 565050002450 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 565050002451 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 565050002452 TM-ABC transporter signature motif; other site 565050002453 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 565050002454 heme binding pocket [chemical binding]; other site 565050002455 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 565050002456 Predicted ATPase [General function prediction only]; Region: COG3911 565050002457 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050002458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050002459 Coenzyme A binding pocket [chemical binding]; other site 565050002460 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 565050002461 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 565050002462 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 565050002463 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 565050002464 S-adenosylmethionine binding site [chemical binding]; other site 565050002465 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 565050002466 Peptidase family M48; Region: Peptidase_M48; pfam01435 565050002467 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 565050002468 Clp amino terminal domain; Region: Clp_N; pfam02861 565050002469 Clp amino terminal domain; Region: Clp_N; pfam02861 565050002470 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 565050002471 Walker A motif; other site 565050002472 ATP binding site [chemical binding]; other site 565050002473 Walker B motif; other site 565050002474 arginine finger; other site 565050002475 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 565050002476 Walker A motif; other site 565050002477 ATP binding site [chemical binding]; other site 565050002478 Walker B motif; other site 565050002479 arginine finger; other site 565050002480 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 565050002481 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 565050002482 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050002483 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050002484 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 565050002485 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 565050002486 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050002487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050002488 DNA-binding site [nucleotide binding]; DNA binding site 565050002489 FCD domain; Region: FCD; pfam07729 565050002490 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 565050002491 catalytic motif [active] 565050002492 Zn binding site [ion binding]; other site 565050002493 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 565050002494 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 565050002495 Lumazine binding domain; Region: Lum_binding; pfam00677 565050002496 Lumazine binding domain; Region: Lum_binding; pfam00677 565050002497 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 565050002498 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 565050002499 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 565050002500 dimerization interface [polypeptide binding]; other site 565050002501 active site 565050002502 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 565050002503 homopentamer interface [polypeptide binding]; other site 565050002504 active site 565050002505 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 565050002506 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 565050002507 putative metal binding site [ion binding]; other site 565050002508 Domain of unknown function (DUF4440); Region: DUF4440; pfam14534 565050002509 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 565050002510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050002511 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 565050002512 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050002513 Coenzyme A binding pocket [chemical binding]; other site 565050002514 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 565050002515 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050002516 dimer interface [polypeptide binding]; other site 565050002517 active site 565050002518 Predicted transcriptional regulators [Transcription]; Region: COG1733 565050002519 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 565050002520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050002521 metal binding site [ion binding]; metal-binding site 565050002522 active site 565050002523 I-site; other site 565050002524 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 565050002525 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050002526 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050002527 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050002528 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 565050002529 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 565050002530 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 565050002531 ribonuclease E; Reviewed; Region: rne; PRK10811 565050002532 ribonuclease E; Reviewed; Region: rne; PRK10811 565050002533 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 565050002534 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 565050002535 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 565050002536 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 565050002537 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 565050002538 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 565050002539 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 565050002540 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 565050002541 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 565050002542 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 565050002543 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 565050002544 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 565050002545 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 565050002546 FliG N-terminal domain; Region: FliG_N; pfam14842 565050002547 FliG middle domain; Region: FliG_M; pfam14841 565050002548 FliG C-terminal domain; Region: FliG_C; pfam01706 565050002549 flagellar assembly protein H; Validated; Region: fliH; PRK06032 565050002550 flagellar motor switch protein; Reviewed; Region: PRK08916 565050002551 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 565050002552 Response regulator receiver domain; Region: Response_reg; pfam00072 565050002553 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 565050002554 Walker A motif; other site 565050002555 ATP binding site [chemical binding]; other site 565050002556 Walker B motif; other site 565050002557 arginine finger; other site 565050002558 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 565050002559 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 565050002560 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 565050002561 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 565050002562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002564 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 565050002565 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050002566 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 565050002567 putative Zn2+ binding site [ion binding]; other site 565050002568 putative DNA binding site [nucleotide binding]; other site 565050002569 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 565050002570 chaperone protein DnaJ; Provisional; Region: PRK14299 565050002571 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 565050002572 HSP70 interaction site [polypeptide binding]; other site 565050002573 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 565050002574 substrate binding site [polypeptide binding]; other site 565050002575 dimer interface [polypeptide binding]; other site 565050002576 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 565050002577 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 565050002578 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 565050002579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002580 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002581 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 565050002582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 565050002583 Phosphotransferase enzyme family; Region: APH; pfam01636 565050002584 substrate binding site [chemical binding]; other site 565050002585 Predicted kinase [General function prediction only]; Region: COG0645 565050002586 AAA domain; Region: AAA_33; pfam13671 565050002587 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050002588 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 565050002589 dimer interface [polypeptide binding]; other site 565050002590 phosphorylation site [posttranslational modification] 565050002591 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002592 ATP binding site [chemical binding]; other site 565050002593 Mg2+ binding site [ion binding]; other site 565050002594 G-X-G motif; other site 565050002595 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050002596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002597 active site 565050002598 phosphorylation site [posttranslational modification] 565050002599 intermolecular recognition site; other site 565050002600 dimerization interface [polypeptide binding]; other site 565050002601 putative acyl-CoA synthetase; Provisional; Region: PRK06018 565050002602 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 565050002603 dimer interface [polypeptide binding]; other site 565050002604 acyl-activating enzyme (AAE) consensus motif; other site 565050002605 putative active site [active] 565050002606 AMP binding site [chemical binding]; other site 565050002607 putative CoA binding site [chemical binding]; other site 565050002608 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 565050002609 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 565050002610 TIGR01244 family protein; Region: TIGR01244 565050002611 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 565050002612 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050002613 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 565050002614 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 565050002615 tandem repeat interface [polypeptide binding]; other site 565050002616 oligomer interface [polypeptide binding]; other site 565050002617 active site residues [active] 565050002618 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 565050002619 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 565050002620 tandem repeat interface [polypeptide binding]; other site 565050002621 oligomer interface [polypeptide binding]; other site 565050002622 active site residues [active] 565050002623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050002624 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050002625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050002626 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050002627 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 565050002628 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 565050002629 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050002630 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 565050002631 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565050002632 FtsX-like permease family; Region: FtsX; pfam02687 565050002633 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565050002634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565050002635 Walker A/P-loop; other site 565050002636 ATP binding site [chemical binding]; other site 565050002637 Q-loop/lid; other site 565050002638 ABC transporter signature motif; other site 565050002639 Walker B; other site 565050002640 D-loop; other site 565050002641 H-loop/switch region; other site 565050002642 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; cl19880 565050002643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050002644 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 565050002645 dimer interface [polypeptide binding]; other site 565050002646 phosphorylation site [posttranslational modification] 565050002647 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002648 ATP binding site [chemical binding]; other site 565050002649 Mg2+ binding site [ion binding]; other site 565050002650 G-X-G motif; other site 565050002651 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050002652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002653 active site 565050002654 phosphorylation site [posttranslational modification] 565050002655 intermolecular recognition site; other site 565050002656 dimerization interface [polypeptide binding]; other site 565050002657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050002658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050002659 Coenzyme A binding pocket [chemical binding]; other site 565050002660 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 565050002661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050002662 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050002663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 565050002664 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 565050002665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050002666 catalytic residue [active] 565050002667 Predicted acyl esterases [General function prediction only]; Region: COG2936 565050002668 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 565050002669 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 565050002670 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 565050002671 putative active site [active] 565050002672 putative catalytic site [active] 565050002673 Uncharacterized conserved protein [Function unknown]; Region: COG5397 565050002674 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 565050002675 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 565050002676 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 565050002677 acyl-activating enzyme (AAE) consensus motif; other site 565050002678 putative AMP binding site [chemical binding]; other site 565050002679 putative active site [active] 565050002680 acyl-activating enzyme (AAE) consensus motif; other site 565050002681 putative CoA binding site [chemical binding]; other site 565050002682 choline dehydrogenase; Validated; Region: PRK02106 565050002683 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565050002684 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 565050002685 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 565050002686 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 565050002687 enoyl-CoA hydratase; Provisional; Region: PRK08260 565050002688 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050002689 substrate binding site [chemical binding]; other site 565050002690 oxyanion hole (OAH) forming residues; other site 565050002691 trimer interface [polypeptide binding]; other site 565050002692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 565050002693 Predicted transcriptional regulator [Transcription]; Region: COG4957 565050002694 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 565050002695 substrate binding site [chemical binding]; other site 565050002696 dimer interface [polypeptide binding]; other site 565050002697 ATP binding site [chemical binding]; other site 565050002698 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 565050002699 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 565050002700 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 565050002701 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 565050002702 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 565050002703 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 565050002704 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 565050002705 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 565050002706 urocanate hydratase; Provisional; Region: PRK05414 565050002707 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 565050002708 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 565050002709 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 565050002710 active sites [active] 565050002711 tetramer interface [polypeptide binding]; other site 565050002712 imidazolonepropionase; Validated; Region: PRK09356 565050002713 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 565050002714 active site 565050002715 formiminoglutamate deiminase; Region: hutF; TIGR02022 565050002716 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 565050002717 active site 565050002718 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 565050002719 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050002720 DNA-binding site [nucleotide binding]; DNA binding site 565050002721 UTRA domain; Region: UTRA; pfam07702 565050002722 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 565050002723 putative deacylase active site [active] 565050002724 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: PcoB; COG3667 565050002725 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 565050002726 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 565050002727 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 565050002728 acyl-activating enzyme (AAE) consensus motif; other site 565050002729 putative AMP binding site [chemical binding]; other site 565050002730 putative active site [active] 565050002731 putative CoA binding site [chemical binding]; other site 565050002732 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 565050002733 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 565050002734 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 565050002735 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 565050002736 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050002737 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565050002738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050002739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050002740 DNA binding site [nucleotide binding] 565050002741 domain linker motif; other site 565050002742 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050002743 putative dimerization interface [polypeptide binding]; other site 565050002744 putative ligand binding site [chemical binding]; other site 565050002745 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050002746 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 565050002747 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050002748 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 565050002749 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 565050002750 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 565050002751 active site 565050002752 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 565050002753 FecR protein; Region: FecR; pfam04773 565050002754 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 565050002755 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_3; cd06240 565050002756 putative active site [active] 565050002757 Zn binding site [ion binding]; other site 565050002758 Transcriptional regulators [Transcription]; Region: FadR; COG2186 565050002759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050002760 DNA-binding site [nucleotide binding]; DNA binding site 565050002761 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 565050002762 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 565050002763 D-galactonate transporter; Region: 2A0114; TIGR00893 565050002764 putative substrate translocation pore; other site 565050002765 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 565050002766 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 565050002767 inhibitor binding site; inhibition site 565050002768 active site 565050002769 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050002770 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 565050002771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050002772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050002773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 565050002774 methionine sulfoxide reductase A; Provisional; Region: PRK00058 565050002775 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050002776 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 565050002777 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 565050002778 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050002779 Reovirus minor core protein Mu-2; Region: Reovirus_Mu2; pfam07781 565050002780 ABC transporter; Region: ABC_tran_2; pfam12848 565050002781 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050002782 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050002783 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 565050002784 SapC; Region: SapC; pfam07277 565050002785 Cupin-like domain; Region: Cupin_8; pfam13621 565050002786 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050002787 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002788 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 565050002789 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050002790 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 565050002791 non-specific DNA binding site [nucleotide binding]; other site 565050002792 salt bridge; other site 565050002793 sequence-specific DNA binding site [nucleotide binding]; other site 565050002794 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 565050002795 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 565050002796 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050002797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050002798 Walker A/P-loop; other site 565050002799 ATP binding site [chemical binding]; other site 565050002800 Q-loop/lid; other site 565050002801 ABC transporter signature motif; other site 565050002802 Walker B; other site 565050002803 D-loop; other site 565050002804 H-loop/switch region; other site 565050002805 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 565050002806 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050002807 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 565050002808 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050002809 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 565050002810 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 565050002811 NADP-binding site; other site 565050002812 homotetramer interface [polypeptide binding]; other site 565050002813 substrate binding site [chemical binding]; other site 565050002814 homodimer interface [polypeptide binding]; other site 565050002815 active site 565050002816 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 565050002817 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 565050002818 putative trimer interface [polypeptide binding]; other site 565050002819 putative CoA binding site [chemical binding]; other site 565050002820 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 565050002821 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 565050002822 inhibitor-cofactor binding pocket; inhibition site 565050002823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050002824 catalytic residue [active] 565050002825 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002826 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 565050002827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002828 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 565050002829 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 565050002830 Outer membrane efflux protein; Region: OEP; pfam02321 565050002831 Outer membrane efflux protein; Region: OEP; pfam02321 565050002832 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 565050002833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002834 Predicted membrane protein [Function unknown]; Region: COG3821 565050002835 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 565050002836 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 565050002837 putative substrate translocation pore; other site 565050002838 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 565050002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 565050002840 Entericidin EcnA/B family; Region: Entericidin; cl02322 565050002841 Beta/Gamma crystallin; Region: Crystall; pfam00030 565050002842 Beta/Gamma crystallin; Region: Crystall; pfam00030 565050002843 Penicillin amidase; Region: Penicil_amidase; pfam01804 565050002844 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 565050002845 active site 565050002846 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 565050002847 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002848 ATP binding site [chemical binding]; other site 565050002849 Mg2+ binding site [ion binding]; other site 565050002850 G-X-G motif; other site 565050002851 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 565050002852 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 565050002853 cofactor binding site; other site 565050002854 DNA binding site [nucleotide binding] 565050002855 substrate interaction site [chemical binding]; other site 565050002856 GTP-binding protein LepA; Provisional; Region: PRK05433 565050002857 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 565050002858 G1 box; other site 565050002859 putative GEF interaction site [polypeptide binding]; other site 565050002860 GTP/Mg2+ binding site [chemical binding]; other site 565050002861 Switch I region; other site 565050002862 G2 box; other site 565050002863 G3 box; other site 565050002864 Switch II region; other site 565050002865 G4 box; other site 565050002866 G5 box; other site 565050002867 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 565050002868 Elongation Factor G, domain II; Region: EFG_II; pfam14492 565050002869 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 565050002870 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 565050002871 hypothetical protein; Provisional; Region: PRK05208 565050002872 Uncharacterized conserved protein [Function unknown]; Region: COG5316 565050002873 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 565050002874 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 565050002875 Uncharacterized conserved protein [Function unknown]; Region: COG5316 565050002876 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 565050002877 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 565050002878 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 565050002879 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 565050002880 putative tRNA-binding site [nucleotide binding]; other site 565050002881 B3/4 domain; Region: B3_4; pfam03483 565050002882 tRNA synthetase B5 domain; Region: B5; smart00874 565050002883 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 565050002884 dimer interface [polypeptide binding]; other site 565050002885 motif 3; other site 565050002886 motif 2; other site 565050002887 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 565050002888 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 565050002889 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 565050002890 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 565050002891 dimer interface [polypeptide binding]; other site 565050002892 motif 1; other site 565050002893 active site 565050002894 motif 2; other site 565050002895 motif 3; other site 565050002896 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 565050002897 23S rRNA binding site [nucleotide binding]; other site 565050002898 L21 binding site [polypeptide binding]; other site 565050002899 L13 binding site [polypeptide binding]; other site 565050002900 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 565050002901 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 565050002902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050002903 putative substrate translocation pore; other site 565050002904 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050002905 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050002906 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 565050002907 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 565050002908 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 565050002909 Uncharacterized conserved protein [Function unknown]; Region: COG1284 565050002910 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 565050002911 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 565050002912 putative active site [active] 565050002913 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050002914 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 565050002915 putative ADP-binding pocket [chemical binding]; other site 565050002916 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050002917 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 565050002918 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050002919 catalytic site [active] 565050002920 Predicted transcriptional regulator [Transcription]; Region: COG3905 565050002921 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 565050002922 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 565050002923 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 565050002924 putative NAD(P) binding site [chemical binding]; other site 565050002925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 565050002926 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 565050002927 substrate binding site [chemical binding]; other site 565050002928 ATP binding site [chemical binding]; other site 565050002929 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 565050002930 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 565050002931 DnaA box-binding interface [nucleotide binding]; other site 565050002932 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 565050002933 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 565050002934 active site residue [active] 565050002935 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 565050002936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050002937 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 565050002938 dimer interface [polypeptide binding]; other site 565050002939 phosphorylation site [posttranslational modification] 565050002940 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002941 ATP binding site [chemical binding]; other site 565050002942 Mg2+ binding site [ion binding]; other site 565050002943 G-X-G motif; other site 565050002944 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050002945 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 565050002946 dimer interface [polypeptide binding]; other site 565050002947 phosphorylation site [posttranslational modification] 565050002948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002949 ATP binding site [chemical binding]; other site 565050002950 Mg2+ binding site [ion binding]; other site 565050002951 G-X-G motif; other site 565050002952 Uncharacterized conserved protein [Function unknown]; Region: COG5447 565050002953 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 565050002954 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 565050002955 Zn binding site [ion binding]; other site 565050002956 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 565050002957 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 565050002958 G1 box; other site 565050002959 putative GEF interaction site [polypeptide binding]; other site 565050002960 GTP/Mg2+ binding site [chemical binding]; other site 565050002961 Switch I region; other site 565050002962 G2 box; other site 565050002963 G3 box; other site 565050002964 Switch II region; other site 565050002965 G4 box; other site 565050002966 G5 box; other site 565050002967 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 565050002968 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 565050002969 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 565050002970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050002971 homodimer interface [polypeptide binding]; other site 565050002972 catalytic residue [active] 565050002973 Ribonuclease H-like superfamily, including RNase H, HI, HII, HIII, and RNase-like domain IV of spliceosomal protein Prp8; Region: RNase_H_like; cl14782 565050002974 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 565050002975 flagellar biosynthetic protein FliR; Region: fliR; TIGR01400 565050002976 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 565050002977 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 565050002978 dimer interface [polypeptide binding]; other site 565050002979 phosphorylation site [posttranslational modification] 565050002980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050002981 ATP binding site [chemical binding]; other site 565050002982 Mg2+ binding site [ion binding]; other site 565050002983 G-X-G motif; other site 565050002984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050002985 active site 565050002986 phosphorylation site [posttranslational modification] 565050002987 intermolecular recognition site; other site 565050002988 dimerization interface [polypeptide binding]; other site 565050002989 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 565050002990 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565050002991 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 565050002992 DNA binding residues [nucleotide binding] 565050002993 dimerization interface [polypeptide binding]; other site 565050002994 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 565050002995 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050002996 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 565050002997 Domain of unknown function (DUF4440); Region: DUF4440; pfam14534 565050002998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 565050002999 recombinase A; Provisional; Region: recA; PRK09354 565050003000 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 565050003001 hexamer interface [polypeptide binding]; other site 565050003002 Walker A motif; other site 565050003003 ATP binding site [chemical binding]; other site 565050003004 Walker B motif; other site 565050003005 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 565050003006 homotrimer interaction site [polypeptide binding]; other site 565050003007 putative active site [active] 565050003008 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 565050003009 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 565050003010 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 565050003011 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565050003012 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 565050003013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050003014 Coenzyme A binding pocket [chemical binding]; other site 565050003015 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050003016 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 565050003017 Predicted transcriptional regulator [Transcription]; Region: COG2378 565050003018 WYL domain; Region: WYL; pfam13280 565050003019 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 565050003020 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 565050003021 Chromate transporter; Region: Chromate_transp; cl17781 565050003022 Uncharacterized conserved protein [Function unknown]; Region: COG3743 565050003023 Sulfotransferase family; Region: Sulfotransfer_2; cl19526 565050003024 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 565050003025 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 565050003026 putative substrate translocation pore; other site 565050003027 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 565050003028 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 565050003029 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565050003030 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050003031 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565050003032 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 565050003033 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 565050003034 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 565050003035 TPR motif; other site 565050003036 binding surface 565050003037 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 565050003038 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 565050003039 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; pfam03407 565050003040 Uncharacterized conserved protein [Function unknown]; Region: COG3777 565050003041 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 565050003042 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 565050003043 active site 2 [active] 565050003044 active site 1 [active] 565050003045 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050003046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050003047 active site 565050003048 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 565050003049 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050003050 dimer interface [polypeptide binding]; other site 565050003051 active site 565050003052 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050003053 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 565050003054 N-terminal plug; other site 565050003055 ligand-binding site [chemical binding]; other site 565050003056 Uncharacterized conserved protein [Function unknown]; Region: COG2013 565050003057 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 565050003058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050003059 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 565050003060 dimerization interface [polypeptide binding]; other site 565050003061 substrate binding pocket [chemical binding]; other site 565050003062 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 565050003063 active site 565050003064 SAM binding site [chemical binding]; other site 565050003065 homodimer interface [polypeptide binding]; other site 565050003066 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 565050003067 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 565050003068 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 565050003069 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 565050003070 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 565050003071 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 565050003072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 565050003073 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 565050003074 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 565050003075 Active Sites [active] 565050003076 Penicillin amidase; Region: Penicil_amidase; pfam01804 565050003077 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 565050003078 active site 565050003079 3D domain; Region: 3D; cl01439 565050003080 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050003081 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565050003082 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 565050003083 N-terminal domain interface [polypeptide binding]; other site 565050003084 dimer interface [polypeptide binding]; other site 565050003085 substrate binding pocket (H-site) [chemical binding]; other site 565050003086 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 565050003087 Zn binding site [ion binding]; other site 565050003088 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 565050003089 nudix motif; other site 565050003090 internal virion protein D; Region: PHA00368 565050003091 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 565050003092 FecR protein; Region: FecR; pfam04773 565050003093 PHP domain; Region: PHP; pfam02811 565050003094 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 565050003095 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 565050003096 putative substrate translocation pore; other site 565050003097 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565050003098 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565050003099 nucleotide binding site [chemical binding]; other site 565050003100 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050003101 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 565050003102 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050003103 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050003104 DNA binding site [nucleotide binding] 565050003105 domain linker motif; other site 565050003106 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 565050003107 putative dimerization interface [polypeptide binding]; other site 565050003108 putative ligand binding site [chemical binding]; other site 565050003109 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050003110 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 565050003111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4338 565050003112 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 565050003113 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 565050003114 NADP binding site [chemical binding]; other site 565050003115 active site 565050003116 putative substrate binding site [chemical binding]; other site 565050003117 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 565050003118 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 565050003119 substrate binding site; other site 565050003120 tetramer interface; other site 565050003121 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050003122 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 565050003123 Outer membrane protein beta-barrel family; Region: OMP_b-brl_3; pfam14905 565050003124 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 565050003125 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 565050003126 Zn binding site [ion binding]; other site 565050003127 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 565050003128 N-terminal plug; other site 565050003129 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 565050003130 ligand-binding site [chemical binding]; other site 565050003131 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 565050003132 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 565050003133 NAD binding site [chemical binding]; other site 565050003134 putative substrate binding site 2 [chemical binding]; other site 565050003135 putative substrate binding site 1 [chemical binding]; other site 565050003136 active site 565050003137 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 565050003138 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050003139 Walker A/P-loop; other site 565050003140 ATP binding site [chemical binding]; other site 565050003141 Q-loop/lid; other site 565050003142 ABC transporter signature motif; other site 565050003143 Walker B; other site 565050003144 D-loop; other site 565050003145 H-loop/switch region; other site 565050003146 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 565050003147 ABC-2 type transporter; Region: ABC2_membrane; cl17235 565050003148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 565050003149 Acyltransferase family; Region: Acyl_transf_3; cl19154 565050003150 Histidine kinase; Region: HisKA_3; pfam07730 565050003151 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050003152 ATP binding site [chemical binding]; other site 565050003153 Mg2+ binding site [ion binding]; other site 565050003154 G-X-G motif; other site 565050003155 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565050003156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050003157 active site 565050003158 phosphorylation site [posttranslational modification] 565050003159 intermolecular recognition site; other site 565050003160 dimerization interface [polypeptide binding]; other site 565050003161 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 565050003162 DNA binding residues [nucleotide binding] 565050003163 dimerization interface [polypeptide binding]; other site 565050003164 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 565050003165 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 565050003166 active site 565050003167 substrate binding site [chemical binding]; other site 565050003168 FMN binding site [chemical binding]; other site 565050003169 putative catalytic residues [active] 565050003170 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 565050003171 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 565050003172 active site 565050003173 metal-binding site 565050003174 Predicted permeases [General function prediction only]; Region: COG0795 565050003175 Predicted permeases [General function prediction only]; Region: COG0795 565050003176 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 565050003177 nucleotide binding site/active site [active] 565050003178 HIT family signature motif; other site 565050003179 catalytic residue [active] 565050003180 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 565050003181 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 565050003182 active site 565050003183 metal binding site [ion binding]; metal-binding site 565050003184 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 565050003185 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 565050003186 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 565050003187 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 565050003188 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 565050003189 substrate-cofactor binding pocket; other site 565050003190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050003191 catalytic residue [active] 565050003192 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 565050003193 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 565050003194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050003195 NAD(P) binding site [chemical binding]; other site 565050003196 active site 565050003197 acyl-CoA synthetase; Validated; Region: PRK09192 565050003198 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 565050003199 acyl-activating enzyme (AAE) consensus motif; other site 565050003200 active site 565050003201 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 565050003202 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 565050003203 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; cl19502 565050003204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 565050003205 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 565050003206 active site 565050003207 dimer interface [polypeptide binding]; other site 565050003208 non-prolyl cis peptide bond; other site 565050003209 insertion regions; other site 565050003210 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 565050003211 catalytic triad [active] 565050003212 conserved cis-peptide bond; other site 565050003213 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565050003214 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 565050003215 putative catalytic residue [active] 565050003216 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 565050003217 Sulfatase; Region: Sulfatase; pfam00884 565050003218 C-terminal region of aryl-sulfatase; Region: Sulfatase_C; pfam14707 565050003219 Uncharacterized conserved protein [Function unknown]; Region: COG1262 565050003220 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; pfam03781 565050003221 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 565050003222 haloalkane dehalogenase; Provisional; Region: PRK00870 565050003223 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050003224 ribonuclease Z; Reviewed; Region: PRK00055 565050003225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050003226 General stress protein [General function prediction only]; Region: GsiB; COG3729 565050003227 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 565050003228 dimerization interface [polypeptide binding]; other site 565050003229 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 565050003230 dimer interface [polypeptide binding]; other site 565050003231 phosphorylation site [posttranslational modification] 565050003232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050003233 ATP binding site [chemical binding]; other site 565050003234 Mg2+ binding site [ion binding]; other site 565050003235 G-X-G motif; other site 565050003236 osmolarity response regulator; Provisional; Region: ompR; PRK09468 565050003237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050003238 active site 565050003239 phosphorylation site [posttranslational modification] 565050003240 intermolecular recognition site; other site 565050003241 dimerization interface [polypeptide binding]; other site 565050003242 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 565050003243 DNA binding site [nucleotide binding] 565050003244 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 565050003245 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 565050003246 ATP binding site [chemical binding]; other site 565050003247 putative Mg++ binding site [ion binding]; other site 565050003248 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 565050003249 nucleotide binding region [chemical binding]; other site 565050003250 ATP-binding site [chemical binding]; other site 565050003251 Helicase associated domain (HA2); Region: HA2; pfam04408 565050003252 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 565050003253 Immunity protein 47; Region: Imm47; pfam15586 565050003254 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565050003255 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 565050003256 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 565050003257 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 565050003258 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 565050003259 S-adenosylmethionine binding site [chemical binding]; other site 565050003260 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 565050003261 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 565050003262 DXD motif; other site 565050003263 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050003264 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050003265 WHG domain; Region: WHG; pfam13305 565050003266 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 565050003267 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 565050003268 intersubunit interface [polypeptide binding]; other site 565050003269 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 565050003270 ABC-ATPase subunit interface; other site 565050003271 dimer interface [polypeptide binding]; other site 565050003272 putative PBP binding regions; other site 565050003273 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 565050003274 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 565050003275 Walker A/P-loop; other site 565050003276 ATP binding site [chemical binding]; other site 565050003277 Q-loop/lid; other site 565050003278 ABC transporter signature motif; other site 565050003279 Walker B; other site 565050003280 D-loop; other site 565050003281 H-loop/switch region; other site 565050003282 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 565050003283 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 565050003284 N-acetyl-D-glucosamine binding site [chemical binding]; other site 565050003285 catalytic residue [active] 565050003286 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 565050003287 dimer interface [polypeptide binding]; other site 565050003288 active site 565050003289 catalytic residue [active] 565050003290 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 565050003291 SmpB-tmRNA interface; other site 565050003292 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 565050003293 Protein of unknown function (DUF979); Region: DUF979; pfam06166 565050003294 Predicted membrane protein [Function unknown]; Region: COG3819 565050003295 aldolase II superfamily protein; Provisional; Region: PRK07044 565050003296 intersubunit interface [polypeptide binding]; other site 565050003297 active site 565050003298 Zn2+ binding site [ion binding]; other site 565050003299 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 565050003300 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 565050003301 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050003302 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 565050003303 Pyruvate dehydrogenase complex, dehydrogenase (E1) component [Energy production and conversion]; Region: AceE; COG2609 565050003304 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 565050003305 TPP-binding site [chemical binding]; other site 565050003306 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 565050003307 PYR/PP interface [polypeptide binding]; other site 565050003308 dimer interface [polypeptide binding]; other site 565050003309 TPP binding site [chemical binding]; other site 565050003310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050003311 AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar...; Region: AAI_LTSS; cl07890 565050003312 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050003313 SnoaL-like domain; Region: SnoaL_2; pfam12680 565050003314 SnoaL-like domain; Region: SnoaL_2; pfam12680 565050003315 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 565050003316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 565050003317 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050003318 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 565050003319 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 565050003320 hypothetical protein; Provisional; Region: PRK09256 565050003321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 565050003322 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 565050003323 tetrameric interface [polypeptide binding]; other site 565050003324 NAD binding site [chemical binding]; other site 565050003325 catalytic residues [active] 565050003326 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 565050003327 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 565050003328 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 565050003329 homodimer interface [polypeptide binding]; other site 565050003330 NADP binding site [chemical binding]; other site 565050003331 substrate binding site [chemical binding]; other site 565050003332 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 565050003333 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 565050003334 FAD binding domain; Region: FAD_binding_4; pfam01565 565050003335 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 565050003336 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 565050003337 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 565050003338 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 565050003339 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 565050003340 N- and C-terminal domain interface [polypeptide binding]; other site 565050003341 active site 565050003342 MgATP binding site [chemical binding]; other site 565050003343 catalytic site [active] 565050003344 metal binding site [ion binding]; metal-binding site 565050003345 glycerol binding site [chemical binding]; other site 565050003346 homotetramer interface [polypeptide binding]; other site 565050003347 homodimer interface [polypeptide binding]; other site 565050003348 FBP binding site [chemical binding]; other site 565050003349 protein IIAGlc interface [polypeptide binding]; other site 565050003350 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 565050003351 Strictosidine synthase; Region: Str_synth; cl19733 565050003352 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050003353 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 565050003354 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050003355 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050003356 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 565050003357 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 565050003358 putative substrate translocation pore; other site 565050003359 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 565050003360 Phosphotransferase enzyme family; Region: APH; pfam01636 565050003361 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 565050003362 putative active site [active] 565050003363 putative substrate binding site [chemical binding]; other site 565050003364 ATP binding site [chemical binding]; other site 565050003365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050003366 AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar...; Region: AAI_LTSS; cl07890 565050003367 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050003368 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 565050003369 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565050003370 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 565050003371 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 565050003372 elongation factor Tu; Reviewed; Region: PRK00049 565050003373 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 565050003374 G1 box; other site 565050003375 GEF interaction site [polypeptide binding]; other site 565050003376 GTP/Mg2+ binding site [chemical binding]; other site 565050003377 Switch I region; other site 565050003378 G2 box; other site 565050003379 G3 box; other site 565050003380 Switch II region; other site 565050003381 G4 box; other site 565050003382 G5 box; other site 565050003383 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 565050003384 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 565050003385 Antibiotic Binding Site [chemical binding]; other site 565050003386 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 565050003387 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 565050003388 putative molybdopterin cofactor binding site [chemical binding]; other site 565050003389 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 565050003390 putative molybdopterin cofactor binding site; other site 565050003391 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 565050003392 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 565050003393 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 565050003394 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 565050003395 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 565050003396 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 565050003397 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 565050003398 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 565050003399 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 565050003400 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 565050003401 putative translocon binding site; other site 565050003402 protein-rRNA interface [nucleotide binding]; other site 565050003403 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 565050003404 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 565050003405 G-X-X-G motif; other site 565050003406 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 565050003407 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 565050003408 23S rRNA interface [nucleotide binding]; other site 565050003409 5S rRNA interface [nucleotide binding]; other site 565050003410 putative antibiotic binding site [chemical binding]; other site 565050003411 L25 interface [polypeptide binding]; other site 565050003412 L27 interface [polypeptide binding]; other site 565050003413 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 565050003414 23S rRNA interface [nucleotide binding]; other site 565050003415 putative translocon interaction site; other site 565050003416 signal recognition particle (SRP54) interaction site; other site 565050003417 L23 interface [polypeptide binding]; other site 565050003418 trigger factor interaction site; other site 565050003419 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 565050003420 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 565050003421 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 565050003422 RNA binding site [nucleotide binding]; other site 565050003423 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 565050003424 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 565050003425 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 565050003426 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 565050003427 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 565050003428 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 565050003429 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 565050003430 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 565050003431 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 565050003432 23S rRNA interface [nucleotide binding]; other site 565050003433 L21e interface [polypeptide binding]; other site 565050003434 5S rRNA interface [nucleotide binding]; other site 565050003435 L27 interface [polypeptide binding]; other site 565050003436 L5 interface [polypeptide binding]; other site 565050003437 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 565050003438 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 565050003439 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 565050003440 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 565050003441 23S rRNA binding site [nucleotide binding]; other site 565050003442 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 565050003443 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 565050003444 SecY translocase; Region: SecY; pfam00344 565050003445 adenylate kinase; Provisional; Region: PRK14532 565050003446 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 565050003447 AMP-binding site [chemical binding]; other site 565050003448 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 565050003449 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 565050003450 30S ribosomal protein S11; Validated; Region: PRK05309 565050003451 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 565050003452 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 565050003453 alphaNTD - beta interaction site [polypeptide binding]; other site 565050003454 alphaNTD homodimer interface [polypeptide binding]; other site 565050003455 alphaNTD - beta' interaction site [polypeptide binding]; other site 565050003456 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 565050003457 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 565050003458 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 565050003459 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 565050003460 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 565050003461 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 565050003462 lycopene cyclase; Region: lycopene_cycl; TIGR01789 565050003463 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050003464 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 565050003465 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 565050003466 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 565050003467 dimerization interface [polypeptide binding]; other site 565050003468 putative DNA binding site [nucleotide binding]; other site 565050003469 putative Zn2+ binding site [ion binding]; other site 565050003470 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 565050003471 hydrophobic ligand binding site; other site 565050003472 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 565050003473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050003474 putative substrate translocation pore; other site 565050003475 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 565050003476 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050003477 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050003478 protein binding site [polypeptide binding]; other site 565050003479 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050003480 protein binding site [polypeptide binding]; other site 565050003481 recombination factor protein RarA; Reviewed; Region: PRK13342 565050003482 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 565050003483 Walker A motif; other site 565050003484 ATP binding site [chemical binding]; other site 565050003485 Walker B motif; other site 565050003486 arginine finger; other site 565050003487 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 565050003488 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 565050003489 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 565050003490 active site 565050003491 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 565050003492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050003493 NAD(P) binding site [chemical binding]; other site 565050003494 active site 565050003495 OmpW family; Region: OmpW; pfam03922 565050003496 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 565050003497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050003498 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050003499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050003500 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050003501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050003502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050003503 active site 565050003504 phosphorylation site [posttranslational modification] 565050003505 intermolecular recognition site; other site 565050003506 dimerization interface [polypeptide binding]; other site 565050003507 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 565050003508 DNA binding site [nucleotide binding] 565050003509 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 565050003510 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 565050003511 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 565050003512 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 565050003513 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 565050003514 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 565050003515 putative active site [active] 565050003516 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 565050003517 substrate binding site [chemical binding]; other site 565050003518 ATP binding site [chemical binding]; other site 565050003519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 565050003520 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 565050003521 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 565050003522 PYR/PP interface [polypeptide binding]; other site 565050003523 dimer interface [polypeptide binding]; other site 565050003524 TPP binding site [chemical binding]; other site 565050003525 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 565050003526 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 565050003527 TPP-binding site; other site 565050003528 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 565050003529 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 565050003530 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 565050003531 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 565050003532 tetrameric interface [polypeptide binding]; other site 565050003533 NAD binding site [chemical binding]; other site 565050003534 catalytic residues [active] 565050003535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050003536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050003537 active site 565050003538 phosphorylation site [posttranslational modification] 565050003539 intermolecular recognition site; other site 565050003540 dimerization interface [polypeptide binding]; other site 565050003541 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 565050003542 DNA binding site [nucleotide binding] 565050003543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050003544 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050003545 ATP binding site [chemical binding]; other site 565050003546 Mg2+ binding site [ion binding]; other site 565050003547 G-X-G motif; other site 565050003548 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 565050003549 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 565050003550 FMN binding site [chemical binding]; other site 565050003551 active site 565050003552 catalytic residues [active] 565050003553 substrate binding site [chemical binding]; other site 565050003554 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 565050003555 catalytic motif [active] 565050003556 Catalytic residue [active] 565050003557 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 565050003558 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 565050003559 putative dimer interface [polypeptide binding]; other site 565050003560 active site pocket [active] 565050003561 putative cataytic base [active] 565050003562 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 565050003563 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050003564 active site 565050003565 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 565050003566 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050003567 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 565050003568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050003569 Walker A/P-loop; other site 565050003570 ATP binding site [chemical binding]; other site 565050003571 Q-loop/lid; other site 565050003572 ABC transporter signature motif; other site 565050003573 Walker B; other site 565050003574 D-loop; other site 565050003575 H-loop/switch region; other site 565050003576 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 565050003577 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 565050003578 Outer membrane efflux protein; Region: OEP; pfam02321 565050003579 Outer membrane efflux protein; Region: OEP; pfam02321 565050003580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 565050003581 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 565050003582 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 565050003583 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 565050003584 active site 565050003585 HIGH motif; other site 565050003586 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 565050003587 KMSKS motif; other site 565050003588 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 565050003589 tRNA binding surface [nucleotide binding]; other site 565050003590 anticodon binding site; other site 565050003591 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 565050003592 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 565050003593 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 565050003594 acyl-activating enzyme (AAE) consensus motif; other site 565050003595 putative AMP binding site [chemical binding]; other site 565050003596 putative active site [active] 565050003597 putative CoA binding site [chemical binding]; other site 565050003598 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 565050003599 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl18951 565050003600 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 565050003601 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 565050003602 RNA binding surface [nucleotide binding]; other site 565050003603 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 565050003604 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 565050003605 S-adenosylmethionine binding site [chemical binding]; other site 565050003606 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 565050003607 TRAM domain; Region: TRAM; cl01282 565050003608 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 565050003609 S-adenosylmethionine binding site [chemical binding]; other site 565050003610 Methyltransferase domain; Region: Methyltransf_31; pfam13847 565050003611 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 565050003612 S-adenosylmethionine binding site [chemical binding]; other site 565050003613 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 565050003614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 565050003615 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 565050003616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050003617 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 565050003618 DNA binding residues [nucleotide binding] 565050003619 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 565050003620 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 565050003621 FeS/SAM binding site; other site 565050003622 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 565050003623 Fe-S cluster binding site [ion binding]; other site 565050003624 active site 565050003625 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050003626 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 565050003627 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 565050003628 Tetratricopeptide repeat; Region: TPR_16; pfam13432 565050003629 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 565050003630 binding surface 565050003631 TPR motif; other site 565050003632 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 565050003633 TPR repeat; Region: TPR_11; pfam13414 565050003634 binding surface 565050003635 TPR motif; other site 565050003636 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 565050003637 binding surface 565050003638 TPR motif; other site 565050003639 TPR repeat; Region: TPR_11; pfam13414 565050003640 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 565050003641 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 565050003642 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 565050003643 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 565050003644 active site 565050003645 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 565050003646 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 565050003647 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 565050003648 motif 1; other site 565050003649 dimer interface [polypeptide binding]; other site 565050003650 active site 565050003651 motif 2; other site 565050003652 motif 3; other site 565050003653 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 565050003654 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 565050003655 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 565050003656 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 565050003657 GIY-YIG motif/motif A; other site 565050003658 putative active site [active] 565050003659 putative metal binding site [ion binding]; other site 565050003660 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 565050003661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050003662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050003663 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 565050003664 nudix motif; other site 565050003665 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 565050003666 dimer interface [polypeptide binding]; other site 565050003667 allosteric magnesium binding site [ion binding]; other site 565050003668 active site 565050003669 aspartate-rich active site metal binding site; other site 565050003670 Schiff base residues; other site 565050003671 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 565050003672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 565050003673 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050003674 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 565050003675 substrate binding pocket [chemical binding]; other site 565050003676 FAD binding site [chemical binding]; other site 565050003677 catalytic base [active] 565050003678 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 565050003679 catalytic core [active] 565050003680 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 565050003681 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050003682 substrate binding site [chemical binding]; other site 565050003683 oxyanion hole (OAH) forming residues; other site 565050003684 trimer interface [polypeptide binding]; other site 565050003685 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 565050003686 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 565050003687 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 565050003688 S-adenosylmethionine binding site [chemical binding]; other site 565050003689 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 565050003690 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 565050003691 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 565050003692 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 565050003693 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 565050003694 substrate-cofactor binding pocket; other site 565050003695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050003696 catalytic residue [active] 565050003697 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 565050003698 dimer interface [polypeptide binding]; other site 565050003699 active site 565050003700 glycine-pyridoxal phosphate binding site [chemical binding]; other site 565050003701 folate binding site [chemical binding]; other site 565050003702 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 565050003703 ATP cone domain; Region: ATP-cone; pfam03477 565050003704 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 565050003705 homopentamer interface [polypeptide binding]; other site 565050003706 active site 565050003707 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 565050003708 putative RNA binding site [nucleotide binding]; other site 565050003709 thiamine-monophosphate kinase; Region: thiL; TIGR01379 565050003710 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 565050003711 ATP binding site [chemical binding]; other site 565050003712 dimerization interface [polypeptide binding]; other site 565050003713 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 565050003714 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 565050003715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050003716 active site 565050003717 phosphorylation site [posttranslational modification] 565050003718 intermolecular recognition site; other site 565050003719 dimerization interface [polypeptide binding]; other site 565050003720 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 565050003721 Uncharacterized conserved protein [Function unknown]; Region: COG5452 565050003722 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 565050003723 putative phosphate acyltransferase; Provisional; Region: PRK05331 565050003724 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 565050003725 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 565050003726 dimer interface [polypeptide binding]; other site 565050003727 active site 565050003728 CoA binding pocket [chemical binding]; other site 565050003729 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 565050003730 DNA binding site [nucleotide binding] 565050003731 dimer interface [polypeptide binding]; other site 565050003732 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 565050003733 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 565050003734 DNA binding residues [nucleotide binding] 565050003735 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 565050003736 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 565050003737 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 565050003738 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 565050003739 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 565050003740 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 565050003741 23S rRNA interface [nucleotide binding]; other site 565050003742 L3 interface [polypeptide binding]; other site 565050003743 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 565050003744 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 565050003745 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 565050003746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 565050003747 aminotransferase; Validated; Region: PRK09148 565050003748 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 565050003749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050003750 homodimer interface [polypeptide binding]; other site 565050003751 catalytic residue [active] 565050003752 homoserine dehydrogenase; Provisional; Region: PRK06349 565050003753 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 565050003754 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 565050003755 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 565050003756 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 565050003757 putative active site [active] 565050003758 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 565050003759 DHH family; Region: DHH; pfam01368 565050003760 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 565050003761 DNA-binding site [nucleotide binding]; DNA binding site 565050003762 RNA-binding motif; other site 565050003763 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 565050003764 DNA-binding site [nucleotide binding]; DNA binding site 565050003765 RNA-binding motif; other site 565050003766 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 565050003767 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 565050003768 L-Lactate 2-monooxygenase (LMO) FMN-binding domain. LMO is a FMN-containing enzyme that catalyzes the conversion of L-lactate and oxygen to acetate, carbon dioxide, and water. LMO is a member of the family of alpha-hydroxy acid oxidases. It is thought...; Region: LMO_FMN; cd03332 565050003769 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 565050003770 putative active site [active] 565050003771 putative substrate binding site [chemical binding]; other site 565050003772 putative FMN binding site [chemical binding]; other site 565050003773 putative catalytic residues [active] 565050003774 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 565050003775 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050003776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050003777 dimer interface [polypeptide binding]; other site 565050003778 putative CheW interface [polypeptide binding]; other site 565050003779 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 565050003780 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 565050003781 Low-spin heme binding site [chemical binding]; other site 565050003782 Putative water exit pathway; other site 565050003783 Binuclear center (active site) [active] 565050003784 Putative proton exit pathway; other site 565050003785 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 565050003786 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 565050003787 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 565050003788 N-terminal domain of cytochrome oxidase-cbb3, FixP; Region: FixP_N; pfam14715 565050003789 Cytochrome c; Region: Cytochrom_C; pfam00034 565050003790 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 565050003791 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 565050003792 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 565050003793 IG-like fold at C-terminal of FixG, putative oxidoreductase; Region: FixG_C; pfam11614 565050003794 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 565050003795 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 565050003796 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 565050003797 metal-binding site [ion binding] 565050003798 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565050003799 Soluble P-type ATPase [General function prediction only]; Region: COG4087 565050003800 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 565050003801 OmpW family; Region: OmpW; pfam03922 565050003802 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 565050003803 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 565050003804 ligand binding site [chemical binding]; other site 565050003805 flexible hinge region; other site 565050003806 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 565050003807 putative switch regulator; other site 565050003808 non-specific DNA interactions [nucleotide binding]; other site 565050003809 DNA binding site [nucleotide binding] 565050003810 sequence specific DNA binding site [nucleotide binding]; other site 565050003811 putative cAMP binding site [chemical binding]; other site 565050003812 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 565050003813 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 565050003814 FeS/SAM binding site; other site 565050003815 HemN C-terminal domain; Region: HemN_C; pfam06969 565050003816 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 565050003817 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 565050003818 ligand binding site [chemical binding]; other site 565050003819 flexible hinge region; other site 565050003820 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 565050003821 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 565050003822 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 565050003823 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 565050003824 nucleotidyl binding site; other site 565050003825 metal binding site [ion binding]; metal-binding site 565050003826 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 565050003827 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 565050003828 active site 565050003829 catalytic residues [active] 565050003830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 565050003831 Transcriptional regulators [Transcription]; Region: FadR; COG2186 565050003832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050003833 DNA-binding site [nucleotide binding]; DNA binding site 565050003834 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 565050003835 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 565050003836 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 565050003837 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 565050003838 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 565050003839 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 565050003840 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050003841 catalytic residue [active] 565050003842 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 565050003843 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 565050003844 active site residue [active] 565050003845 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 565050003846 active site residue [active] 565050003847 cysteine synthase; Region: PLN02565 565050003848 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 565050003849 dimer interface [polypeptide binding]; other site 565050003850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050003851 catalytic residue [active] 565050003852 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 565050003853 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 565050003854 S-adenosylmethionine binding site [chemical binding]; other site 565050003855 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 565050003856 DNA photolyase; Region: DNA_photolyase; pfam00875 565050003857 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 565050003858 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 565050003859 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 565050003860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050003861 NAD(P) binding site [chemical binding]; other site 565050003862 active site 565050003863 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 565050003864 "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 565050003865 dimer interface [polypeptide binding]; other site 565050003866 active site 565050003867 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 565050003868 DUF35 OB-fold domain; Region: DUF35; pfam01796 565050003869 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 565050003870 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 565050003871 active site 565050003872 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 565050003873 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 565050003874 Phosphotransferase enzyme family; Region: APH; pfam01636 565050003875 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 565050003876 putative active site [active] 565050003877 putative substrate binding site [chemical binding]; other site 565050003878 ATP binding site [chemical binding]; other site 565050003879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 565050003880 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 565050003881 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 565050003882 generic binding surface II; other site 565050003883 ssDNA binding site; other site 565050003884 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 565050003885 ATP binding site [chemical binding]; other site 565050003886 putative Mg++ binding site [ion binding]; other site 565050003887 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 565050003888 nucleotide binding region [chemical binding]; other site 565050003889 ATP-binding site [chemical binding]; other site 565050003890 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 565050003891 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 565050003892 Walker A/P-loop; other site 565050003893 ATP binding site [chemical binding]; other site 565050003894 Q-loop/lid; other site 565050003895 ABC transporter signature motif; other site 565050003896 Walker B; other site 565050003897 D-loop; other site 565050003898 H-loop/switch region; other site 565050003899 amino acid ABC transporter permease; Provisional; Region: PRK15100 565050003900 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 565050003901 dimer interface [polypeptide binding]; other site 565050003902 conserved gate region; other site 565050003903 putative PBP binding loops; other site 565050003904 ABC-ATPase subunit interface; other site 565050003905 cystine transporter subunit; Provisional; Region: PRK11260 565050003906 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 565050003907 substrate binding pocket [chemical binding]; other site 565050003908 membrane-bound complex binding site; other site 565050003909 hinge residues; other site 565050003910 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 565050003911 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 565050003912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 565050003913 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 565050003914 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 565050003915 DctM-like transporters; Region: DctM; pfam06808 565050003916 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 565050003917 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 565050003918 dimer interface [polypeptide binding]; other site 565050003919 FMN binding site [chemical binding]; other site 565050003920 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 565050003921 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 565050003922 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 565050003923 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565050003924 Walker A motif; other site 565050003925 ATP binding site [chemical binding]; other site 565050003926 Walker B motif; other site 565050003927 arginine finger; other site 565050003928 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 565050003929 TPR motif; other site 565050003930 TPR repeat; Region: TPR_11; pfam13414 565050003931 binding surface 565050003932 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 565050003933 binding surface 565050003934 Tetratricopeptide repeat; Region: TPR_16; pfam13432 565050003935 TPR motif; other site 565050003936 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 565050003937 binding surface 565050003938 TPR motif; other site 565050003939 TPR repeat; Region: TPR_11; pfam13414 565050003940 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 565050003941 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 565050003942 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 565050003943 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050003944 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050003945 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050003946 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050003947 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050003948 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050003949 FlaG protein; Region: FlaG; cl00591 565050003950 flagellin; Reviewed; Region: PRK12687 565050003951 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050003952 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050003953 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 565050003954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565050003955 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 565050003956 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 565050003957 dimer interface [polypeptide binding]; other site 565050003958 ssDNA binding site [nucleotide binding]; other site 565050003959 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565050003960 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 565050003961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050003962 Coenzyme A binding pocket [chemical binding]; other site 565050003963 pyruvate phosphate dikinase; Provisional; Region: PRK09279 565050003964 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 565050003965 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 565050003966 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 565050003967 Pirin-related protein [General function prediction only]; Region: COG1741 565050003968 Pirin; Region: Pirin; pfam02678 565050003969 LysR family transcriptional regulator; Provisional; Region: PRK14997 565050003970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050003971 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 565050003972 putative effector binding pocket; other site 565050003973 dimerization interface [polypeptide binding]; other site 565050003974 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 565050003975 putative chaperone; Provisional; Region: PRK11678 565050003976 nucleotide binding site [chemical binding]; other site 565050003977 putative NEF/HSP70 interaction site [polypeptide binding]; other site 565050003978 SBD interface [polypeptide binding]; other site 565050003979 Predicted flavoproteins [General function prediction only]; Region: COG2081 565050003980 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 565050003981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050003982 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 565050003983 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 565050003984 ATP binding site [chemical binding]; other site 565050003985 putative Mg++ binding site [ion binding]; other site 565050003986 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 565050003987 nucleotide binding region [chemical binding]; other site 565050003988 ATP-binding site [chemical binding]; other site 565050003989 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 565050003990 RNA binding site [nucleotide binding]; other site 565050003991 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 565050003992 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 565050003993 active site 565050003994 HIGH motif; other site 565050003995 KMSKS motif; other site 565050003996 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 565050003997 tRNA binding surface [nucleotide binding]; other site 565050003998 anticodon binding site; other site 565050003999 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 565050004000 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050004001 putative substrate translocation pore; other site 565050004002 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 565050004003 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 565050004004 CysD dimerization site [polypeptide binding]; other site 565050004005 G1 box; other site 565050004006 putative GEF interaction site [polypeptide binding]; other site 565050004007 GTP/Mg2+ binding site [chemical binding]; other site 565050004008 Switch I region; other site 565050004009 G2 box; other site 565050004010 G3 box; other site 565050004011 Switch II region; other site 565050004012 G4 box; other site 565050004013 G5 box; other site 565050004014 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 565050004015 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 565050004016 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 565050004017 ligand-binding site [chemical binding]; other site 565050004018 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 565050004019 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 565050004020 Active Sites [active] 565050004021 envelope glycoprotein C; Provisional; Region: PHA03269 565050004022 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 565050004023 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 565050004024 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 565050004025 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 565050004026 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 565050004027 galactarate dehydratase; Region: galactar-dH20; TIGR03248 565050004028 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 565050004029 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 565050004030 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050004031 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050004032 DNA binding site [nucleotide binding] 565050004033 domain linker motif; other site 565050004034 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050004035 putative dimerization interface [polypeptide binding]; other site 565050004036 putative ligand binding site [chemical binding]; other site 565050004037 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 565050004038 5-keto 4-deoxyuronate isomerase [Carbohydrate transport and metabolism]; Region: KduI; COG3717 565050004039 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 565050004040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050004041 NAD(P) binding site [chemical binding]; other site 565050004042 active site 565050004043 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 565050004044 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 565050004045 Entner-Doudoroff aldolase; Region: eda; TIGR01182 565050004046 active site 565050004047 intersubunit interface [polypeptide binding]; other site 565050004048 catalytic residue [active] 565050004049 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 565050004050 substrate binding site [chemical binding]; other site 565050004051 ATP binding site [chemical binding]; other site 565050004052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 565050004053 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050004054 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050004055 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 565050004056 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 565050004057 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 565050004058 catalytic residues [active] 565050004059 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 565050004060 amphipathic channel; other site 565050004061 Asn-Pro-Ala signature motifs; other site 565050004062 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 565050004063 dimerization interface [polypeptide binding]; other site 565050004064 putative DNA binding site [nucleotide binding]; other site 565050004065 putative Zn2+ binding site [ion binding]; other site 565050004066 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 565050004067 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 565050004068 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 565050004069 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 565050004070 D-galactonate transporter; Region: 2A0114; TIGR00893 565050004071 putative substrate translocation pore; other site 565050004072 2-keto-4-pentenoate hydratase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3971 565050004073 Predicted transcriptional regulator [Transcription]; Region: COG3682 565050004074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 565050004075 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 565050004076 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 565050004077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 565050004078 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 565050004079 Uncharacterized conserved protein [Function unknown]; Region: COG3791 565050004080 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 565050004081 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 565050004082 Transglycosylase; Region: Transgly; pfam00912 565050004083 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565050004084 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 565050004085 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 565050004086 N-terminal plug; other site 565050004087 ligand-binding site [chemical binding]; other site 565050004088 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 565050004089 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565050004090 Walker A/P-loop; other site 565050004091 ATP binding site [chemical binding]; other site 565050004092 Q-loop/lid; other site 565050004093 ABC transporter signature motif; other site 565050004094 Walker B; other site 565050004095 D-loop; other site 565050004096 H-loop/switch region; other site 565050004097 Acyltransferase family; Region: Acyl_transf_3; cl19154 565050004098 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 565050004099 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 565050004100 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 565050004101 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 565050004102 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 565050004103 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 565050004104 nucleotide binding pocket [chemical binding]; other site 565050004105 K-X-D-G motif; other site 565050004106 catalytic site [active] 565050004107 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 565050004108 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 565050004109 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 565050004110 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 565050004111 Dimer interface [polypeptide binding]; other site 565050004112 BRCT sequence motif; other site 565050004113 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 565050004114 active site 565050004115 catalytic site [active] 565050004116 substrate binding site [chemical binding]; other site 565050004117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 565050004118 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 565050004119 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 565050004120 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 565050004121 active site 565050004122 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 565050004123 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 565050004124 S-adenosylmethionine binding site [chemical binding]; other site 565050004125 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 565050004126 Part of AAA domain; Region: AAA_19; pfam13245 565050004127 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 565050004128 Ribbon-helix-helix domain; Region: RHH_4; cl01775 565050004129 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050004130 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 565050004131 Methane oxygenase PmoA; Region: PmoA; pfam14100 565050004132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3798 565050004133 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050004134 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 565050004135 C-terminal domain interface [polypeptide binding]; other site 565050004136 GSH binding site (G-site) [chemical binding]; other site 565050004137 dimer interface [polypeptide binding]; other site 565050004138 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 565050004139 dimer interface [polypeptide binding]; other site 565050004140 N-terminal domain interface [polypeptide binding]; other site 565050004141 substrate binding pocket (H-site) [chemical binding]; other site 565050004142 aspartate aminotransferase; Provisional; Region: PRK05764 565050004143 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 565050004144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050004145 homodimer interface [polypeptide binding]; other site 565050004146 catalytic residue [active] 565050004147 Predicted flavoprotein [General function prediction only]; Region: COG0431 565050004148 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 565050004149 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 565050004150 P-loop; other site 565050004151 Magnesium ion binding site [ion binding]; other site 565050004152 Uncharacterized conserved protein [Function unknown]; Region: COG0398 565050004153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050004154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050004155 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 565050004156 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565050004157 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 565050004158 Alkyl sulfatase C-terminal; Region: Alkyl_sulf_C; pfam14864 565050004159 2-isopropylmalate synthase; Validated; Region: PRK00915 565050004160 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 565050004161 active site 565050004162 catalytic residues [active] 565050004163 metal binding site [ion binding]; metal-binding site 565050004164 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 565050004165 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565050004166 rod shape-determining protein MreB; Provisional; Region: PRK13927 565050004167 MreB and similar proteins; Region: MreB_like; cd10225 565050004168 nucleotide binding site [chemical binding]; other site 565050004169 Mg binding site [ion binding]; other site 565050004170 putative protofilament interaction site [polypeptide binding]; other site 565050004171 RodZ interaction site [polypeptide binding]; other site 565050004172 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 565050004173 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 565050004174 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 565050004175 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 565050004176 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 565050004177 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050004178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565050004179 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 565050004180 Fe-S cluster binding site [ion binding]; other site 565050004181 DNA binding site [nucleotide binding] 565050004182 active site 565050004183 Uncharacterized conserved protein [Function unknown]; Region: COG1432 565050004184 LabA_like proteins; Region: LabA; cd10911 565050004185 putative metal binding site [ion binding]; other site 565050004186 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 565050004187 catalytic center binding site [active] 565050004188 ATP binding site [chemical binding]; other site 565050004189 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 565050004190 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 565050004191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565050004192 Zn2+ binding site [ion binding]; other site 565050004193 Mg2+ binding site [ion binding]; other site 565050004194 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 565050004195 synthetase active site [active] 565050004196 NTP binding site [chemical binding]; other site 565050004197 metal binding site [ion binding]; metal-binding site 565050004198 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 565050004199 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 565050004200 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_20; cd04679 565050004201 nudix motif; other site 565050004202 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565050004203 active site 565050004204 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 565050004205 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 565050004206 putative metal binding site [ion binding]; other site 565050004207 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 565050004208 active site 565050004209 hydrophilic channel; other site 565050004210 dimerization interface [polypeptide binding]; other site 565050004211 catalytic residues [active] 565050004212 active site lid [active] 565050004213 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 565050004214 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 565050004215 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 565050004216 Catalytic site [active] 565050004217 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 565050004218 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 565050004219 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 565050004220 dimerization interface [polypeptide binding]; other site 565050004221 active site 565050004222 metal binding site [ion binding]; metal-binding site 565050004223 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 565050004224 dsRNA binding site [nucleotide binding]; other site 565050004225 GTPase [General function prediction only]; Region: Era; COG1159 565050004226 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 565050004227 G1 box; other site 565050004228 GTP/Mg2+ binding site [chemical binding]; other site 565050004229 Switch I region; other site 565050004230 G2 box; other site 565050004231 Switch II region; other site 565050004232 G3 box; other site 565050004233 G4 box; other site 565050004234 G5 box; other site 565050004235 KH domain; Region: KH_2; pfam07650 565050004236 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 565050004237 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 565050004238 Recombination protein O N terminal; Region: RecO_N; pfam11967 565050004239 Recombination protein O C terminal; Region: RecO_C; pfam02565 565050004240 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 565050004241 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 565050004242 putative active site [active] 565050004243 putative metal binding site [ion binding]; other site 565050004244 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 565050004245 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 565050004246 CAP-like domain; other site 565050004247 active site 565050004248 primary dimer interface [polypeptide binding]; other site 565050004249 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004250 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050004251 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050004252 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 565050004253 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 565050004254 NAD(P) binding site [chemical binding]; other site 565050004255 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 565050004256 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 565050004257 FMN binding site [chemical binding]; other site 565050004258 substrate binding site [chemical binding]; other site 565050004259 putative catalytic residue [active] 565050004260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050004261 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 565050004262 NAD(P) binding site [chemical binding]; other site 565050004263 active site 565050004264 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 565050004265 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 565050004266 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 565050004267 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 565050004268 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 565050004269 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 565050004270 ligand binding site [chemical binding]; other site 565050004271 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 565050004272 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 565050004273 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 565050004274 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 565050004275 AAA domain; Region: AAA_26; pfam13500 565050004276 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 565050004277 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 565050004278 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050004279 catalytic residue [active] 565050004280 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 565050004281 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 565050004282 inhibitor-cofactor binding pocket; inhibition site 565050004283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050004284 catalytic residue [active] 565050004285 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 565050004286 EamA-like transporter family; Region: EamA; pfam00892 565050004287 EamA-like transporter family; Region: EamA; pfam00892 565050004288 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 565050004289 E-class dimer interface [polypeptide binding]; other site 565050004290 P-class dimer interface [polypeptide binding]; other site 565050004291 active site 565050004292 Cu2+ binding site [ion binding]; other site 565050004293 Zn2+ binding site [ion binding]; other site 565050004294 DNA gyrase subunit A; Validated; Region: PRK05560 565050004295 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 565050004296 CAP-like domain; other site 565050004297 active site 565050004298 primary dimer interface [polypeptide binding]; other site 565050004299 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004300 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004301 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004302 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004303 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004304 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565050004305 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 565050004306 active site 565050004307 (T/H)XGH motif; other site 565050004308 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 565050004309 active site 565050004310 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 565050004311 active site 565050004312 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 565050004313 active site 565050004314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 565050004315 putative catalytic site [active] 565050004316 putative metal binding site [ion binding]; other site 565050004317 putative phosphate binding site [ion binding]; other site 565050004318 Conjugal transfer protein TrbH; Region: TrbH; cl19428 565050004319 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 565050004320 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 565050004321 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 565050004322 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 565050004323 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 565050004324 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565050004325 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 565050004326 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 565050004327 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 565050004328 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 565050004329 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 565050004330 Ligand Binding Site [chemical binding]; other site 565050004331 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 565050004332 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 565050004333 dimer interface [polypeptide binding]; other site 565050004334 phosphorylation site [posttranslational modification] 565050004335 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050004336 ATP binding site [chemical binding]; other site 565050004337 Mg2+ binding site [ion binding]; other site 565050004338 G-X-G motif; other site 565050004339 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 565050004340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050004341 active site 565050004342 phosphorylation site [posttranslational modification] 565050004343 intermolecular recognition site; other site 565050004344 dimerization interface [polypeptide binding]; other site 565050004345 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 565050004346 DNA binding site [nucleotide binding] 565050004347 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 565050004348 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 565050004349 dimer interface [polypeptide binding]; other site 565050004350 conserved gate region; other site 565050004351 putative PBP binding loops; other site 565050004352 ABC-ATPase subunit interface; other site 565050004353 sulfate transport protein; Provisional; Region: cysT; CHL00187 565050004354 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 565050004355 dimer interface [polypeptide binding]; other site 565050004356 conserved gate region; other site 565050004357 putative PBP binding loops; other site 565050004358 ABC-ATPase subunit interface; other site 565050004359 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 565050004360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050004361 Walker A/P-loop; other site 565050004362 ATP binding site [chemical binding]; other site 565050004363 Q-loop/lid; other site 565050004364 ABC transporter signature motif; other site 565050004365 Walker B; other site 565050004366 D-loop; other site 565050004367 H-loop/switch region; other site 565050004368 PilZ domain; Region: PilZ; pfam07238 565050004369 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 565050004370 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 565050004371 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 565050004372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 565050004373 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 565050004374 Surface antigen; Region: Bac_surface_Ag; pfam01103 565050004375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 565050004376 Family of unknown function (DUF490); Region: DUF490; pfam04357 565050004377 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 565050004378 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 565050004379 metal binding site [ion binding]; metal-binding site 565050004380 dimer interface [polypeptide binding]; other site 565050004381 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 565050004382 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 565050004383 NAD(P) binding site [chemical binding]; other site 565050004384 catalytic residues [active] 565050004385 succinylarginine dihydrolase; Provisional; Region: PRK13281 565050004386 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 565050004387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050004388 Coenzyme A binding pocket [chemical binding]; other site 565050004389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565050004390 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 565050004391 LytTr DNA-binding domain; Region: LytTR; pfam04397 565050004392 Acyltransferase family; Region: Acyl_transf_3; pfam01757 565050004393 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 565050004394 cofactor binding site; other site 565050004395 metal binding site [ion binding]; metal-binding site 565050004396 Uncharacterized conserved protein [Function unknown]; Region: COG3785 565050004397 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 565050004398 S-adenosylmethionine binding site [chemical binding]; other site 565050004399 Ion channel; Region: Ion_trans_2; pfam07885 565050004400 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 565050004401 TrkA-N domain; Region: TrkA_N; pfam02254 565050004402 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 565050004403 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 565050004404 active site 565050004405 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 565050004406 Predicted membrane protein [Function unknown]; Region: COG3686 565050004407 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 565050004408 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 565050004409 GMP synthase; Reviewed; Region: guaA; PRK00074 565050004410 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 565050004411 AMP/PPi binding site [chemical binding]; other site 565050004412 candidate oxyanion hole; other site 565050004413 catalytic triad [active] 565050004414 potential glutamine specificity residues [chemical binding]; other site 565050004415 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 565050004416 ATP Binding subdomain [chemical binding]; other site 565050004417 Ligand Binding sites [chemical binding]; other site 565050004418 Dimerization subdomain; other site 565050004419 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 565050004420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050004421 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 565050004422 putative dimerization interface [polypeptide binding]; other site 565050004423 Predicted acyl esterases [General function prediction only]; Region: COG2936 565050004424 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 565050004425 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050004426 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 565050004427 N-terminal plug; other site 565050004428 ligand-binding site [chemical binding]; other site 565050004429 AbgT putative transporter family; Region: ABG_transport; pfam03806 565050004430 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 565050004431 putative active site [active] 565050004432 putative metal binding site [ion binding]; other site 565050004433 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050004434 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050004435 DNA binding site [nucleotide binding] 565050004436 domain linker motif; other site 565050004437 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 565050004438 dimerization interface [polypeptide binding]; other site 565050004439 ligand binding site [chemical binding]; other site 565050004440 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 565050004441 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 565050004442 putative substrate translocation pore; other site 565050004443 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 565050004444 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 565050004445 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 565050004446 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 565050004447 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 565050004448 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 565050004449 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 565050004450 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 565050004451 Cytochrome c2 [Energy production and conversion]; Region: COG3474 565050004452 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 565050004453 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 565050004454 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050004455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050004456 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 565050004457 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 565050004458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 565050004459 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 565050004460 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050004461 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 565050004462 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 565050004463 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 565050004464 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 565050004465 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 565050004466 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 565050004467 Predicted transcriptional regulator [Transcription]; Region: COG3682 565050004468 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 565050004469 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 565050004470 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 565050004471 type II secretion system protein F; Region: GspF; TIGR02120 565050004472 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 565050004473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050004474 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 565050004475 DNA binding residues [nucleotide binding] 565050004476 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 565050004477 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 565050004478 DNA binding residues [nucleotide binding] 565050004479 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 565050004480 oligomerization interface [polypeptide binding]; other site 565050004481 active site 565050004482 metal binding site [ion binding]; metal-binding site 565050004483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 565050004484 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 565050004485 PQQ-like domain; Region: PQQ_2; pfam13360 565050004486 Trp docking motif [polypeptide binding]; other site 565050004487 active site 565050004488 PQQ-like domain; Region: PQQ_2; pfam13360 565050004489 GTP-binding protein Der; Reviewed; Region: PRK00093 565050004490 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 565050004491 G1 box; other site 565050004492 GTP/Mg2+ binding site [chemical binding]; other site 565050004493 Switch I region; other site 565050004494 G2 box; other site 565050004495 Switch II region; other site 565050004496 G3 box; other site 565050004497 G4 box; other site 565050004498 G5 box; other site 565050004499 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 565050004500 G1 box; other site 565050004501 GTP/Mg2+ binding site [chemical binding]; other site 565050004502 Switch I region; other site 565050004503 G2 box; other site 565050004504 G3 box; other site 565050004505 Switch II region; other site 565050004506 G4 box; other site 565050004507 G5 box; other site 565050004508 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 565050004509 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050004510 PAS domain; Region: PAS_9; pfam13426 565050004511 putative active site [active] 565050004512 heme pocket [chemical binding]; other site 565050004513 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050004514 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050004515 dimer interface [polypeptide binding]; other site 565050004516 putative CheW interface [polypeptide binding]; other site 565050004517 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 565050004518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050004519 NAD(P) binding site [chemical binding]; other site 565050004520 active site 565050004521 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 565050004522 amidophosphoribosyltransferase; Provisional; Region: PRK09123 565050004523 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 565050004524 active site 565050004525 tetramer interface [polypeptide binding]; other site 565050004526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565050004527 active site 565050004528 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 565050004529 DNA repair protein RadA; Provisional; Region: PRK11823 565050004530 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 565050004531 Walker A motif; other site 565050004532 ATP binding site [chemical binding]; other site 565050004533 Walker B motif; other site 565050004534 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 565050004535 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 565050004536 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 565050004537 active site 565050004538 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565050004539 dimer interface [polypeptide binding]; other site 565050004540 substrate binding site [chemical binding]; other site 565050004541 catalytic residues [active] 565050004542 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 565050004543 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050004544 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050004545 CoenzymeA binding site [chemical binding]; other site 565050004546 subunit interaction site [polypeptide binding]; other site 565050004547 PHB binding site; other site 565050004548 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050004549 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050004550 Acid Phosphatase; Region: Acid_PPase; cl17256 565050004551 replicative DNA helicase; Provisional; Region: PRK09165 565050004552 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 565050004553 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 565050004554 Walker A motif; other site 565050004555 ATP binding site [chemical binding]; other site 565050004556 Walker B motif; other site 565050004557 DNA binding loops [nucleotide binding] 565050004558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050004559 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 565050004560 N-terminal plug; other site 565050004561 ligand-binding site [chemical binding]; other site 565050004562 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 565050004563 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 565050004564 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 565050004565 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 565050004566 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 565050004567 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 565050004568 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 565050004569 Helix-turn-helix domain; Region: HTH_18; pfam12833 565050004570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050004571 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 565050004572 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 565050004573 catalytic triad [active] 565050004574 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 565050004575 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 565050004576 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 565050004577 homotetramer interface [polypeptide binding]; other site 565050004578 NAD(P) binding site [chemical binding]; other site 565050004579 homodimer interface [polypeptide binding]; other site 565050004580 active site 565050004581 Methyltransferase domain; Region: Methyltransf_23; pfam13489 565050004582 acyl carrier protein; Provisional; Region: acpP; PRK00982 565050004583 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 565050004584 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 565050004585 dimer interface [polypeptide binding]; other site 565050004586 active site 565050004587 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 565050004588 dimerization interface [polypeptide binding]; other site 565050004589 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 565050004590 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 565050004591 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 565050004592 Guanylate kinase; Region: Guanylate_kin; pfam00625 565050004593 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 565050004594 catalytic site [active] 565050004595 G-X2-G-X-G-K; other site 565050004596 Predicted membrane protein [Function unknown]; Region: COG2261 565050004597 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 565050004598 SurA N-terminal domain; Region: SurA_N; pfam09312 565050004599 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 565050004600 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 565050004601 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 565050004602 OstA-like protein; Region: OstA; cl00844 565050004603 Organic solvent tolerance protein; Region: OstA_C; pfam04453 565050004604 Predicted permeases [General function prediction only]; Region: COG0795 565050004605 Predicted permeases [General function prediction only]; Region: COG0795 565050004606 multifunctional aminopeptidase A; Provisional; Region: PRK00913 565050004607 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 565050004608 interface (dimer of trimers) [polypeptide binding]; other site 565050004609 Substrate-binding/catalytic site; other site 565050004610 Zn-binding sites [ion binding]; other site 565050004611 DNA polymerase III subunit chi; Validated; Region: PRK05728 565050004612 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 565050004613 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 565050004614 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050004615 ABC transporter; Region: ABC_tran_2; pfam12848 565050004616 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050004617 Nucleoside diphosphate kinase; Region: NDK; pfam00334 565050004618 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 565050004619 active site 565050004620 multimer interface [polypeptide binding]; other site 565050004621 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 565050004622 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 565050004623 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 565050004624 active site 565050004625 substrate binding site [chemical binding]; other site 565050004626 cosubstrate binding site; other site 565050004627 catalytic site [active] 565050004628 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 565050004629 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 565050004630 dimerization interface [polypeptide binding]; other site 565050004631 putative ATP binding site [chemical binding]; other site 565050004632 ribonuclease D; Region: rnd; TIGR01388 565050004633 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 565050004634 catalytic site [active] 565050004635 putative active site [active] 565050004636 putative substrate binding site [chemical binding]; other site 565050004637 HRDC domain; Region: HRDC; pfam00570 565050004638 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 565050004639 dimer interface [polypeptide binding]; other site 565050004640 phosphorylation site [posttranslational modification] 565050004641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050004642 ATP binding site [chemical binding]; other site 565050004643 Mg2+ binding site [ion binding]; other site 565050004644 G-X-G motif; other site 565050004645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050004646 active site 565050004647 phosphorylation site [posttranslational modification] 565050004648 intermolecular recognition site; other site 565050004649 dimerization interface [polypeptide binding]; other site 565050004650 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050004651 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 565050004652 exopolyphosphatase; Region: exo_poly_only; TIGR03706 565050004653 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 565050004654 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 565050004655 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 565050004656 EcsC protein family; Region: EcsC; pfam12787 565050004657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 565050004658 Transposase; Region: DEDD_Tnp_IS110; pfam01548 565050004659 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 565050004660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050004661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050004662 Coenzyme A binding pocket [chemical binding]; other site 565050004663 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 565050004664 CTP synthetase; Validated; Region: pyrG; PRK05380 565050004665 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 565050004666 Catalytic site [active] 565050004667 active site 565050004668 UTP binding site [chemical binding]; other site 565050004669 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 565050004670 active site 565050004671 putative oxyanion hole; other site 565050004672 catalytic triad [active] 565050004673 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 565050004674 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 565050004675 catalytic motif [active] 565050004676 Catalytic residue [active] 565050004677 Aspartyl protease; Region: Asp_protease_2; pfam13650 565050004678 enoyl-CoA hydratase; Provisional; Region: PRK06190 565050004679 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050004680 substrate binding site [chemical binding]; other site 565050004681 oxyanion hole (OAH) forming residues; other site 565050004682 trimer interface [polypeptide binding]; other site 565050004683 MutS domain I; Region: MutS_I; pfam01624 565050004684 enolase; Provisional; Region: eno; PRK00077 565050004685 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 565050004686 dimer interface [polypeptide binding]; other site 565050004687 metal binding site [ion binding]; metal-binding site 565050004688 substrate binding pocket [chemical binding]; other site 565050004689 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 565050004690 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 565050004691 tetramer interface [polypeptide binding]; other site 565050004692 TPP-binding site [chemical binding]; other site 565050004693 heterodimer interface [polypeptide binding]; other site 565050004694 phosphorylation loop region [posttranslational modification] 565050004695 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 565050004696 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 565050004697 E3 interaction surface; other site 565050004698 lipoyl attachment site [posttranslational modification]; other site 565050004699 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 565050004700 alpha subunit interface [polypeptide binding]; other site 565050004701 TPP binding site [chemical binding]; other site 565050004702 heterodimer interface [polypeptide binding]; other site 565050004703 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 565050004704 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 565050004705 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 565050004706 E3 interaction surface; other site 565050004707 lipoyl attachment site [posttranslational modification]; other site 565050004708 e3 binding domain; Region: E3_binding; pfam02817 565050004709 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 565050004710 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 565050004711 catalytic residues [active] 565050004712 dimer interface [polypeptide binding]; other site 565050004713 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 565050004714 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050004715 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565050004716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050004717 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 565050004718 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 565050004719 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 565050004720 acyl-activating enzyme (AAE) consensus motif; other site 565050004721 putative AMP binding site [chemical binding]; other site 565050004722 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 565050004723 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050004724 lipoyl synthase; Provisional; Region: PRK05481 565050004725 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 565050004726 FeS/SAM binding site; other site 565050004727 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 565050004728 putative coenzyme Q binding site [chemical binding]; other site 565050004729 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 565050004730 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 565050004731 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 565050004732 substrate binding site; other site 565050004733 dimer interface; other site 565050004734 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 565050004735 homotrimer interaction site [polypeptide binding]; other site 565050004736 zinc binding site [ion binding]; other site 565050004737 CDP-binding sites; other site 565050004738 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 565050004739 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 565050004740 FMN binding site [chemical binding]; other site 565050004741 active site 565050004742 catalytic residues [active] 565050004743 substrate binding site [chemical binding]; other site 565050004744 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 565050004745 PAS domain; Region: PAS; smart00091 565050004746 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 565050004747 dimer interface [polypeptide binding]; other site 565050004748 phosphorylation site [posttranslational modification] 565050004749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050004750 ATP binding site [chemical binding]; other site 565050004751 Mg2+ binding site [ion binding]; other site 565050004752 G-X-G motif; other site 565050004753 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 565050004754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050004755 active site 565050004756 phosphorylation site [posttranslational modification] 565050004757 intermolecular recognition site; other site 565050004758 dimerization interface [polypeptide binding]; other site 565050004759 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 565050004760 Walker A motif; other site 565050004761 ATP binding site [chemical binding]; other site 565050004762 Walker B motif; other site 565050004763 arginine finger; other site 565050004764 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 565050004765 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 565050004766 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 565050004767 dimerization interface [polypeptide binding]; other site 565050004768 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050004769 putative active site [active] 565050004770 heme pocket [chemical binding]; other site 565050004771 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 565050004772 dimer interface [polypeptide binding]; other site 565050004773 phosphorylation site [posttranslational modification] 565050004774 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050004775 ATP binding site [chemical binding]; other site 565050004776 Mg2+ binding site [ion binding]; other site 565050004777 G-X-G motif; other site 565050004778 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 565050004779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050004780 active site 565050004781 phosphorylation site [posttranslational modification] 565050004782 intermolecular recognition site; other site 565050004783 dimerization interface [polypeptide binding]; other site 565050004784 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 565050004785 Walker A motif; other site 565050004786 ATP binding site [chemical binding]; other site 565050004787 Walker B motif; other site 565050004788 arginine finger; other site 565050004789 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 565050004790 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 565050004791 homodimer interface [polypeptide binding]; other site 565050004792 substrate-cofactor binding pocket; other site 565050004793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050004794 catalytic residue [active] 565050004795 bacterial Hfq-like; Region: Hfq; cd01716 565050004796 hexamer interface [polypeptide binding]; other site 565050004797 Sm1 motif; other site 565050004798 RNA binding site [nucleotide binding]; other site 565050004799 Sm2 motif; other site 565050004800 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 565050004801 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 565050004802 HflX GTPase family; Region: HflX; cd01878 565050004803 G1 box; other site 565050004804 GTP/Mg2+ binding site [chemical binding]; other site 565050004805 Switch I region; other site 565050004806 G2 box; other site 565050004807 G3 box; other site 565050004808 Switch II region; other site 565050004809 G4 box; other site 565050004810 G5 box; other site 565050004811 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 565050004812 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 565050004813 putative substrate translocation pore; other site 565050004814 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 565050004815 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 565050004816 N-terminal plug; other site 565050004817 ligand-binding site [chemical binding]; other site 565050004818 cobyric acid synthase; Provisional; Region: PRK00784 565050004819 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 565050004820 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 565050004821 catalytic triad [active] 565050004822 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 565050004823 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050004824 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050004825 DNA binding site [nucleotide binding] 565050004826 domain linker motif; other site 565050004827 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050004828 putative dimerization interface [polypeptide binding]; other site 565050004829 putative ligand binding site [chemical binding]; other site 565050004830 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050004831 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 565050004832 N-terminal plug; other site 565050004833 ligand-binding site [chemical binding]; other site 565050004834 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050004835 FAD dependent oxidoreductase; Region: DAO; pfam01266 565050004836 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 565050004837 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 565050004838 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050004839 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565050004840 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 565050004841 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 565050004842 FtsX-like permease family; Region: FtsX; pfam02687 565050004843 FtsX-like permease family; Region: FtsX; pfam02687 565050004844 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 565050004845 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565050004846 Walker A/P-loop; other site 565050004847 ATP binding site [chemical binding]; other site 565050004848 Q-loop/lid; other site 565050004849 ABC transporter signature motif; other site 565050004850 Walker B; other site 565050004851 D-loop; other site 565050004852 H-loop/switch region; other site 565050004853 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 565050004854 active site 565050004855 catalytic triad [active] 565050004856 oxyanion hole [active] 565050004857 switch loop; other site 565050004858 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565050004859 Helix-turn-helix domain; Region: HTH_38; pfam13936 565050004860 Homeodomain-like domain; Region: HTH_32; pfam13565 565050004861 Integrase core domain; Region: rve; pfam00665 565050004862 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050004863 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 565050004864 non-specific DNA binding site [nucleotide binding]; other site 565050004865 salt bridge; other site 565050004866 sequence-specific DNA binding site [nucleotide binding]; other site 565050004867 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 565050004868 Domain of unknown function (DUF955); Region: DUF955; pfam06114 565050004869 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 565050004870 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 565050004871 tetramer interface [polypeptide binding]; other site 565050004872 active site 565050004873 Mg2+/Mn2+ binding site [ion binding]; other site 565050004874 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 565050004875 active site 565050004876 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 565050004877 active site 565050004878 catalytic residues [active] 565050004879 DNA binding site [nucleotide binding] 565050004880 Int/Topo IB signature motif; other site 565050004881 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 565050004882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050004883 active site 565050004884 phosphorylation site [posttranslational modification] 565050004885 intermolecular recognition site; other site 565050004886 dimerization interface [polypeptide binding]; other site 565050004887 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 565050004888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050004889 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 565050004890 dimer interface [polypeptide binding]; other site 565050004891 phosphorylation site [posttranslational modification] 565050004892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050004893 ATP binding site [chemical binding]; other site 565050004894 Mg2+ binding site [ion binding]; other site 565050004895 G-X-G motif; other site 565050004896 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 565050004897 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 565050004898 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 565050004899 Subunit I/III interface [polypeptide binding]; other site 565050004900 Subunit III/IV interface [polypeptide binding]; other site 565050004901 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 565050004902 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 565050004903 D-pathway; other site 565050004904 Putative ubiquinol binding site [chemical binding]; other site 565050004905 Low-spin heme (heme b) binding site [chemical binding]; other site 565050004906 Putative water exit pathway; other site 565050004907 Binuclear center (heme o3/CuB) [ion binding]; other site 565050004908 K-pathway; other site 565050004909 Putative proton exit pathway; other site 565050004910 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 565050004911 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 565050004912 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 565050004913 metabolite-proton symporter; Region: 2A0106; TIGR00883 565050004914 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 565050004915 putative substrate translocation pore; other site 565050004916 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050004917 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050004918 DNA-binding site [nucleotide binding]; DNA binding site 565050004919 FCD domain; Region: FCD; pfam07729 565050004920 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 565050004921 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 565050004922 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 565050004923 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 565050004924 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 565050004925 N-terminal plug; other site 565050004926 ligand-binding site [chemical binding]; other site 565050004927 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 565050004928 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 565050004929 conserved cys residue [active] 565050004930 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 565050004931 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 565050004932 conserved cys residue [active] 565050004933 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050004934 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 565050004935 N-terminal plug; other site 565050004936 ligand-binding site [chemical binding]; other site 565050004937 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 565050004938 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 565050004939 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 565050004940 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 565050004941 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 565050004942 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 565050004943 Outer membrane efflux protein; Region: OEP; pfam02321 565050004944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050004945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050004946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 565050004947 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 565050004948 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050004949 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 565050004950 MMPL family; Region: MMPL; cl14618 565050004951 MFS/sugar transport protein; Region: MFS_2; pfam13347 565050004952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 565050004953 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050004954 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 565050004955 N-terminal plug; other site 565050004956 ligand-binding site [chemical binding]; other site 565050004957 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 565050004958 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565050004959 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565050004960 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 565050004961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 565050004962 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 565050004963 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 565050004964 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050004965 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050004966 active site 565050004967 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 565050004968 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 565050004969 acyl-CoA synthetase; Validated; Region: PRK07798 565050004970 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 565050004971 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 565050004972 acyl-activating enzyme (AAE) consensus motif; other site 565050004973 acyl-activating enzyme (AAE) consensus motif; other site 565050004974 putative AMP binding site [chemical binding]; other site 565050004975 putative active site [active] 565050004976 putative CoA binding site [chemical binding]; other site 565050004977 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 565050004978 putative active site [active] 565050004979 putative FMN binding site [chemical binding]; other site 565050004980 putative substrate binding site [chemical binding]; other site 565050004981 putative catalytic residue [active] 565050004982 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 565050004983 classical (c) SDRs; Region: SDR_c; cd05233 565050004984 NAD(P) binding site [chemical binding]; other site 565050004985 active site 565050004986 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 565050004987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050004988 active site 565050004989 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 565050004990 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 565050004991 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050004992 active site 565050004993 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 565050004994 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 565050004995 active site 565050004996 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050004997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050004998 NAD(P) binding site [chemical binding]; other site 565050004999 active site 565050005000 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050005001 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 565050005002 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 565050005003 Transcriptional regulator [Transcription]; Region: IclR; COG1414 565050005004 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 565050005005 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 565050005006 dimer interface [polypeptide binding]; other site 565050005007 acyl-activating enzyme (AAE) consensus motif; other site 565050005008 putative active site [active] 565050005009 AMP binding site [chemical binding]; other site 565050005010 putative CoA binding site [chemical binding]; other site 565050005011 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050005012 substrate binding site [chemical binding]; other site 565050005013 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 565050005014 trimer interface [polypeptide binding]; other site 565050005015 oxyanion hole (OAH) forming residues; other site 565050005016 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050005017 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 565050005018 enoyl-CoA hydratase; Provisional; Region: PRK06495 565050005019 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050005020 substrate binding site [chemical binding]; other site 565050005021 oxyanion hole (OAH) forming residues; other site 565050005022 trimer interface [polypeptide binding]; other site 565050005023 short chain dehydrogenase; Validated; Region: PRK06484 565050005024 classical (c) SDRs; Region: SDR_c; cd05233 565050005025 NAD(P) binding site [chemical binding]; other site 565050005026 active site 565050005027 classical (c) SDRs; Region: SDR_c; cd05233 565050005028 NAD(P) binding site [chemical binding]; other site 565050005029 active site 565050005030 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 565050005031 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 565050005032 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 565050005033 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 565050005034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050005035 putative substrate translocation pore; other site 565050005036 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 565050005037 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 565050005038 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 565050005039 active site 565050005040 DNA polymerase III subunit delta'; Validated; Region: PRK07471 565050005041 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 565050005042 Walker A motif; other site 565050005043 ATP binding site [chemical binding]; other site 565050005044 Walker B motif; other site 565050005045 arginine finger; other site 565050005046 thymidylate kinase; Validated; Region: tmk; PRK00698 565050005047 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 565050005048 TMP-binding site; other site 565050005049 ATP-binding site [chemical binding]; other site 565050005050 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 565050005051 rare lipoprotein A; Region: rlpA; TIGR00413 565050005052 Sporulation related domain; Region: SPOR; pfam05036 565050005053 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 565050005054 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 565050005055 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 565050005056 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 565050005057 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 565050005058 urea carboxylase; Region: urea_carbox; TIGR02712 565050005059 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050005060 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050005061 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 565050005062 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 565050005063 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 565050005064 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 565050005065 carboxyltransferase (CT) interaction site; other site 565050005066 biotinylation site [posttranslational modification]; other site 565050005067 allophanate hydrolase; Provisional; Region: PRK08186 565050005068 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565050005069 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 565050005070 Walker A/P-loop; other site 565050005071 ATP binding site [chemical binding]; other site 565050005072 Q-loop/lid; other site 565050005073 ABC transporter signature motif; other site 565050005074 Walker B; other site 565050005075 D-loop; other site 565050005076 H-loop/switch region; other site 565050005077 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 565050005078 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 565050005079 dimer interface [polypeptide binding]; other site 565050005080 conserved gate region; other site 565050005081 putative PBP binding loops; other site 565050005082 ABC-ATPase subunit interface; other site 565050005083 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 565050005084 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 565050005085 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 565050005086 Predicted transcriptional regulators [Transcription]; Region: COG1733 565050005087 dimerization interface [polypeptide binding]; other site 565050005088 putative DNA binding site [nucleotide binding]; other site 565050005089 putative Zn2+ binding site [ion binding]; other site 565050005090 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 565050005091 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 565050005092 S-adenosylmethionine binding site [chemical binding]; other site 565050005093 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 565050005094 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 565050005095 RNA binding surface [nucleotide binding]; other site 565050005096 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 565050005097 active site 565050005098 uracil binding [chemical binding]; other site 565050005099 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 565050005100 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 565050005101 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 565050005102 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 565050005103 metal binding site [ion binding]; metal-binding site 565050005104 nucleotidyl binding site; other site 565050005105 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 565050005106 catalytic residues [active] 565050005107 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 565050005108 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 565050005109 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 565050005110 ATP binding site [chemical binding]; other site 565050005111 putative Mg++ binding site [ion binding]; other site 565050005112 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 565050005113 nucleotide binding region [chemical binding]; other site 565050005114 ATP-binding site [chemical binding]; other site 565050005115 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 565050005116 Uncharacterized conserved protein [Function unknown]; Region: COG2938 565050005117 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 565050005118 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 565050005119 S-adenosylmethionine binding site [chemical binding]; other site 565050005120 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 565050005121 DEAD-like helicases superfamily; Region: DEXDc; smart00487 565050005122 ATP binding site [chemical binding]; other site 565050005123 Mg++ binding site [ion binding]; other site 565050005124 motif III; other site 565050005125 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 565050005126 nucleotide binding region [chemical binding]; other site 565050005127 ATP-binding site [chemical binding]; other site 565050005128 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]; Region: COG4421 565050005129 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 565050005130 NAD(P) binding site [chemical binding]; other site 565050005131 catalytic residues [active] 565050005132 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 565050005133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050005134 metal binding site [ion binding]; metal-binding site 565050005135 active site 565050005136 I-site; other site 565050005137 enoyl-CoA hydratase; Provisional; Region: PRK05981 565050005138 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050005139 substrate binding site [chemical binding]; other site 565050005140 oxyanion hole (OAH) forming residues; other site 565050005141 trimer interface [polypeptide binding]; other site 565050005142 ACT domain; Region: ACT_3; pfam10000 565050005143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 565050005144 ACT domain; Region: ACT_7; pfam13840 565050005145 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 565050005146 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 565050005147 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050005148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050005149 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 565050005150 putative acyl-acceptor binding pocket; other site 565050005151 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 565050005152 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 565050005153 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 565050005154 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050005155 catalytic residue [active] 565050005156 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 565050005157 FeS assembly protein SufD; Region: sufD; TIGR01981 565050005158 FeS assembly ATPase SufC; Region: sufC; TIGR01978 565050005159 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 565050005160 Walker A/P-loop; other site 565050005161 ATP binding site [chemical binding]; other site 565050005162 Q-loop/lid; other site 565050005163 ABC transporter signature motif; other site 565050005164 Walker B; other site 565050005165 D-loop; other site 565050005166 H-loop/switch region; other site 565050005167 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 565050005168 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 565050005169 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 565050005170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050005171 catalytic residue [active] 565050005172 Transcriptional regulator; Region: Rrf2; cl17282 565050005173 Rrf2 family protein; Region: rrf2_super; TIGR00738 565050005174 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 565050005175 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050005176 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 565050005177 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 565050005178 active site 565050005179 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 565050005180 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 565050005181 catalytic triad [active] 565050005182 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565050005183 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050005184 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 565050005185 peptide chain release factor 2; Validated; Region: prfB; PRK00578 565050005186 This domain is found in peptide chain release factors; Region: PCRF; smart00937 565050005187 RF-1 domain; Region: RF-1; pfam00472 565050005188 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 565050005189 Transglycosylase; Region: Transgly; pfam00912 565050005190 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 565050005191 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 565050005192 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 565050005193 active site 565050005194 metal binding site [ion binding]; metal-binding site 565050005195 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 565050005196 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 565050005197 homodimer interface [polypeptide binding]; other site 565050005198 oligonucleotide binding site [chemical binding]; other site 565050005199 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 565050005200 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 565050005201 Peptidase family M48; Region: Peptidase_M48; pfam01435 565050005202 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 565050005203 binding surface 565050005204 TPR motif; other site 565050005205 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 565050005206 binding surface 565050005207 TPR motif; other site 565050005208 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 565050005209 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 565050005210 catalytic residues [active] 565050005211 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 565050005212 ThiS interaction site; other site 565050005213 putative active site [active] 565050005214 tetramer interface [polypeptide binding]; other site 565050005215 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 565050005216 thiS-thiF/thiG interaction site; other site 565050005217 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 565050005218 trimer interface [polypeptide binding]; other site 565050005219 active site 565050005220 dimer interface [polypeptide binding]; other site 565050005221 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 565050005222 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 565050005223 carboxyltransferase (CT) interaction site; other site 565050005224 biotinylation site [posttranslational modification]; other site 565050005225 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 565050005226 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050005227 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050005228 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 565050005229 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 565050005230 NADH dehydrogenase; Validated; Region: PRK08183 565050005231 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 565050005232 TSCPD domain; Region: TSCPD; pfam12637 565050005233 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050005234 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005235 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005236 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050005237 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050005238 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005240 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050005241 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005242 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005243 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050005244 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 565050005245 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 565050005246 dimer interface [polypeptide binding]; other site 565050005247 anticodon binding site; other site 565050005248 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 565050005249 homodimer interface [polypeptide binding]; other site 565050005250 motif 1; other site 565050005251 active site 565050005252 motif 2; other site 565050005253 GAD domain; Region: GAD; pfam02938 565050005254 motif 3; other site 565050005255 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 565050005256 substrate binding site [chemical binding]; other site 565050005257 dimer interface [polypeptide binding]; other site 565050005258 catalytic triad [active] 565050005259 periplasmic folding chaperone; Provisional; Region: PRK10788 565050005260 SurA N-terminal domain; Region: SurA_N_3; cl07813 565050005261 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 565050005262 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 565050005263 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 565050005264 anthranilate synthase component I; Provisional; Region: PRK13573 565050005265 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 565050005266 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 565050005267 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 565050005268 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 565050005269 glutamine binding [chemical binding]; other site 565050005270 catalytic triad [active] 565050005271 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 565050005272 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 565050005273 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 565050005274 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 565050005275 active site 565050005276 ribulose/triose binding site [chemical binding]; other site 565050005277 phosphate binding site [ion binding]; other site 565050005278 substrate (anthranilate) binding pocket [chemical binding]; other site 565050005279 product (indole) binding pocket [chemical binding]; other site 565050005280 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 565050005281 putative acyl-acceptor binding pocket; other site 565050005282 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 565050005283 S-adenosylmethionine binding site [chemical binding]; other site 565050005284 LexA repressor; Validated; Region: PRK00215 565050005285 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 565050005286 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 565050005287 Catalytic site [active] 565050005288 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 565050005289 tetramer interface [polypeptide binding]; other site 565050005290 active site 565050005291 Mg2+/Mn2+ binding site [ion binding]; other site 565050005292 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 565050005293 Competence protein; Region: Competence; pfam03772 565050005294 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 565050005295 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 565050005296 active site 565050005297 HIGH motif; other site 565050005298 KMSKS motif; other site 565050005299 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 565050005300 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 565050005301 dimer interface [polypeptide binding]; other site 565050005302 active site 565050005303 citrylCoA binding site [chemical binding]; other site 565050005304 NADH binding [chemical binding]; other site 565050005305 cationic pore residues; other site 565050005306 oxalacetate/citrate binding site [chemical binding]; other site 565050005307 coenzyme A binding site [chemical binding]; other site 565050005308 catalytic triad [active] 565050005309 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 565050005310 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 565050005311 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 565050005312 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 565050005313 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 565050005314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 565050005315 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 565050005316 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 565050005317 active site 565050005318 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 565050005319 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 565050005320 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 565050005321 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 565050005322 trimer interface [polypeptide binding]; other site 565050005323 active site 565050005324 UDP-GlcNAc binding site [chemical binding]; other site 565050005325 lipid binding site [chemical binding]; lipid-binding site 565050005326 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 565050005327 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 565050005328 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 565050005329 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 565050005330 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 565050005331 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 565050005332 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 565050005333 Surface antigen; Region: Bac_surface_Ag; pfam01103 565050005334 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 565050005335 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 565050005336 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 565050005337 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 565050005338 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 565050005339 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 565050005340 active site 565050005341 dimer interface [polypeptide binding]; other site 565050005342 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 565050005343 hinge region; other site 565050005344 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 565050005345 putative nucleotide binding site [chemical binding]; other site 565050005346 uridine monophosphate binding site [chemical binding]; other site 565050005347 homohexameric interface [polypeptide binding]; other site 565050005348 elongation factor Ts; Provisional; Region: tsf; PRK09377 565050005349 UBA/TS-N domain; Region: UBA; pfam00627 565050005350 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 565050005351 rRNA interaction site [nucleotide binding]; other site 565050005352 S8 interaction site; other site 565050005353 putative laminin-1 binding site; other site 565050005354 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 565050005355 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 565050005356 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 565050005357 S-adenosylmethionine binding site [chemical binding]; other site 565050005358 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 565050005359 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 565050005360 putative active site [active] 565050005361 putative PHP Thumb interface [polypeptide binding]; other site 565050005362 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 565050005363 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 565050005364 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 565050005365 generic binding surface II; other site 565050005366 generic binding surface I; other site 565050005367 nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_CeIAG; cd02649 565050005368 active site 565050005369 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565050005370 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565050005371 Walker A/P-loop; other site 565050005372 ATP binding site [chemical binding]; other site 565050005373 Q-loop/lid; other site 565050005374 ABC transporter signature motif; other site 565050005375 Walker B; other site 565050005376 D-loop; other site 565050005377 H-loop/switch region; other site 565050005378 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 565050005379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565050005380 FtsX-like permease family; Region: FtsX; pfam02687 565050005381 prolyl-tRNA synthetase; Provisional; Region: PRK12325 565050005382 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 565050005383 dimer interface [polypeptide binding]; other site 565050005384 motif 1; other site 565050005385 active site 565050005386 motif 2; other site 565050005387 motif 3; other site 565050005388 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 565050005389 anticodon binding site; other site 565050005390 Predicted secreted protein [Function unknown]; Region: COG5454 565050005391 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 565050005392 dimer interface [polypeptide binding]; other site 565050005393 substrate binding site [chemical binding]; other site 565050005394 metal binding site [ion binding]; metal-binding site 565050005395 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 565050005396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565050005397 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 565050005398 pantothenate kinase; Reviewed; Region: PRK13318 565050005399 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 565050005400 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 565050005401 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 565050005402 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 565050005403 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 565050005404 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 565050005405 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 565050005406 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 565050005407 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 565050005408 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 565050005409 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 565050005410 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 565050005411 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 565050005412 NADH dehydrogenase subunit G; Validated; Region: PRK09130 565050005413 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 565050005414 catalytic loop [active] 565050005415 iron binding site [ion binding]; other site 565050005416 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 565050005417 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 565050005418 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 565050005419 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 565050005420 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 565050005421 SLBB domain; Region: SLBB; pfam10531 565050005422 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 565050005423 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 565050005424 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 565050005425 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 565050005426 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 565050005427 putative dimer interface [polypeptide binding]; other site 565050005428 [2Fe-2S] cluster binding site [ion binding]; other site 565050005429 Uncharacterized conserved protein [Function unknown]; Region: COG4538 565050005430 NADH dehydrogenase subunit D; Validated; Region: PRK06075 565050005431 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 565050005432 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 565050005433 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 565050005434 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 565050005435 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 565050005436 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 565050005437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050005438 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 565050005439 histone-like DNA-binding protein HU; Region: HU; cd13831 565050005440 dimer interface [polypeptide binding]; other site 565050005441 DNA binding site [nucleotide binding] 565050005442 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 565050005443 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 565050005444 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 565050005445 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 565050005446 Walker A motif; other site 565050005447 ATP binding site [chemical binding]; other site 565050005448 Walker B motif; other site 565050005449 arginine finger; other site 565050005450 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 565050005451 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 565050005452 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 565050005453 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 565050005454 Walker A motif; other site 565050005455 ATP binding site [chemical binding]; other site 565050005456 Walker B motif; other site 565050005457 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 565050005458 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 565050005459 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 565050005460 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 565050005461 oligomer interface [polypeptide binding]; other site 565050005462 active site residues [active] 565050005463 trigger factor; Provisional; Region: tig; PRK01490 565050005464 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 565050005465 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 565050005466 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 565050005467 Uncharacterized conserved protein [Function unknown]; Region: COG0062 565050005468 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 565050005469 putative substrate binding site [chemical binding]; other site 565050005470 putative ATP binding site [chemical binding]; other site 565050005471 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 565050005472 catalytic core [active] 565050005473 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 565050005474 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 565050005475 active site 565050005476 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 565050005477 glutamine synthetase; Provisional; Region: glnA; PRK09469 565050005478 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 565050005479 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 565050005480 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 565050005481 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 565050005482 active site 565050005483 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 565050005484 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050005485 ATP binding site [chemical binding]; other site 565050005486 Mg2+ binding site [ion binding]; other site 565050005487 G-X-G motif; other site 565050005488 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 565050005489 anchoring element; other site 565050005490 dimer interface [polypeptide binding]; other site 565050005491 ATP binding site [chemical binding]; other site 565050005492 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 565050005493 active site 565050005494 metal binding site [ion binding]; metal-binding site 565050005495 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 565050005496 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 565050005497 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 565050005498 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 565050005499 Uncharacterized conserved protein [Function unknown]; Region: COG1742 565050005500 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 565050005501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 565050005502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 565050005503 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 565050005504 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 565050005505 active site 565050005506 camphor resistance protein CrcB; Provisional; Region: PRK14195 565050005507 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 565050005508 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 565050005509 Walker A/P-loop; other site 565050005510 ATP binding site [chemical binding]; other site 565050005511 Q-loop/lid; other site 565050005512 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 565050005513 ABC transporter signature motif; other site 565050005514 Walker B; other site 565050005515 D-loop; other site 565050005516 H-loop/switch region; other site 565050005517 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 565050005518 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 565050005519 binding surface 565050005520 TPR motif; other site 565050005521 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 565050005522 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 565050005523 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050005524 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050005525 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050005526 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 565050005527 Predicted membrane protein [Function unknown]; Region: COG3748 565050005528 Protein of unknown function (DUF989); Region: DUF989; pfam06181 565050005529 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 565050005530 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 565050005531 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 565050005532 Protein export membrane protein; Region: SecD_SecF; pfam02355 565050005533 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 565050005534 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 565050005535 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 565050005536 Preprotein translocase subunit; Region: YajC; pfam02699 565050005537 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 565050005538 Walker A motif; other site 565050005539 ATP binding site [chemical binding]; other site 565050005540 Walker B motif; other site 565050005541 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050005542 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 565050005543 non-specific DNA binding site [nucleotide binding]; other site 565050005544 salt bridge; other site 565050005545 sequence-specific DNA binding site [nucleotide binding]; other site 565050005546 Cupin domain; Region: Cupin_2; pfam07883 565050005547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050005548 Coenzyme A binding pocket [chemical binding]; other site 565050005549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565050005550 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565050005551 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565050005552 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565050005553 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565050005554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565050005555 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050005556 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 565050005557 S-adenosylmethionine binding site [chemical binding]; other site 565050005558 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 565050005559 seryl-tRNA synthetase; Provisional; Region: PRK05431 565050005560 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 565050005561 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 565050005562 dimer interface [polypeptide binding]; other site 565050005563 active site 565050005564 motif 1; other site 565050005565 motif 2; other site 565050005566 motif 3; other site 565050005567 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 565050005568 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 565050005569 sec-independent translocase; Provisional; Region: PRK00708 565050005570 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 565050005571 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 565050005572 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 565050005573 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565050005574 Sporulation related domain; Region: SPOR; pfam05036 565050005575 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 565050005576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565050005577 Zn2+ binding site [ion binding]; other site 565050005578 Mg2+ binding site [ion binding]; other site 565050005579 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 565050005580 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 565050005581 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 565050005582 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 565050005583 putative catalytic site [active] 565050005584 putative phosphate binding site [ion binding]; other site 565050005585 active site 565050005586 metal binding site A [ion binding]; metal-binding site 565050005587 DNA binding site [nucleotide binding] 565050005588 putative AP binding site [nucleotide binding]; other site 565050005589 putative metal binding site B [ion binding]; other site 565050005590 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 565050005591 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 565050005592 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 565050005593 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 565050005594 Prostaglandin dehydrogenases; Region: PGDH; cd05288 565050005595 NAD(P) binding site [chemical binding]; other site 565050005596 substrate binding site [chemical binding]; other site 565050005597 dimer interface [polypeptide binding]; other site 565050005598 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 565050005599 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 565050005600 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 565050005601 Ligand binding site; other site 565050005602 DXD motif; other site 565050005603 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 565050005604 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 565050005605 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 565050005606 cation binding site [ion binding]; other site 565050005607 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 565050005608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3828 565050005609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3644 565050005610 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 565050005611 GIY-YIG motif/motif A; other site 565050005612 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 565050005613 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 565050005614 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 565050005615 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 565050005616 active site triad [active] 565050005617 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 565050005618 ThiC-associated domain; Region: ThiC-associated; pfam13667 565050005619 ThiC family; Region: ThiC; pfam01964 565050005620 TPR repeat; Region: TPR_11; pfam13414 565050005621 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 565050005622 binding surface 565050005623 TPR motif; other site 565050005624 TPR repeat; Region: TPR_11; pfam13414 565050005625 D-cysteine desulfhydrase; Validated; Region: PRK03910 565050005626 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050005627 catalytic residue [active] 565050005628 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 565050005629 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 565050005630 Pectic acid lyase; Region: Pec_lyase; pfam09492 565050005631 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 565050005632 hydrophobic ligand binding site; other site 565050005633 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 565050005634 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 565050005635 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 565050005636 transcription termination factor Rho; Provisional; Region: PRK12678 565050005637 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 565050005638 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 565050005639 ATP binding site [chemical binding]; other site 565050005640 putative Mg++ binding site [ion binding]; other site 565050005641 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 565050005642 nucleotide binding region [chemical binding]; other site 565050005643 ATP-binding site [chemical binding]; other site 565050005644 DEAD/H associated; Region: DEAD_assoc; pfam08494 565050005645 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 565050005646 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 565050005647 putative active site [active] 565050005648 putative metal binding site [ion binding]; other site 565050005649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050005650 AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar...; Region: AAI_LTSS; cl07890 565050005651 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050005652 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 565050005653 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565050005654 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 565050005655 Sel1-like repeats; Region: SEL1; smart00671 565050005656 Sel1-like repeats; Region: SEL1; smart00671 565050005657 Sel1-like repeats; Region: SEL1; smart00671 565050005658 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 565050005659 Uncharacterized conserved protein [Function unknown]; Region: COG2898 565050005660 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 565050005661 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 565050005662 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050005663 active site 565050005664 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 565050005665 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 565050005666 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 565050005667 active site 565050005668 pyruvate kinase; Provisional; Region: PRK06247 565050005669 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 565050005670 domain interfaces; other site 565050005671 active site 565050005672 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565050005673 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050005674 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050005675 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050005676 DNA binding site [nucleotide binding] 565050005677 domain linker motif; other site 565050005678 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050005679 putative dimerization interface [polypeptide binding]; other site 565050005680 putative ligand binding site [chemical binding]; other site 565050005681 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 565050005682 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565050005683 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565050005684 nucleotide binding site [chemical binding]; other site 565050005685 phosphogluconate dehydratase; Validated; Region: PRK09054 565050005686 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 565050005687 putative active site [active] 565050005688 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 565050005689 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 565050005690 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 565050005691 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 565050005692 Uncharacterized conserved protein [Function unknown]; Region: COG3334 565050005693 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 565050005694 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 565050005695 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 565050005696 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 565050005697 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 565050005698 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 565050005699 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 565050005700 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 565050005701 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 565050005702 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 565050005703 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 565050005704 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 565050005705 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 565050005706 TPP-binding site; other site 565050005707 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 565050005708 PYR/PP interface [polypeptide binding]; other site 565050005709 dimer interface [polypeptide binding]; other site 565050005710 TPP binding site [chemical binding]; other site 565050005711 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 565050005712 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 565050005713 substrate binding pocket [chemical binding]; other site 565050005714 chain length determination region; other site 565050005715 active site lid residues [active] 565050005716 substrate-Mg2+ binding site; other site 565050005717 catalytic residues [active] 565050005718 aspartate-rich region 1; other site 565050005719 aspartate-rich region 2; other site 565050005720 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 565050005721 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; cl11399 565050005722 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 565050005723 putative active site [active] 565050005724 Zn binding site [ion binding]; other site 565050005725 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565050005726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050005727 Coenzyme A binding pocket [chemical binding]; other site 565050005728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 565050005729 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 565050005730 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050005731 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 565050005732 non-specific DNA binding site [nucleotide binding]; other site 565050005733 salt bridge; other site 565050005734 sequence-specific DNA binding site [nucleotide binding]; other site 565050005735 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 565050005736 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 565050005737 Probable Catalytic site; other site 565050005738 metal-binding site 565050005739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050005740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050005741 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 565050005742 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 565050005743 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 565050005744 NAD binding site [chemical binding]; other site 565050005745 Phe binding site; other site 565050005746 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 565050005747 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 565050005748 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 565050005749 putative uracil binding site [chemical binding]; other site 565050005750 putative active site [active] 565050005751 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050005752 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 565050005753 C-terminal domain interface [polypeptide binding]; other site 565050005754 GSH binding site (G-site) [chemical binding]; other site 565050005755 dimer interface [polypeptide binding]; other site 565050005756 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 565050005757 N-terminal domain interface [polypeptide binding]; other site 565050005758 dimer interface [polypeptide binding]; other site 565050005759 substrate binding pocket (H-site) [chemical binding]; other site 565050005760 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050005761 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050005762 CoenzymeA binding site [chemical binding]; other site 565050005763 subunit interaction site [polypeptide binding]; other site 565050005764 PHB binding site; other site 565050005765 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050005766 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 565050005767 putative C-terminal domain interface [polypeptide binding]; other site 565050005768 putative GSH binding site (G-site) [chemical binding]; other site 565050005769 putative dimer interface [polypeptide binding]; other site 565050005770 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 565050005771 putative N-terminal domain interface [polypeptide binding]; other site 565050005772 putative dimer interface [polypeptide binding]; other site 565050005773 putative substrate binding pocket (H-site) [chemical binding]; other site 565050005774 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 565050005775 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 565050005776 Nucleoside recognition; Region: Gate; pfam07670 565050005777 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 565050005778 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565050005779 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565050005780 Walker A/P-loop; other site 565050005781 ATP binding site [chemical binding]; other site 565050005782 Q-loop/lid; other site 565050005783 ABC transporter signature motif; other site 565050005784 Walker B; other site 565050005785 D-loop; other site 565050005786 H-loop/switch region; other site 565050005787 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 565050005788 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 565050005789 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050005790 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 565050005791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050005792 NAD(P) binding site [chemical binding]; other site 565050005793 active site 565050005794 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 565050005795 Domain of unknown function DUF59; Region: DUF59; pfam01883 565050005796 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 565050005797 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 565050005798 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 565050005799 Walker A motif; other site 565050005800 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 565050005801 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 565050005802 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 565050005803 motif II; other site 565050005804 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 565050005805 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 565050005806 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 565050005807 motif II; other site 565050005808 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 565050005809 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 565050005810 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 565050005811 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 565050005812 PYR/PP interface [polypeptide binding]; other site 565050005813 dimer interface [polypeptide binding]; other site 565050005814 TPP binding site [chemical binding]; other site 565050005815 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 565050005816 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 565050005817 TPP-binding site [chemical binding]; other site 565050005818 dimer interface [polypeptide binding]; other site 565050005819 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 565050005820 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 565050005821 putative valine binding site [chemical binding]; other site 565050005822 dimer interface [polypeptide binding]; other site 565050005823 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 565050005824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 565050005825 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050005826 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050005827 CoenzymeA binding site [chemical binding]; other site 565050005828 subunit interaction site [polypeptide binding]; other site 565050005829 PHB binding site; other site 565050005830 Peptidase C13 family; Region: Peptidase_C13; cl02159 565050005831 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050005832 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 565050005833 fumarate hydratase; Reviewed; Region: fumC; PRK00485 565050005834 Class II fumarases; Region: Fumarase_classII; cd01362 565050005835 active site 565050005836 tetramer interface [polypeptide binding]; other site 565050005837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050005838 Coenzyme A binding pocket [chemical binding]; other site 565050005839 hypothetical protein; Provisional; Region: PRK11770 565050005840 Domain of unknown function (DUF307); Region: DUF307; pfam03733 565050005841 Domain of unknown function (DUF307); Region: DUF307; pfam03733 565050005842 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 565050005843 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 565050005844 S-adenosylmethionine binding site [chemical binding]; other site 565050005845 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 565050005846 Cytochrome c; Region: Cytochrom_C; pfam00034 565050005847 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 565050005848 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 565050005849 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 565050005850 Uncharacterized conserved protein [Function unknown]; Region: COG2353 565050005851 ketol-acid reductoisomerase; Provisional; Region: PRK05479 565050005852 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 565050005853 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 565050005854 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 565050005855 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 565050005856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 565050005857 Bacterial SH3 domain; Region: SH3_3; pfam08239 565050005858 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 565050005859 dimerization interface [polypeptide binding]; other site 565050005860 active site 565050005861 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 565050005862 folate binding site [chemical binding]; other site 565050005863 NADP+ binding site [chemical binding]; other site 565050005864 IBR domain; Region: IBR; pfam01485 565050005865 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 565050005866 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 565050005867 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 565050005868 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 565050005869 putative active site [active] 565050005870 putative FMN binding site [chemical binding]; other site 565050005871 putative substrate binding site [chemical binding]; other site 565050005872 putative catalytic residue [active] 565050005873 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 565050005874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050005875 active site 565050005876 Uncharacterized conserved protein [Function unknown]; Region: COG1359 565050005877 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 565050005878 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 565050005879 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 565050005880 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 565050005881 substrate binding pocket [chemical binding]; other site 565050005882 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 565050005883 B12 binding site [chemical binding]; other site 565050005884 cobalt ligand [ion binding]; other site 565050005885 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 565050005886 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 565050005887 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565050005888 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 565050005889 FAD binding site [chemical binding]; other site 565050005890 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 565050005891 putative Zn2+ binding site [ion binding]; other site 565050005892 putative DNA binding site [nucleotide binding]; other site 565050005893 dimerization interface [polypeptide binding]; other site 565050005894 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 565050005895 S-adenosylmethionine binding site [chemical binding]; other site 565050005896 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 565050005897 active site 565050005898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050005899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050005900 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 565050005901 substrate binding pocket [chemical binding]; other site 565050005902 dimerization interface [polypeptide binding]; other site 565050005903 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 565050005904 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 565050005905 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 565050005906 putative ligand binding site [chemical binding]; other site 565050005907 NAD binding site [chemical binding]; other site 565050005908 catalytic site [active] 565050005909 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 565050005910 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050005911 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050005912 Walker A/P-loop; other site 565050005913 ATP binding site [chemical binding]; other site 565050005914 Q-loop/lid; other site 565050005915 ABC transporter signature motif; other site 565050005916 Walker B; other site 565050005917 ABC transporter; Region: ABC_tran_2; pfam12848 565050005918 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050005919 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050005920 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 565050005921 N-terminal plug; other site 565050005922 ligand-binding site [chemical binding]; other site 565050005923 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 565050005924 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 565050005925 Catalytic site [active] 565050005926 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 565050005927 EF hand; Region: EF-hand_5; pfam13202 565050005928 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 565050005929 active site 565050005930 catalytic triad [active] 565050005931 oxyanion hole [active] 565050005932 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 565050005933 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 565050005934 NodB motif; other site 565050005935 putative active site [active] 565050005936 putative catalytic site [active] 565050005937 putative Zn binding site [ion binding]; other site 565050005938 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 565050005939 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050005940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 565050005941 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 565050005942 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 565050005943 putative active site [active] 565050005944 catalytic site [active] 565050005945 putative metal binding site [ion binding]; other site 565050005946 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 565050005947 homotrimer interaction site [polypeptide binding]; other site 565050005948 putative active site [active] 565050005949 Phasin protein; Region: Phasin_2; cl11491 565050005950 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 565050005951 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 565050005952 Sporulation related domain; Region: SPOR; pfam05036 565050005953 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 565050005954 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 565050005955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050005956 homodimer interface [polypeptide binding]; other site 565050005957 catalytic residue [active] 565050005958 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 565050005959 HSP70 interaction site [polypeptide binding]; other site 565050005960 ATPase MipZ; Region: MipZ; pfam09140 565050005961 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 565050005962 P-loop; other site 565050005963 Magnesium ion binding site [ion binding]; other site 565050005964 Pantoate-beta-alanine ligase; Region: PanC; cd00560 565050005965 active site 565050005966 ATP-binding site [chemical binding]; other site 565050005967 pantoate-binding site; other site 565050005968 HXXH motif; other site 565050005969 Uncharacterized conserved protein [Function unknown]; Region: COG5458 565050005970 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 565050005971 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050005972 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050005973 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 565050005974 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 565050005975 carboxyltransferase (CT) interaction site; other site 565050005976 biotinylation site [posttranslational modification]; other site 565050005977 enoyl-CoA hydratase; Provisional; Region: PRK05995 565050005978 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050005979 substrate binding site [chemical binding]; other site 565050005980 oxyanion hole (OAH) forming residues; other site 565050005981 trimer interface [polypeptide binding]; other site 565050005982 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 565050005983 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 565050005984 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl18948 565050005985 substrate binding site [chemical binding]; other site 565050005986 oxyanion hole (OAH) forming residues; other site 565050005987 trimer interface [polypeptide binding]; other site 565050005988 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 565050005989 isovaleryl-CoA dehydrogenase; Region: PLN02519 565050005990 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 565050005991 substrate binding site [chemical binding]; other site 565050005992 FAD binding site [chemical binding]; other site 565050005993 catalytic base [active] 565050005994 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 565050005995 catalytic residues [active] 565050005996 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 565050005997 MgtE intracellular N domain; Region: MgtE_N; smart00924 565050005998 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 565050005999 Divalent cation transporter; Region: MgtE; cl00786 565050006000 hypothetical protein; Validated; Region: PRK06033 565050006001 Predicted membrane protein [Function unknown]; Region: COG3152 565050006002 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 565050006003 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050006004 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050006005 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 565050006006 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 565050006007 carboxyltransferase (CT) interaction site; other site 565050006008 biotinylation site [posttranslational modification]; other site 565050006009 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565050006010 intermolecular salt bridges; other site 565050006011 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 565050006012 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 565050006013 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 565050006014 conserved cys residue [active] 565050006015 methionine sulfoxide reductase B; Provisional; Region: PRK00222 565050006016 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050006017 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 565050006018 Glutathione S-transferase, C-terminal domain; Region: GST_C_2; pfam13410 565050006019 N-terminal domain interface [polypeptide binding]; other site 565050006020 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 565050006021 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050006022 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565050006023 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 565050006024 putative active site pocket [active] 565050006025 cleavage site 565050006026 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050006027 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 565050006028 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 565050006029 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 565050006030 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 565050006031 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 565050006032 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 565050006033 N-terminal plug; other site 565050006034 ligand-binding site [chemical binding]; other site 565050006035 Predicted membrane protein [Function unknown]; Region: COG1238 565050006036 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 565050006037 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 565050006038 diiron binding motif [ion binding]; other site 565050006039 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 565050006040 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 565050006041 Zn binding site [ion binding]; other site 565050006042 Predicted integral membrane protein [Function unknown]; Region: COG5652 565050006043 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 565050006044 active site 565050006045 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 565050006046 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565050006047 minor groove reading motif; other site 565050006048 helix-hairpin-helix signature motif; other site 565050006049 substrate binding pocket [chemical binding]; other site 565050006050 active site 565050006051 transcription elongation factor regulatory protein; Validated; Region: PRK06342 565050006052 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 565050006053 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 565050006054 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 565050006055 active site 565050006056 nucleotide binding site [chemical binding]; other site 565050006057 HIGH motif; other site 565050006058 KMSKS motif; other site 565050006059 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 565050006060 dimerization interface [polypeptide binding]; other site 565050006061 putative DNA binding site [nucleotide binding]; other site 565050006062 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050006063 putative Zn2+ binding site [ion binding]; other site 565050006064 Acyltransferase family; Region: Acyl_transf_3; pfam01757 565050006065 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 565050006066 catalytic residues [active] 565050006067 argininosuccinate lyase; Provisional; Region: PRK00855 565050006068 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 565050006069 active sites [active] 565050006070 tetramer interface [polypeptide binding]; other site 565050006071 diaminopimelate decarboxylase; Region: lysA; TIGR01048 565050006072 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 565050006073 active site 565050006074 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565050006075 substrate binding site [chemical binding]; other site 565050006076 catalytic residues [active] 565050006077 dimer interface [polypeptide binding]; other site 565050006078 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 565050006079 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 565050006080 putative active site [active] 565050006081 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 565050006082 putative acyl-acceptor binding pocket; other site 565050006083 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 565050006084 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 565050006085 putative active site pocket [active] 565050006086 dimerization interface [polypeptide binding]; other site 565050006087 putative catalytic residue [active] 565050006088 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 565050006089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 565050006090 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 565050006091 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 565050006092 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 565050006093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050006094 homodimer interface [polypeptide binding]; other site 565050006095 catalytic residue [active] 565050006096 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 565050006097 prephenate dehydrogenase; Validated; Region: PRK08507 565050006098 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 565050006099 EF-hand domain pair; Region: EF-hand_7; pfam13499 565050006100 Ca2+ binding site [ion binding]; other site 565050006101 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 565050006102 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 565050006103 YCII-related domain; Region: YCII; cl00999 565050006104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 565050006105 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050006106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050006107 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 565050006108 non-specific DNA binding site [nucleotide binding]; other site 565050006109 salt bridge; other site 565050006110 sequence-specific DNA binding site [nucleotide binding]; other site 565050006111 putative diguanylate cyclase; Provisional; Region: PRK09776 565050006112 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 565050006113 homodimer interface [polypeptide binding]; other site 565050006114 substrate-cofactor binding pocket; other site 565050006115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050006116 catalytic residue [active] 565050006117 Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]; Region: ApaG; COG2967 565050006118 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 565050006119 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 565050006120 dimerization interface [polypeptide binding]; other site 565050006121 domain crossover interface; other site 565050006122 redox-dependent activation switch; other site 565050006123 ornithine carbamoyltransferase; Provisional; Region: PRK00779 565050006124 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 565050006125 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 565050006126 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 565050006127 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 565050006128 inhibitor-cofactor binding pocket; inhibition site 565050006129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050006130 catalytic residue [active] 565050006131 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 565050006132 ABC-2 type transporter; Region: ABC2_membrane; cl17235 565050006133 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 565050006134 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 565050006135 generic binding surface II; other site 565050006136 generic binding surface I; other site 565050006137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 565050006138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006139 active site 565050006140 phosphorylation site [posttranslational modification] 565050006141 intermolecular recognition site; other site 565050006142 dimerization interface [polypeptide binding]; other site 565050006143 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 565050006144 putative acyl-acceptor binding pocket; other site 565050006145 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050006146 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 565050006147 sequence-specific DNA binding site [nucleotide binding]; other site 565050006148 salt bridge; other site 565050006149 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 565050006150 active site 565050006151 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 565050006152 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050006153 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 565050006154 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 565050006155 Predicted methyltransferase [General function prediction only]; Region: COG4798 565050006156 Predicted methyltransferase [General function prediction only]; Region: COG4798 565050006157 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 565050006158 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 565050006159 putative dimer interface [polypeptide binding]; other site 565050006160 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 565050006161 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006162 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 565050006163 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006164 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006165 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006166 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006167 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 565050006168 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006169 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006170 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006171 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006172 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050006173 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006174 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 565050006175 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 565050006176 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 565050006177 catalytic core [active] 565050006178 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 565050006179 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 565050006180 putative active site [active] 565050006181 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 565050006182 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 565050006183 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 565050006184 active site 565050006185 substrate binding site [chemical binding]; other site 565050006186 metal binding site [ion binding]; metal-binding site 565050006187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 565050006188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050006189 Coenzyme A binding pocket [chemical binding]; other site 565050006190 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 565050006191 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 565050006192 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565050006193 active site 565050006194 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 565050006195 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 565050006196 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 565050006197 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 565050006198 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 565050006199 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 565050006200 catalytic loop [active] 565050006201 iron binding site [ion binding]; other site 565050006202 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 565050006203 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 565050006204 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565050006205 minor groove reading motif; other site 565050006206 helix-hairpin-helix signature motif; other site 565050006207 substrate binding pocket [chemical binding]; other site 565050006208 active site 565050006209 D-alanyl-D-alanine dipeptidase [Cell envelope biogenesis, outer membrane]; Region: DdpX; COG2173 565050006210 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 565050006211 tetrameric interface [polypeptide binding]; other site 565050006212 NAD binding site [chemical binding]; other site 565050006213 catalytic residues [active] 565050006214 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 565050006215 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 565050006216 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 565050006217 active site 565050006218 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 565050006219 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 565050006220 Cache domain; Region: Cache_1; pfam02743 565050006221 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 565050006222 dimerization interface [polypeptide binding]; other site 565050006223 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050006224 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050006225 dimer interface [polypeptide binding]; other site 565050006226 putative CheW interface [polypeptide binding]; other site 565050006227 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 565050006228 Domain interface; other site 565050006229 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 565050006230 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 565050006231 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050006232 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050006233 DNA binding site [nucleotide binding] 565050006234 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 565050006235 putative dimerization interface [polypeptide binding]; other site 565050006236 putative ligand binding site [chemical binding]; other site 565050006237 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 565050006238 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 565050006239 active site 565050006240 catalytic site [active] 565050006241 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 565050006242 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050006243 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 565050006244 N-terminal plug; other site 565050006245 ligand-binding site [chemical binding]; other site 565050006246 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050006247 FAD dependent oxidoreductase; Region: DAO; pfam01266 565050006248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 565050006249 HTH-like domain; Region: HTH_21; pfam13276 565050006250 Integrase core domain; Region: rve; pfam00665 565050006251 Integrase core domain; Region: rve_3; pfam13683 565050006252 Transposase; Region: HTH_Tnp_1; pfam01527 565050006253 Uncharacterized conserved protein [Function unknown]; Region: COG2968 565050006254 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 565050006255 tetramerization interface [polypeptide binding]; other site 565050006256 active site 565050006257 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565050006258 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050006259 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl19094 565050006260 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 565050006261 substrate binding pocket [chemical binding]; other site 565050006262 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050006263 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 565050006264 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 565050006265 acyl-activating enzyme (AAE) consensus motif; other site 565050006266 putative AMP binding site [chemical binding]; other site 565050006267 putative active site [active] 565050006268 putative CoA binding site [chemical binding]; other site 565050006269 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 565050006270 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 565050006271 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 565050006272 glutathione-disulfide reductase, plant; Region: gluta_reduc_2; TIGR01424 565050006273 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050006274 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050006275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565050006276 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 565050006277 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 565050006278 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565050006279 active site 565050006280 dimer interface [polypeptide binding]; other site 565050006281 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 565050006282 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 565050006283 Substrate binding site; other site 565050006284 Mg++ binding site; other site 565050006285 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 565050006286 active site 565050006287 substrate binding site [chemical binding]; other site 565050006288 CoA binding site [chemical binding]; other site 565050006289 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 565050006290 phosphoglycolate phosphatase; Provisional; Region: PRK13222 565050006291 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 565050006292 motif II; other site 565050006293 short chain dehydrogenase; Validated; Region: PRK08264 565050006294 classical (c) SDR, subgroup 7; Region: SDR_c7; cd05354 565050006295 putative NAD(P) binding site [chemical binding]; other site 565050006296 active site 565050006297 SnoaL-like domain; Region: SnoaL_2; pfam12680 565050006298 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 565050006299 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 565050006300 putative C-terminal domain interface [polypeptide binding]; other site 565050006301 putative GSH binding site (G-site) [chemical binding]; other site 565050006302 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050006303 putative dimer interface [polypeptide binding]; other site 565050006304 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 565050006305 dimer interface [polypeptide binding]; other site 565050006306 N-terminal domain interface [polypeptide binding]; other site 565050006307 putative substrate binding pocket (H-site) [chemical binding]; other site 565050006308 Predicted transcriptional regulator [Transcription]; Region: COG2378 565050006309 HTH domain; Region: HTH_11; pfam08279 565050006310 WYL domain; Region: WYL; pfam13280 565050006311 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 565050006312 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050006313 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565050006314 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 565050006315 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 565050006316 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 565050006317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050006318 putative substrate translocation pore; other site 565050006319 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050006320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050006321 DNA binding site [nucleotide binding] 565050006322 domain linker motif; other site 565050006323 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050006324 putative dimerization interface [polypeptide binding]; other site 565050006325 putative ligand binding site [chemical binding]; other site 565050006326 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 565050006327 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 565050006328 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 565050006329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050006330 Walker A/P-loop; other site 565050006331 ATP binding site [chemical binding]; other site 565050006332 Q-loop/lid; other site 565050006333 ABC transporter signature motif; other site 565050006334 Walker B; other site 565050006335 D-loop; other site 565050006336 H-loop/switch region; other site 565050006337 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 565050006338 mce related protein; Region: MCE; pfam02470 565050006339 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 565050006340 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 565050006341 nudix motif; other site 565050006342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 565050006343 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 565050006344 dimer interface [polypeptide binding]; other site 565050006345 phosphorylation site [posttranslational modification] 565050006346 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050006347 ATP binding site [chemical binding]; other site 565050006348 Mg2+ binding site [ion binding]; other site 565050006349 G-X-G motif; other site 565050006350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006351 active site 565050006352 phosphorylation site [posttranslational modification] 565050006353 intermolecular recognition site; other site 565050006354 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 565050006355 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 565050006356 N-acetyl-D-glucosamine binding site [chemical binding]; other site 565050006357 catalytic residue [active] 565050006358 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 565050006359 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050006360 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 565050006361 active site 565050006362 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 565050006363 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 565050006364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050006365 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050006366 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 565050006367 non-specific DNA binding site [nucleotide binding]; other site 565050006368 salt bridge; other site 565050006369 sequence-specific DNA binding site [nucleotide binding]; other site 565050006370 histone-like DNA-binding protein HU; Region: HU; cd13831 565050006371 dimer interface [polypeptide binding]; other site 565050006372 DNA binding site [nucleotide binding] 565050006373 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 565050006374 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 565050006375 FeS/SAM binding site; other site 565050006376 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 565050006377 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 565050006378 Fe-S cluster binding site [ion binding]; other site 565050006379 active site 565050006380 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 565050006381 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 565050006382 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 565050006383 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 565050006384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050006385 NAD(P) binding site [chemical binding]; other site 565050006386 active site 565050006387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050006388 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050006389 WHG domain; Region: WHG; pfam13305 565050006390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 565050006391 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 565050006392 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 565050006393 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 565050006394 active site 565050006395 dimer interface [polypeptide binding]; other site 565050006396 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 565050006397 rRNA binding site [nucleotide binding]; other site 565050006398 predicted 30S ribosome binding site; other site 565050006399 Low molecular weight phosphatase family; Region: LMWPc; cd00115 565050006400 active site 565050006401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5328 565050006402 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 565050006403 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 565050006404 NAD binding site [chemical binding]; other site 565050006405 dimerization interface [polypeptide binding]; other site 565050006406 product binding site; other site 565050006407 substrate binding site [chemical binding]; other site 565050006408 zinc binding site [ion binding]; other site 565050006409 catalytic residues [active] 565050006410 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 565050006411 Na binding site [ion binding]; other site 565050006412 putative substrate binding site [chemical binding]; other site 565050006413 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 565050006414 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 565050006415 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 565050006416 hinge; other site 565050006417 active site 565050006418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050006419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050006420 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 565050006421 dimerization interface [polypeptide binding]; other site 565050006422 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 565050006423 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 565050006424 putative NAD(P) binding site [chemical binding]; other site 565050006425 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 565050006426 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 565050006427 putative substrate translocation pore; other site 565050006428 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050006429 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050006430 DNA binding site [nucleotide binding] 565050006431 domain linker motif; other site 565050006432 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565050006433 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 565050006434 DNA binding residues [nucleotide binding] 565050006435 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565050006436 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 565050006437 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 565050006438 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 565050006439 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 565050006440 PspA/IM30 family; Region: PspA_IM30; pfam04012 565050006441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 565050006442 Predicted membrane protein [Function unknown]; Region: COG3766 565050006443 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 565050006444 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 565050006445 Predicted integral membrane protein [Function unknown]; Region: COG5463 565050006446 Low molecular weight phosphatase family; Region: LMWPc; cd00115 565050006447 active site 565050006448 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 565050006449 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 565050006450 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 565050006451 FMN binding site [chemical binding]; other site 565050006452 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 565050006453 heterodimer interface [polypeptide binding]; other site 565050006454 substrate interaction site [chemical binding]; other site 565050006455 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 565050006456 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 565050006457 active site 565050006458 substrate binding site [chemical binding]; other site 565050006459 coenzyme B12 binding site [chemical binding]; other site 565050006460 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 565050006461 B12 binding site [chemical binding]; other site 565050006462 cobalt ligand [ion binding]; other site 565050006463 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 565050006464 Uncharacterized conserved protein [Function unknown]; Region: COG0393 565050006465 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 565050006466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050006467 NAD(P) binding site [chemical binding]; other site 565050006468 active site 565050006469 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 565050006470 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 565050006471 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 565050006472 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 565050006473 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 565050006474 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 565050006475 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 565050006476 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 565050006477 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 565050006478 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 565050006479 NAD binding site [chemical binding]; other site 565050006480 homodimer interface [polypeptide binding]; other site 565050006481 active site 565050006482 substrate binding site [chemical binding]; other site 565050006483 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 565050006484 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 565050006485 HipA-like C-terminal domain; Region: HipA_C; pfam07804 565050006486 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 565050006487 Outer membrane efflux protein; Region: OEP; pfam02321 565050006488 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 565050006489 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 565050006490 lipoyl-biotinyl attachment site [posttranslational modification]; other site 565050006491 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050006492 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 565050006493 MMPL family; Region: MMPL; cl14618 565050006494 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050006495 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 565050006496 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050006497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050006498 DNA-binding site [nucleotide binding]; DNA binding site 565050006499 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 565050006500 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 565050006501 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 565050006502 iron-sulfur cluster [ion binding]; other site 565050006503 [2Fe-2S] cluster binding site [ion binding]; other site 565050006504 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 565050006505 alpha subunit interface [polypeptide binding]; other site 565050006506 active site 565050006507 substrate binding site [chemical binding]; other site 565050006508 Fe binding site [ion binding]; other site 565050006509 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 565050006510 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 565050006511 FMN-binding pocket [chemical binding]; other site 565050006512 flavin binding motif; other site 565050006513 phosphate binding motif [ion binding]; other site 565050006514 beta-alpha-beta structure motif; other site 565050006515 NAD binding pocket [chemical binding]; other site 565050006516 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 565050006517 catalytic loop [active] 565050006518 iron binding site [ion binding]; other site 565050006519 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050006520 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050006521 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 565050006522 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 565050006523 catalytic Zn binding site [ion binding]; other site 565050006524 NAD binding site [chemical binding]; other site 565050006525 structural Zn binding site [ion binding]; other site 565050006526 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 565050006527 NAD(P) binding site [chemical binding]; other site 565050006528 catalytic residues [active] 565050006529 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050006530 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 565050006531 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 565050006532 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 565050006533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050006534 acyl-CoA synthetase; Validated; Region: PRK09088 565050006535 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 565050006536 acyl-activating enzyme (AAE) consensus motif; other site 565050006537 putative AMP binding site [chemical binding]; other site 565050006538 putative active site [active] 565050006539 putative CoA binding site [chemical binding]; other site 565050006540 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 565050006541 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050006542 substrate binding site [chemical binding]; other site 565050006543 oxyanion hole (OAH) forming residues; other site 565050006544 trimer interface [polypeptide binding]; other site 565050006545 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 565050006546 NAD(P) binding site [chemical binding]; other site 565050006547 catalytic residues [active] 565050006548 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 565050006549 Cupin domain; Region: Cupin_2; cl17218 565050006550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050006551 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 565050006552 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 565050006553 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 565050006554 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 565050006555 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 565050006556 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050006557 dimer interface [polypeptide binding]; other site 565050006558 active site 565050006559 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 565050006560 heterodimer interface [polypeptide binding]; other site 565050006561 multimer interface [polypeptide binding]; other site 565050006562 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 565050006563 active site 565050006564 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 565050006565 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 565050006566 heterodimer interface [polypeptide binding]; other site 565050006567 active site 565050006568 3-carboxy-cis,cis-muconate cycloisomerase; Region: protocat_pcaB; TIGR02426 565050006569 Lyase; Region: Lyase_1; pfam00206 565050006570 tetramer interface [polypeptide binding]; other site 565050006571 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 565050006572 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050006573 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 565050006574 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 565050006575 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 565050006576 putative substrate translocation pore; other site 565050006577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 565050006578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 565050006579 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 565050006580 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 565050006581 N-acetyl-D-glucosamine binding site [chemical binding]; other site 565050006582 catalytic residue [active] 565050006583 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 565050006584 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 565050006585 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 565050006586 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 565050006587 Fringe-like; Region: Fringe; cl19476 565050006588 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 565050006589 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 565050006590 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 565050006591 VirB7 interaction site; other site 565050006592 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 565050006593 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 565050006594 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 565050006595 Walker A motif; other site 565050006596 ATP binding site [chemical binding]; other site 565050006597 Walker B motif; other site 565050006598 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 565050006599 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 565050006600 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 565050006601 Polysaccharide biosynthesis C-terminal domain; Region: Polysacc_synt_C; pfam14667 565050006602 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 565050006603 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 565050006604 active site 565050006605 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 565050006606 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 565050006607 putative active site [active] 565050006608 putative metal binding site [ion binding]; other site 565050006609 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 565050006610 O-Antigen ligase; Region: Wzy_C; pfam04932 565050006611 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 565050006612 Chain length determinant protein; Region: Wzz; pfam02706 565050006613 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 565050006614 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 565050006615 SLBB domain; Region: SLBB; pfam10531 565050006616 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 565050006617 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 565050006618 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 565050006619 C-terminal domain interface [polypeptide binding]; other site 565050006620 GSH binding site (G-site) [chemical binding]; other site 565050006621 dimer interface [polypeptide binding]; other site 565050006622 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 565050006623 N-terminal domain interface [polypeptide binding]; other site 565050006624 putative dimer interface [polypeptide binding]; other site 565050006625 active site 565050006626 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 565050006627 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 565050006628 GatB domain; Region: GatB_Yqey; smart00845 565050006629 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 565050006630 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 565050006631 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 565050006632 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 565050006633 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 565050006634 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 565050006635 dihydroorotase; Validated; Region: PRK09059 565050006636 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 565050006637 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 565050006638 active site 565050006639 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 565050006640 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 565050006641 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 565050006642 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 565050006643 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 565050006644 S-adenosylmethionine binding site [chemical binding]; other site 565050006645 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 565050006646 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 565050006647 active site 565050006648 interdomain interaction site; other site 565050006649 putative metal-binding site [ion binding]; other site 565050006650 nucleotide binding site [chemical binding]; other site 565050006651 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 565050006652 domain I; other site 565050006653 DNA binding groove [nucleotide binding] 565050006654 phosphate binding site [ion binding]; other site 565050006655 domain II; other site 565050006656 domain III; other site 565050006657 nucleotide binding site [chemical binding]; other site 565050006658 catalytic site [active] 565050006659 domain IV; other site 565050006660 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 565050006661 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 565050006662 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 565050006663 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 565050006664 ribonuclease R; Region: RNase_R; TIGR02063 565050006665 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 565050006666 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 565050006667 RNA binding site [nucleotide binding]; other site 565050006668 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 565050006669 active site 565050006670 catalytic triad [active] 565050006671 oxyanion hole [active] 565050006672 aspartate aminotransferase; Provisional; Region: PRK05764 565050006673 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 565050006674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050006675 homodimer interface [polypeptide binding]; other site 565050006676 catalytic residue [active] 565050006677 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 565050006678 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 565050006679 metal binding site [ion binding]; metal-binding site 565050006680 putative dimer interface [polypeptide binding]; other site 565050006681 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 565050006682 response regulator PleD; Reviewed; Region: pleD; PRK09581 565050006683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006684 active site 565050006685 phosphorylation site [posttranslational modification] 565050006686 intermolecular recognition site; other site 565050006687 dimerization interface [polypeptide binding]; other site 565050006688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl19078 565050006689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050006690 metal binding site [ion binding]; metal-binding site 565050006691 active site 565050006692 I-site; other site 565050006693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006694 active site 565050006695 phosphorylation site [posttranslational modification] 565050006696 intermolecular recognition site; other site 565050006697 dimerization interface [polypeptide binding]; other site 565050006698 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565050006699 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565050006700 nucleotide binding site [chemical binding]; other site 565050006701 DNA polymerase IV; Provisional; Region: PRK02794 565050006702 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 565050006703 active site 565050006704 DNA binding site [nucleotide binding] 565050006705 Uncharacterized conserved protein [Function unknown]; Region: COG2127 565050006706 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 565050006707 Clp amino terminal domain; Region: Clp_N; pfam02861 565050006708 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 565050006709 Walker A motif; other site 565050006710 ATP binding site [chemical binding]; other site 565050006711 Walker B motif; other site 565050006712 arginine finger; other site 565050006713 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 565050006714 Walker A motif; other site 565050006715 ATP binding site [chemical binding]; other site 565050006716 Walker B motif; other site 565050006717 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 565050006718 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 565050006719 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 565050006720 HIT family signature motif; other site 565050006721 catalytic residue [active] 565050006722 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 565050006723 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 565050006724 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050006725 active site 2 [active] 565050006726 active site 1 [active] 565050006727 amidase; Provisional; Region: PRK08137 565050006728 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 565050006729 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 565050006730 Sel1-like repeats; Region: SEL1; smart00671 565050006731 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050006732 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050006733 active site 565050006734 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050006735 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 565050006736 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 565050006737 active site 565050006738 aminopeptidase N; Provisional; Region: pepN; PRK14015 565050006739 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 565050006740 active site 565050006741 Zn binding site [ion binding]; other site 565050006742 PAS domain; Region: PAS; smart00091 565050006743 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050006744 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050006745 PAS domain; Region: PAS; smart00091 565050006746 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 565050006747 dimer interface [polypeptide binding]; other site 565050006748 phosphorylation site [posttranslational modification] 565050006749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050006750 ATP binding site [chemical binding]; other site 565050006751 Mg2+ binding site [ion binding]; other site 565050006752 G-X-G motif; other site 565050006753 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 565050006754 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 565050006755 Walker A; other site 565050006756 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 565050006757 G4 box; other site 565050006758 G5 box; other site 565050006759 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 565050006760 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050006761 putative C-terminal domain interface [polypeptide binding]; other site 565050006762 putative GSH binding site (G-site) [chemical binding]; other site 565050006763 putative dimer interface [polypeptide binding]; other site 565050006764 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 565050006765 putative N-terminal domain interface [polypeptide binding]; other site 565050006766 putative dimer interface [polypeptide binding]; other site 565050006767 putative substrate binding pocket (H-site) [chemical binding]; other site 565050006768 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 565050006769 D-galactonate transporter; Region: 2A0114; TIGR00893 565050006770 putative substrate translocation pore; other site 565050006771 adenylosuccinate lyase; Provisional; Region: PRK07492 565050006772 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 565050006773 tetramer interface [polypeptide binding]; other site 565050006774 active site 565050006775 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 565050006776 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 565050006777 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 565050006778 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 565050006779 putative active site [active] 565050006780 Uncharacterized conserved protein [Function unknown]; Region: COG5467 565050006781 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 565050006782 ATP binding site [chemical binding]; other site 565050006783 active site 565050006784 substrate binding site [chemical binding]; other site 565050006785 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 565050006786 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 565050006787 Rubredoxin [Energy production and conversion]; Region: COG1773 565050006788 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 565050006789 iron binding site [ion binding]; other site 565050006790 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 565050006791 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 565050006792 putative active site [active] 565050006793 catalytic triad [active] 565050006794 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 565050006795 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 565050006796 dimerization interface [polypeptide binding]; other site 565050006797 ATP binding site [chemical binding]; other site 565050006798 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 565050006799 dimerization interface [polypeptide binding]; other site 565050006800 ATP binding site [chemical binding]; other site 565050006801 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 565050006802 M28 Zn-Peptidases; Region: M28_like_2; cd05662 565050006803 metal binding site [ion binding]; metal-binding site 565050006804 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 565050006805 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; cl00470 565050006806 active site 565050006807 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 565050006808 putative GSH binding site [chemical binding]; other site 565050006809 catalytic residues [active] 565050006810 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 565050006811 active site 565050006812 heat shock protein HtpX; Provisional; Region: PRK01345 565050006813 Peptidase family M48; Region: Peptidase_M48; cl12018 565050006814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 565050006815 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 565050006816 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 565050006817 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 565050006818 RNA binding surface [nucleotide binding]; other site 565050006819 Predicted esterase [General function prediction only]; Region: COG0627 565050006820 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 565050006821 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 565050006822 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 565050006823 substrate binding site [chemical binding]; other site 565050006824 catalytic Zn binding site [ion binding]; other site 565050006825 NAD binding site [chemical binding]; other site 565050006826 structural Zn binding site [ion binding]; other site 565050006827 dimer interface [polypeptide binding]; other site 565050006828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050006829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050006830 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 565050006831 putative effector binding pocket; other site 565050006832 putative dimerization interface [polypeptide binding]; other site 565050006833 Uncharacterized conserved protein [Function unknown]; Region: COG5361 565050006834 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 565050006835 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 565050006836 Protein required for attachment to host cells; Region: Host_attach; cl02398 565050006837 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 565050006838 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 565050006839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050006840 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 565050006841 dimer interface [polypeptide binding]; other site 565050006842 phosphorylation site [posttranslational modification] 565050006843 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050006844 ATP binding site [chemical binding]; other site 565050006845 Mg2+ binding site [ion binding]; other site 565050006846 G-X-G motif; other site 565050006847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050006848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006849 active site 565050006850 phosphorylation site [posttranslational modification] 565050006851 intermolecular recognition site; other site 565050006852 dimerization interface [polypeptide binding]; other site 565050006853 isocitrate dehydrogenase; Validated; Region: PRK08299 565050006854 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 565050006855 Predicted permeases [General function prediction only]; Region: COG0679 565050006856 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 565050006857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050006858 Helix-turn-helix domain; Region: HTH_18; pfam12833 565050006859 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 565050006860 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 565050006861 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 565050006862 motif 1; other site 565050006863 active site 565050006864 motif 2; other site 565050006865 motif 3; other site 565050006866 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 565050006867 DHHA1 domain; Region: DHHA1; pfam02272 565050006868 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 565050006869 iron-sulfur cluster [ion binding]; other site 565050006870 [2Fe-2S] cluster binding site [ion binding]; other site 565050006871 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 565050006872 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 565050006873 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 565050006874 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 565050006875 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 565050006876 dimer interface [polypeptide binding]; other site 565050006877 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 565050006878 active site 565050006879 Fe binding site [ion binding]; other site 565050006880 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 565050006881 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 565050006882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050006883 homodimer interface [polypeptide binding]; other site 565050006884 catalytic residue [active] 565050006885 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 565050006886 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 565050006887 putative DNA binding site [nucleotide binding]; other site 565050006888 putative Zn2+ binding site [ion binding]; other site 565050006889 AsnC family; Region: AsnC_trans_reg; pfam01037 565050006890 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 565050006891 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 565050006892 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 565050006893 CAAX protease self-immunity; Region: Abi; pfam02517 565050006894 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 565050006895 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 565050006896 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 565050006897 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 565050006898 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 565050006899 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 565050006900 nucleotide binding site [chemical binding]; other site 565050006901 SulA interaction site; other site 565050006902 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 565050006903 Cell division protein FtsA; Region: FtsA; smart00842 565050006904 Cell division protein FtsA; Region: FtsA; pfam14450 565050006905 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 565050006906 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 565050006907 Cell division protein FtsQ; Region: FtsQ; pfam03799 565050006908 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 565050006909 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 565050006910 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050006911 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 565050006912 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 565050006913 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 565050006914 PA/protease or protease-like domain interface [polypeptide binding]; other site 565050006915 metal binding site [ion binding]; metal-binding site 565050006916 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 565050006917 FAD binding domain; Region: FAD_binding_4; pfam01565 565050006918 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 565050006919 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 565050006920 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565050006921 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565050006922 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565050006923 Predicted ATPase [General function prediction only]; Region: COG4637 565050006924 SOUL heme-binding protein; Region: SOUL; pfam04832 565050006925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 565050006926 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 565050006927 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 565050006928 active site 565050006929 homodimer interface [polypeptide binding]; other site 565050006930 cell division protein FtsW; Region: ftsW; TIGR02614 565050006931 PAS fold; Region: PAS_4; pfam08448 565050006932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050006933 HWE histidine kinase; Region: HWE_HK; pfam07536 565050006934 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 565050006935 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 565050006936 Cl- selectivity filter; other site 565050006937 Cl- binding residues [ion binding]; other site 565050006938 pore gating glutamate residue; other site 565050006939 dimer interface [polypeptide binding]; other site 565050006940 FOG: CBS domain [General function prediction only]; Region: COG0517 565050006941 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 565050006942 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 565050006943 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 565050006944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565050006945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565050006946 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 565050006947 Mg++ binding site [ion binding]; other site 565050006948 putative catalytic motif [active] 565050006949 putative substrate binding site [chemical binding]; other site 565050006950 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 565050006951 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565050006952 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565050006953 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565050006954 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 565050006955 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565050006956 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565050006957 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565050006958 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 565050006959 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 565050006960 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 565050006961 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 565050006962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 565050006963 MraZ protein; Region: MraZ; pfam02381 565050006964 MraZ protein; Region: MraZ; pfam02381 565050006965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050006966 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 565050006967 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 565050006968 dimerization interface [polypeptide binding]; other site 565050006969 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050006970 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 565050006971 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 565050006972 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 565050006973 amidase catalytic site [active] 565050006974 Zn binding residues [ion binding]; other site 565050006975 substrate binding site [chemical binding]; other site 565050006976 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 565050006977 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565050006978 EamA-like transporter family; Region: EamA; pfam00892 565050006979 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 565050006980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 565050006981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 565050006982 conserved hypothetical protein; Region: TIGR02246 565050006983 Helix-turn-helix domain; Region: HTH_18; pfam12833 565050006984 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 565050006985 enoyl-CoA hydratase; Provisional; Region: PRK09245 565050006986 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050006987 substrate binding site [chemical binding]; other site 565050006988 oxyanion hole (OAH) forming residues; other site 565050006989 trimer interface [polypeptide binding]; other site 565050006990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050006991 active site 565050006992 phosphorylation site [posttranslational modification] 565050006993 intermolecular recognition site; other site 565050006994 dimerization interface [polypeptide binding]; other site 565050006995 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 565050006996 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 565050006997 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050006998 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050006999 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050007000 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050007001 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050007002 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050007003 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 565050007004 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 565050007005 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 565050007006 Rod binding protein; Region: Rod-binding; cl01626 565050007007 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 565050007008 S-adenosylmethionine binding site [chemical binding]; other site 565050007009 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4949 565050007010 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 565050007011 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050007012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050007013 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 565050007014 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 565050007015 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 565050007016 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 565050007017 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050007018 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050007019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050007020 AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar...; Region: AAI_LTSS; cl07890 565050007021 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050007022 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050007023 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 565050007024 putative C-terminal domain interface [polypeptide binding]; other site 565050007025 putative GSH binding site (G-site) [chemical binding]; other site 565050007026 putative dimer interface [polypeptide binding]; other site 565050007027 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 565050007028 putative N-terminal domain interface [polypeptide binding]; other site 565050007029 putative dimer interface [polypeptide binding]; other site 565050007030 putative substrate binding pocket (H-site) [chemical binding]; other site 565050007031 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 565050007032 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 565050007033 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 565050007034 Glucose inhibited division protein A; Region: GIDA; pfam01134 565050007035 Uncharacterized conserved protein [Function unknown]; Region: COG3496 565050007036 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 565050007037 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 565050007038 S-adenosylmethionine binding site [chemical binding]; other site 565050007039 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 565050007040 allantoate amidohydrolase; Reviewed; Region: PRK09290 565050007041 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 565050007042 active site 565050007043 metal binding site [ion binding]; metal-binding site 565050007044 dimer interface [polypeptide binding]; other site 565050007045 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 565050007046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050007047 catalytic residue [active] 565050007048 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 565050007049 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 565050007050 active site 565050007051 catalytic site [active] 565050007052 tetramer interface [polypeptide binding]; other site 565050007053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 565050007054 Predicted membrane protein [Function unknown]; Region: COG3748 565050007055 Protein of unknown function (DUF989); Region: DUF989; pfam06181 565050007056 Cytochrome c; Region: Cytochrom_C; pfam00034 565050007057 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050007058 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050007059 Uncharacterized conserved protein [Function unknown]; Region: COG2353 565050007060 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 565050007061 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 565050007062 amidase; Provisional; Region: PRK09201 565050007063 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 565050007064 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 565050007065 active site 565050007066 guanine deaminase; Provisional; Region: PRK09228 565050007067 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 565050007068 active site 565050007069 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 565050007070 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 565050007071 XdhC Rossmann domain; Region: XdhC_C; pfam13478 565050007072 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 565050007073 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 565050007074 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 565050007075 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 565050007076 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 565050007077 catalytic loop [active] 565050007078 iron binding site [ion binding]; other site 565050007079 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 565050007080 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 565050007081 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 565050007082 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 565050007083 active site 565050007084 homotetramer interface [polypeptide binding]; other site 565050007085 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 565050007086 Malic enzyme, N-terminal domain; Region: malic; pfam00390 565050007087 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 565050007088 putative NAD(P) binding site [chemical binding]; other site 565050007089 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 565050007090 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 565050007091 DNA-binding site [nucleotide binding]; DNA binding site 565050007092 RNA-binding motif; other site 565050007093 Predicted transcriptional regulator [Transcription]; Region: COG1959 565050007094 Rrf2 family protein; Region: rrf2_super; TIGR00738 565050007095 FOG: CBS domain [General function prediction only]; Region: COG0517 565050007096 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 565050007097 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 565050007098 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 565050007099 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 565050007100 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050007101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565050007102 MASE1; Region: MASE1; pfam05231 565050007103 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 565050007104 dimer interface [polypeptide binding]; other site 565050007105 phosphorylation site [posttranslational modification] 565050007106 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007107 ATP binding site [chemical binding]; other site 565050007108 Mg2+ binding site [ion binding]; other site 565050007109 G-X-G motif; other site 565050007110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007111 active site 565050007112 phosphorylation site [posttranslational modification] 565050007113 intermolecular recognition site; other site 565050007114 dimerization interface [polypeptide binding]; other site 565050007115 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 565050007116 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 565050007117 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 565050007118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050007119 Walker A/P-loop; other site 565050007120 ATP binding site [chemical binding]; other site 565050007121 Q-loop/lid; other site 565050007122 ABC transporter signature motif; other site 565050007123 Walker B; other site 565050007124 D-loop; other site 565050007125 H-loop/switch region; other site 565050007126 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 565050007127 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 565050007128 dimer interface [polypeptide binding]; other site 565050007129 conserved gate region; other site 565050007130 putative PBP binding loops; other site 565050007131 ABC-ATPase subunit interface; other site 565050007132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 565050007133 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050007134 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050007135 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050007136 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050007137 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050007138 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 565050007139 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 565050007140 active site 565050007141 catalytic tetrad [active] 565050007142 choline dehydrogenase; Validated; Region: PRK02106 565050007143 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050007144 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050007145 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 565050007146 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 565050007147 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 565050007148 trimer interface [polypeptide binding]; other site 565050007149 putative metal binding site [ion binding]; other site 565050007150 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 565050007151 PhoH-like protein; Region: PhoH; pfam02562 565050007152 Predicted membrane protein [Function unknown]; Region: COG1297 565050007153 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050007154 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 565050007155 putative C-terminal domain interface [polypeptide binding]; other site 565050007156 putative GSH binding site (G-site) [chemical binding]; other site 565050007157 putative dimer interface [polypeptide binding]; other site 565050007158 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 565050007159 putative N-terminal domain interface [polypeptide binding]; other site 565050007160 putative dimer interface [polypeptide binding]; other site 565050007161 putative substrate binding pocket (H-site) [chemical binding]; other site 565050007162 Predicted acetyltransferase [General function prediction only]; Region: COG3393 565050007163 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050007164 Coenzyme A binding pocket [chemical binding]; other site 565050007165 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 565050007166 Glutamine cyclotransferase; Region: Glu_cyclase_2; pfam05096 565050007167 serine acetyltransferase; Provisional; Region: cysE; PRK11132 565050007168 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 565050007169 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 565050007170 trimer interface [polypeptide binding]; other site 565050007171 active site 565050007172 substrate binding site [chemical binding]; other site 565050007173 CoA binding site [chemical binding]; other site 565050007174 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 565050007175 ADP-ribose binding site [chemical binding]; other site 565050007176 dimer interface [polypeptide binding]; other site 565050007177 active site 565050007178 nudix motif; other site 565050007179 metal binding site [ion binding]; metal-binding site 565050007180 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 565050007181 putative FMN binding site [chemical binding]; other site 565050007182 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 565050007183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050007184 classical (c) SDRs; Region: SDR_c; cd05233 565050007185 NAD(P) binding site [chemical binding]; other site 565050007186 active site 565050007187 Helix-turn-helix domain; Region: HTH_28; pfam13518 565050007188 putative transposase OrfB; Reviewed; Region: PHA02517 565050007189 Homeodomain-like domain; Region: HTH_32; pfam13565 565050007190 Integrase core domain; Region: rve; pfam00665 565050007191 Integrase core domain; Region: rve_3; pfam13683 565050007192 Transposase; Region: HTH_Tnp_1; cl17663 565050007193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 565050007194 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 565050007195 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 565050007196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050007197 putative substrate translocation pore; other site 565050007198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050007199 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 565050007200 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050007201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050007202 DNA-binding site [nucleotide binding]; DNA binding site 565050007203 FCD domain; Region: FCD; pfam07729 565050007204 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050007205 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050007206 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 565050007207 dimer interface [polypeptide binding]; other site 565050007208 conserved gate region; other site 565050007209 ABC-ATPase subunit interface; other site 565050007210 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 565050007211 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 565050007212 Walker A/P-loop; other site 565050007213 ATP binding site [chemical binding]; other site 565050007214 Q-loop/lid; other site 565050007215 ABC transporter signature motif; other site 565050007216 Walker B; other site 565050007217 D-loop; other site 565050007218 H-loop/switch region; other site 565050007219 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 565050007220 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 565050007221 PAS domain S-box; Region: sensory_box; TIGR00229 565050007222 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050007223 putative active site [active] 565050007224 heme pocket [chemical binding]; other site 565050007225 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 565050007226 dimer interface [polypeptide binding]; other site 565050007227 phosphorylation site [posttranslational modification] 565050007228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007229 ATP binding site [chemical binding]; other site 565050007230 Mg2+ binding site [ion binding]; other site 565050007231 G-X-G motif; other site 565050007232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007233 active site 565050007234 phosphorylation site [posttranslational modification] 565050007235 intermolecular recognition site; other site 565050007236 dimerization interface [polypeptide binding]; other site 565050007237 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050007238 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050007239 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050007240 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 565050007241 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 565050007242 active site 565050007243 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 565050007244 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 565050007245 putative MPT binding site; other site 565050007246 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 565050007247 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 565050007248 active site 565050007249 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 565050007250 RadC-like JAB domain; Region: RadC; pfam04002 565050007251 Uncharacterized conserved protein [Function unknown]; Region: COG5489 565050007252 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 565050007253 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 565050007254 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 565050007255 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 565050007256 VirB7 interaction site; other site 565050007257 conjugal transfer protein TrbF; Provisional; Region: PRK13872 565050007258 conjugal transfer protein TrbL; Provisional; Region: PRK13875 565050007259 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 565050007260 Transposase; Region: HTH_Tnp_1; pfam01527 565050007261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 565050007262 HTH-like domain; Region: HTH_21; pfam13276 565050007263 Integrase core domain; Region: rve; pfam00665 565050007264 Integrase core domain; Region: rve_3; pfam13683 565050007265 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050007266 dimer interface [polypeptide binding]; other site 565050007267 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 565050007268 putative CheW interface [polypeptide binding]; other site 565050007269 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 565050007270 cobyric acid synthase; Provisional; Region: PRK00784 565050007271 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 565050007272 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 565050007273 catalytic triad [active] 565050007274 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 565050007275 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 565050007276 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 565050007277 ligand binding site [chemical binding]; other site 565050007278 flexible hinge region; other site 565050007279 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]; Region: COG4271 565050007280 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 565050007281 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 565050007282 nucleotidyl binding site; other site 565050007283 metal binding site [ion binding]; metal-binding site 565050007284 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 565050007285 non-specific DNA binding site [nucleotide binding]; other site 565050007286 salt bridge; other site 565050007287 sequence-specific DNA binding site [nucleotide binding]; other site 565050007288 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 565050007289 non-specific DNA binding site [nucleotide binding]; other site 565050007290 salt bridge; other site 565050007291 sequence-specific DNA binding site [nucleotide binding]; other site 565050007292 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 565050007293 FecR protein; Region: FecR; pfam04773 565050007294 Secretin and TonB N terminus short domain; Region: STN; smart00965 565050007295 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050007296 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 565050007297 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050007298 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050007299 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 565050007300 Ligand Binding Site [chemical binding]; other site 565050007301 Molecular Tunnel; other site 565050007302 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 565050007303 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050007304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050007305 DNA-binding site [nucleotide binding]; DNA binding site 565050007306 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 565050007307 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 565050007308 non-specific DNA binding site [nucleotide binding]; other site 565050007309 salt bridge; other site 565050007310 sequence-specific DNA binding site [nucleotide binding]; other site 565050007311 Uncharacterized conserved protein [Function unknown]; Region: COG5419 565050007312 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 565050007313 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 565050007314 Outer membrane efflux protein; Region: OEP; pfam02321 565050007315 Outer membrane efflux protein; Region: OEP; pfam02321 565050007316 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 565050007317 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050007318 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 565050007319 MMPL family; Region: MMPL; cl14618 565050007320 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 565050007321 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 565050007322 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565050007323 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 565050007324 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 565050007325 Transposase; Region: HTH_Tnp_1; cl17663 565050007326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 565050007327 Helix-turn-helix domain; Region: HTH_28; pfam13518 565050007328 putative transposase OrfB; Reviewed; Region: PHA02517 565050007329 Homeodomain-like domain; Region: HTH_32; pfam13565 565050007330 Integrase core domain; Region: rve; pfam00665 565050007331 Integrase core domain; Region: rve_3; pfam13683 565050007332 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 565050007333 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565050007334 HipA N-terminal domain; Region: couple_hipA; TIGR03071 565050007335 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 565050007336 HipA-like C-terminal domain; Region: HipA_C; pfam07804 565050007337 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050007338 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 565050007339 non-specific DNA binding site [nucleotide binding]; other site 565050007340 salt bridge; other site 565050007341 sequence-specific DNA binding site [nucleotide binding]; other site 565050007342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 565050007343 Integrase core domain; Region: rve; pfam00665 565050007344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 565050007345 Transposase; Region: DEDD_Tnp_IS110; pfam01548 565050007346 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 565050007347 Transposase; Region: HTH_Tnp_1; pfam01527 565050007348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 565050007349 HTH-like domain; Region: HTH_21; pfam13276 565050007350 Integrase core domain; Region: rve; pfam00665 565050007351 Integrase core domain; Region: rve_3; pfam13683 565050007352 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 565050007353 catalytic residues [active] 565050007354 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 565050007355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4322 565050007356 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 565050007357 active site 565050007358 dimer interface [polypeptide binding]; other site 565050007359 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 565050007360 TMAO/DMSO reductase; Reviewed; Region: PRK05363 565050007361 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 565050007362 Moco binding site; other site 565050007363 metal coordination site [ion binding]; other site 565050007364 Predicted integral membrane protein [Function unknown]; Region: COG5612 565050007365 RNA polymerase sigma factor; Reviewed; Region: PRK05602 565050007366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050007367 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 565050007368 DNA binding residues [nucleotide binding] 565050007369 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 565050007370 EF hand; Region: EF-hand_1; pfam00036 565050007371 EF-hand domain pair; Region: EF-hand_7; pfam13499 565050007372 Ca2+ binding site [ion binding]; other site 565050007373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050007374 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 565050007375 dimerization interface [polypeptide binding]; other site 565050007376 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 565050007377 dimer interface [polypeptide binding]; other site 565050007378 phosphorylation site [posttranslational modification] 565050007379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007380 ATP binding site [chemical binding]; other site 565050007381 Mg2+ binding site [ion binding]; other site 565050007382 G-X-G motif; other site 565050007383 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 565050007384 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050007385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007386 active site 565050007387 phosphorylation site [posttranslational modification] 565050007388 intermolecular recognition site; other site 565050007389 dimerization interface [polypeptide binding]; other site 565050007390 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 565050007391 DNA binding site [nucleotide binding] 565050007392 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 565050007393 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565050007394 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050007395 protein binding site [polypeptide binding]; other site 565050007396 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 565050007397 protein binding site [polypeptide binding]; other site 565050007398 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 565050007399 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 565050007400 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 565050007401 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 565050007402 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 565050007403 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 565050007404 TPR motif; other site 565050007405 binding surface 565050007406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050007407 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 565050007408 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007409 ATP binding site [chemical binding]; other site 565050007410 Mg2+ binding site [ion binding]; other site 565050007411 G-X-G motif; other site 565050007412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050007413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007414 active site 565050007415 phosphorylation site [posttranslational modification] 565050007416 intermolecular recognition site; other site 565050007417 dimerization interface [polypeptide binding]; other site 565050007418 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 565050007419 DNA binding site [nucleotide binding] 565050007420 Predicted membrane protein [Function unknown]; Region: COG3212 565050007421 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 565050007422 HipA N-terminal domain; Region: Couple_hipA; pfam13657 565050007423 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 565050007424 HipA-like N-terminal domain; Region: HipA_N; pfam07805 565050007425 HipA-like C-terminal domain; Region: HipA_C; pfam07804 565050007426 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 565050007427 non-specific DNA binding site [nucleotide binding]; other site 565050007428 salt bridge; other site 565050007429 sequence-specific DNA binding site [nucleotide binding]; other site 565050007430 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 565050007431 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 565050007432 HSP70 interaction site [polypeptide binding]; other site 565050007433 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 565050007434 substrate binding site [polypeptide binding]; other site 565050007435 dimer interface [polypeptide binding]; other site 565050007436 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 565050007437 Putative phage tail protein; Region: Phage-tail_3; pfam13550 565050007438 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 565050007439 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 565050007440 Uncharacterized conserved protein [Function unknown]; Region: COG5449 565050007441 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 565050007442 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 565050007443 Uncharacterized conserved protein [Function unknown]; Region: COG5448 565050007444 Phage-related minor tail protein [Function unknown]; Region: COG5281 565050007445 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 565050007446 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 565050007447 Predicted secreted protein [Function unknown]; Region: COG5437 565050007448 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 565050007449 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 565050007450 oligomerization interface [polypeptide binding]; other site 565050007451 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 565050007452 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 565050007453 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 565050007454 dimer interface [polypeptide binding]; other site 565050007455 ligand binding site [chemical binding]; other site 565050007456 Phage head maturation protease [General function prediction only]; Region: COG3740 565050007457 Phage-related protein [Function unknown]; Region: COG4695 565050007458 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 565050007459 putative active site [active] 565050007460 Uncharacterized conserved protein [Function unknown]; Region: COG5323 565050007461 Terminase-like family; Region: Terminase_6; pfam03237 565050007462 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 565050007463 dimer interface [polypeptide binding]; other site 565050007464 NADP binding site [chemical binding]; other site 565050007465 catalytic residues [active] 565050007466 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 565050007467 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 565050007468 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 565050007469 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 565050007470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050007471 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 565050007472 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 565050007473 catalytic triad [active] 565050007474 conserved cis-peptide bond; other site 565050007475 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 565050007476 homotrimer interaction site [polypeptide binding]; other site 565050007477 putative active site [active] 565050007478 pyrimidine utilization protein D; Region: RutD; TIGR03611 565050007479 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050007480 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 565050007481 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 565050007482 active site 565050007483 dimer interface [polypeptide binding]; other site 565050007484 non-prolyl cis peptide bond; other site 565050007485 insertion regions; other site 565050007486 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 565050007487 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 565050007488 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 565050007489 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 565050007490 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 565050007491 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 565050007492 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 565050007493 inhibitor binding site; inhibition site 565050007494 active site 565050007495 Beta-1,4-xylanase [Carbohydrate transport and metabolism]; Region: XynA; COG3693 565050007496 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050007497 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 565050007498 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050007499 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050007500 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050007501 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 565050007502 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050007503 PAS domain; Region: PAS_9; pfam13426 565050007504 putative active site [active] 565050007505 heme pocket [chemical binding]; other site 565050007506 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 565050007507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 565050007508 dimer interface [polypeptide binding]; other site 565050007509 putative CheW interface [polypeptide binding]; other site 565050007510 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 565050007511 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 565050007512 Glycosyl hydrolase family 67 middle domain; Region: Glyco_hydro_67M; pfam07488 565050007513 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 565050007514 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 565050007515 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 565050007516 putative active site pocket [active] 565050007517 putative metal binding site [ion binding]; other site 565050007518 Transcriptional regulators [Transcription]; Region: FadR; COG2186 565050007519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565050007520 DNA-binding site [nucleotide binding]; DNA binding site 565050007521 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 565050007522 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 565050007523 putative active site [active] 565050007524 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 565050007525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 565050007526 Transposase; Region: DEDD_Tnp_IS110; pfam01548 565050007527 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 565050007528 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 565050007529 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 565050007530 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 565050007531 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 565050007532 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 565050007533 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 565050007534 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 565050007535 MoxR-like ATPases [General function prediction only]; Region: COG0714 565050007536 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 565050007537 Walker A motif; other site 565050007538 ATP binding site [chemical binding]; other site 565050007539 Walker B motif; other site 565050007540 arginine finger; other site 565050007541 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 565050007542 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565050007543 metal ion-dependent adhesion site (MIDAS); other site 565050007544 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 565050007545 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 565050007546 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050007547 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 565050007548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 565050007549 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 565050007550 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 565050007551 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 565050007552 catalytic site [active] 565050007553 subunit interface [polypeptide binding]; other site 565050007554 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050007555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050007556 NAD(P) binding site [chemical binding]; other site 565050007557 active site 565050007558 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 2; Region: FDH_like_2; cd08284 565050007559 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 565050007560 catalytic Zn binding site [ion binding]; other site 565050007561 NAD(P) binding site [chemical binding]; other site 565050007562 structural Zn binding site [ion binding]; other site 565050007563 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 565050007564 putative active site [active] 565050007565 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 565050007566 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 565050007567 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 565050007568 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 565050007569 PA/protease or protease-like domain interface [polypeptide binding]; other site 565050007570 metal binding site [ion binding]; metal-binding site 565050007571 Protein of unknown function (DUF998); Region: DUF998; pfam06197 565050007572 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050007573 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 565050007574 putative C-terminal domain interface [polypeptide binding]; other site 565050007575 putative GSH binding site (G-site) [chemical binding]; other site 565050007576 putative dimer interface [polypeptide binding]; other site 565050007577 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 565050007578 putative N-terminal domain interface [polypeptide binding]; other site 565050007579 putative dimer interface [polypeptide binding]; other site 565050007580 putative substrate binding pocket (H-site) [chemical binding]; other site 565050007581 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 565050007582 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 565050007583 ligand binding site [chemical binding]; other site 565050007584 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050007585 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050007586 dimer interface [polypeptide binding]; other site 565050007587 putative CheW interface [polypeptide binding]; other site 565050007588 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 565050007589 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 565050007590 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 565050007591 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 565050007592 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 565050007593 PAS fold; Region: PAS_7; pfam12860 565050007594 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050007595 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050007596 putative active site [active] 565050007597 heme pocket [chemical binding]; other site 565050007598 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 565050007599 dimer interface [polypeptide binding]; other site 565050007600 phosphorylation site [posttranslational modification] 565050007601 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007602 ATP binding site [chemical binding]; other site 565050007603 Mg2+ binding site [ion binding]; other site 565050007604 G-X-G motif; other site 565050007605 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050007606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007607 active site 565050007608 phosphorylation site [posttranslational modification] 565050007609 intermolecular recognition site; other site 565050007610 dimerization interface [polypeptide binding]; other site 565050007611 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 565050007612 ligand binding site; other site 565050007613 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 565050007614 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 565050007615 S-adenosylmethionine binding site [chemical binding]; other site 565050007616 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565050007617 WbqC-like protein family; Region: WbqC; pfam08889 565050007618 Core-2/I-Branching enzyme; Region: Branch; pfam02485 565050007619 short chain dehydrogenase; Validated; Region: PRK06182 565050007620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050007621 NAD(P) binding site [chemical binding]; other site 565050007622 active site 565050007623 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 565050007624 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 565050007625 active site residue [active] 565050007626 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 565050007627 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 565050007628 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 565050007629 non-specific DNA binding site [nucleotide binding]; other site 565050007630 salt bridge; other site 565050007631 sequence-specific DNA binding site [nucleotide binding]; other site 565050007632 pseudaminic acid synthase; Region: PseI; TIGR03586 565050007633 NeuB family; Region: NeuB; pfam03102 565050007634 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 565050007635 NeuB binding interface [polypeptide binding]; other site 565050007636 putative substrate binding site [chemical binding]; other site 565050007637 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 565050007638 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 565050007639 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 565050007640 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050007641 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 565050007642 Protein of unknown function, DUF393; Region: DUF393; pfam04134 565050007643 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 565050007644 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 565050007645 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 565050007646 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 565050007647 GIY-YIG motif/motif A; other site 565050007648 active site 565050007649 catalytic site [active] 565050007650 putative DNA binding site [nucleotide binding]; other site 565050007651 metal binding site [ion binding]; metal-binding site 565050007652 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 565050007653 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 565050007654 RNA polymerase sigma factor; Provisional; Region: PRK12547 565050007655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050007656 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 565050007657 DNA binding residues [nucleotide binding] 565050007658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050007659 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 565050007660 dimer interface [polypeptide binding]; other site 565050007661 phosphorylation site [posttranslational modification] 565050007662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007663 ATP binding site [chemical binding]; other site 565050007664 Mg2+ binding site [ion binding]; other site 565050007665 G-X-G motif; other site 565050007666 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 565050007667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050007668 catalytic residue [active] 565050007669 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]; Region: TDO2; COG3483 565050007670 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 565050007671 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 565050007672 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 565050007673 Ligand binding site; other site 565050007674 Putative Catalytic site; other site 565050007675 DXD motif; other site 565050007676 Predicted membrane protein [Function unknown]; Region: COG2246 565050007677 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 565050007678 S-adenosylmethionine binding site [chemical binding]; other site 565050007679 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 565050007680 dimer interface [polypeptide binding]; other site 565050007681 ligand binding site [chemical binding]; other site 565050007682 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050007683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050007684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050007685 AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar...; Region: AAI_LTSS; cl07890 565050007686 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050007687 Predicted integral membrane protein [Function unknown]; Region: COG5528 565050007688 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 565050007689 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 565050007690 putative NAD(P) binding site [chemical binding]; other site 565050007691 active site 565050007692 DoxX-like family; Region: DoxX_3; pfam13781 565050007693 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 565050007694 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050007695 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050007696 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 565050007697 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050007698 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050007699 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 565050007700 IMP binding site; other site 565050007701 dimer interface [polypeptide binding]; other site 565050007702 partial ornithine binding site; other site 565050007703 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 565050007704 putative C-terminal domain interface [polypeptide binding]; other site 565050007705 putative GSH binding site (G-site) [chemical binding]; other site 565050007706 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050007707 putative dimer interface [polypeptide binding]; other site 565050007708 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 565050007709 dimer interface [polypeptide binding]; other site 565050007710 N-terminal domain interface [polypeptide binding]; other site 565050007711 putative substrate binding pocket (H-site) [chemical binding]; other site 565050007712 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 565050007713 active site 565050007714 nucleophile elbow; other site 565050007715 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 565050007716 DNA-binding site [nucleotide binding]; DNA binding site 565050007717 RNA-binding motif; other site 565050007718 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 565050007719 hypothetical protein; Provisional; Region: PRK05409 565050007720 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 565050007721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050007722 HWE histidine kinase; Region: HWE_HK; pfam07536 565050007723 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 565050007724 active site 565050007725 L-aspartate oxidase; Provisional; Region: PRK07512 565050007726 L-aspartate oxidase; Provisional; Region: PRK06175 565050007727 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 565050007728 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 565050007729 putative active site [active] 565050007730 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 565050007731 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 565050007732 dimerization interface [polypeptide binding]; other site 565050007733 active site 565050007734 MAPEG family; Region: MAPEG; pfam01124 565050007735 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 565050007736 peroxiredoxin; Region: AhpC; TIGR03137 565050007737 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 565050007738 dimer interface [polypeptide binding]; other site 565050007739 decamer (pentamer of dimers) interface [polypeptide binding]; other site 565050007740 catalytic triad [active] 565050007741 peroxidatic and resolving cysteines [active] 565050007742 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 565050007743 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 565050007744 catalytic residue [active] 565050007745 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 565050007746 catalytic residues [active] 565050007747 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050007748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565050007749 Domain of unknown function (DUF697); Region: DUF697; cl12064 565050007750 Cytochrome b [Energy production and conversion]; Region: COG3658 565050007751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 565050007752 Transposase; Region: DEDD_Tnp_IS110; pfam01548 565050007753 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 565050007754 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 565050007755 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 565050007756 N-terminal plug; other site 565050007757 ligand-binding site [chemical binding]; other site 565050007758 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 565050007759 putative active site [active] 565050007760 catalytic site [active] 565050007761 putative metal binding site [ion binding]; other site 565050007762 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 565050007763 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 565050007764 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 565050007765 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 565050007766 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 565050007767 N-terminal plug; other site 565050007768 ligand-binding site [chemical binding]; other site 565050007769 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 565050007770 homodimer interface [polypeptide binding]; other site 565050007771 substrate-cofactor binding pocket; other site 565050007772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050007773 catalytic residue [active] 565050007774 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050007775 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 565050007776 osmolarity response regulator; Provisional; Region: ompR; PRK09468 565050007777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007778 active site 565050007779 phosphorylation site [posttranslational modification] 565050007780 intermolecular recognition site; other site 565050007781 dimerization interface [polypeptide binding]; other site 565050007782 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 565050007783 DNA binding site [nucleotide binding] 565050007784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050007785 HAMP domain; Region: HAMP; pfam00672 565050007786 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 565050007787 dimer interface [polypeptide binding]; other site 565050007788 phosphorylation site [posttranslational modification] 565050007789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007790 ATP binding site [chemical binding]; other site 565050007791 Mg2+ binding site [ion binding]; other site 565050007792 G-X-G motif; other site 565050007793 prephenate dehydratase; Provisional; Region: PRK11899 565050007794 Prephenate dehydratase; Region: PDT; pfam00800 565050007795 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 565050007796 putative L-Phe binding site [chemical binding]; other site 565050007797 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 565050007798 Ligand binding site; other site 565050007799 oligomer interface; other site 565050007800 Cytochrome c2 [Energy production and conversion]; Region: COG3474 565050007801 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 565050007802 NlpC/P60 family; Region: NLPC_P60; cl17555 565050007803 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 565050007804 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 565050007805 interface (dimer of trimers) [polypeptide binding]; other site 565050007806 Substrate-binding/catalytic site; other site 565050007807 Zn-binding sites [ion binding]; other site 565050007808 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 565050007809 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 565050007810 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 565050007811 ATP binding site [chemical binding]; other site 565050007812 Walker A motif; other site 565050007813 hexamer interface [polypeptide binding]; other site 565050007814 Walker B motif; other site 565050007815 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 565050007816 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 565050007817 Type IV pili component [Cell motility and secretion]; Region: COG5461 565050007818 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 565050007819 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 565050007820 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 565050007821 BON domain; Region: BON; pfam04972 565050007822 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 565050007823 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 565050007824 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 565050007825 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 565050007826 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 565050007827 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 565050007828 TadE-like protein; Region: TadE; pfam07811 565050007829 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 565050007830 TadE-like protein; Region: TadE; pfam07811 565050007831 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 565050007832 homodimer interface [polypeptide binding]; other site 565050007833 substrate-cofactor binding pocket; other site 565050007834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050007835 catalytic residue [active] 565050007836 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 565050007837 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 565050007838 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 565050007839 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 565050007840 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 565050007841 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 565050007842 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 565050007843 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 565050007844 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 565050007845 putative active site [active] 565050007846 metal binding site [ion binding]; metal-binding site 565050007847 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 565050007848 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 565050007849 conserved cys residue [active] 565050007850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050007851 Limonene-1,2-epoxide hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LimA; COG4308 565050007852 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 565050007853 dimer interface [polypeptide binding]; other site 565050007854 putative metal binding site [ion binding]; other site 565050007855 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 565050007856 active site 565050007857 catalytic triad [active] 565050007858 dimer interface [polypeptide binding]; other site 565050007859 Uncharacterized conserved protein [Function unknown]; Region: COG3422 565050007860 short chain dehydrogenase; Provisional; Region: PRK08267 565050007861 classical (c) SDR, subgroup 9; Region: SDR_c9; cd08931 565050007862 putative NAD(P) binding site [chemical binding]; other site 565050007863 active site 565050007864 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 565050007865 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 565050007866 DEC-1 protein, N-terminal region; Region: DEC-1_N; pfam04625 565050007867 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 565050007868 Cytochrome c; Region: Cytochrom_C; pfam00034 565050007869 glutathionine S-transferase; Provisional; Region: PRK10542 565050007870 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 565050007871 C-terminal domain interface [polypeptide binding]; other site 565050007872 GSH binding site (G-site) [chemical binding]; other site 565050007873 dimer interface [polypeptide binding]; other site 565050007874 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 565050007875 dimer interface [polypeptide binding]; other site 565050007876 N-terminal domain interface [polypeptide binding]; other site 565050007877 substrate binding pocket (H-site) [chemical binding]; other site 565050007878 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 565050007879 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 565050007880 active site 1 [active] 565050007881 dimer interface [polypeptide binding]; other site 565050007882 hexamer interface [polypeptide binding]; other site 565050007883 active site 2 [active] 565050007884 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 565050007885 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 565050007886 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 565050007887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050007888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050007889 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 565050007890 short chain dehydrogenase; Provisional; Region: PRK07060 565050007891 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 565050007892 NADP binding site [chemical binding]; other site 565050007893 homodimer interface [polypeptide binding]; other site 565050007894 active site 565050007895 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 565050007896 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 565050007897 excinuclease ABC subunit B; Provisional; Region: PRK05298 565050007898 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 565050007899 ATP binding site [chemical binding]; other site 565050007900 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 565050007901 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 565050007902 nucleotide binding region [chemical binding]; other site 565050007903 ATP-binding site [chemical binding]; other site 565050007904 Ultra-violet resistance protein B; Region: UvrB; pfam12344 565050007905 UvrB/uvrC motif; Region: UVR; pfam02151 565050007906 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 565050007907 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 565050007908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050007909 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 565050007910 dimer interface [polypeptide binding]; other site 565050007911 phosphorylation site [posttranslational modification] 565050007912 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007913 ATP binding site [chemical binding]; other site 565050007914 Mg2+ binding site [ion binding]; other site 565050007915 G-X-G motif; other site 565050007916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007917 active site 565050007918 phosphorylation site [posttranslational modification] 565050007919 intermolecular recognition site; other site 565050007920 dimerization interface [polypeptide binding]; other site 565050007921 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 565050007922 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 565050007923 FMN binding site [chemical binding]; other site 565050007924 substrate binding site [chemical binding]; other site 565050007925 putative catalytic residue [active] 565050007926 Heme NO binding; Region: HNOB; pfam07700 565050007927 GAF domain; Region: GAF_2; pfam13185 565050007928 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 565050007929 dimer interface [polypeptide binding]; other site 565050007930 phosphorylation site [posttranslational modification] 565050007931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050007932 ATP binding site [chemical binding]; other site 565050007933 Mg2+ binding site [ion binding]; other site 565050007934 G-X-G motif; other site 565050007935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007936 active site 565050007937 phosphorylation site [posttranslational modification] 565050007938 intermolecular recognition site; other site 565050007939 dimerization interface [polypeptide binding]; other site 565050007940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 565050007941 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 565050007942 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 565050007943 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 565050007944 Mechanosensitive ion channel; Region: MS_channel; pfam00924 565050007945 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 565050007946 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050007947 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 565050007948 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 565050007949 active site 565050007950 catalytic tetrad [active] 565050007951 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 565050007952 PhnA protein; Region: PhnA; pfam03831 565050007953 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 565050007954 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 565050007955 active site 565050007956 DNA binding site [nucleotide binding] 565050007957 Int/Topo IB signature motif; other site 565050007958 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 565050007959 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 565050007960 ADP binding site [chemical binding]; other site 565050007961 magnesium binding site [ion binding]; other site 565050007962 putative shikimate binding site; other site 565050007963 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 565050007964 active site 565050007965 dimer interface [polypeptide binding]; other site 565050007966 metal binding site [ion binding]; metal-binding site 565050007967 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 565050007968 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 565050007969 HSP70 interaction site [polypeptide binding]; other site 565050007970 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 565050007971 cytidine deaminase, homotetrameric; Region: cyt_deam_tetra; TIGR01354 565050007972 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 565050007973 active site 565050007974 catalytic motif [active] 565050007975 Zn binding site [ion binding]; other site 565050007976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050007977 active site 565050007978 phosphorylation site [posttranslational modification] 565050007979 intermolecular recognition site; other site 565050007980 dimerization interface [polypeptide binding]; other site 565050007981 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 565050007982 Domain of unknown function DUF21; Region: DUF21; pfam01595 565050007983 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 565050007984 Transporter associated domain; Region: CorC_HlyC; smart01091 565050007985 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 565050007986 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 565050007987 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 565050007988 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 565050007989 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 565050007990 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 565050007991 Predicted integral membrane protein [Function unknown]; Region: COG5658 565050007992 SdpI/YhfL protein family; Region: SdpI; pfam13630 565050007993 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 565050007994 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 565050007995 NAD binding site [chemical binding]; other site 565050007996 catalytic Zn binding site [ion binding]; other site 565050007997 substrate binding site [chemical binding]; other site 565050007998 structural Zn binding site [ion binding]; other site 565050007999 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 565050008000 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 565050008001 putative substrate translocation pore; other site 565050008002 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 565050008003 Phosphoesterase family; Region: Phosphoesterase; pfam04185 565050008004 Domain of unknown function (DUF756); Region: DUF756; pfam05506 565050008005 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565050008006 EamA-like transporter family; Region: EamA; pfam00892 565050008007 EamA-like transporter family; Region: EamA; pfam00892 565050008008 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565050008009 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050008010 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050008011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008012 active site 565050008013 phosphorylation site [posttranslational modification] 565050008014 intermolecular recognition site; other site 565050008015 dimerization interface [polypeptide binding]; other site 565050008016 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 565050008017 DNA binding site [nucleotide binding] 565050008018 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 565050008019 LytTr DNA-binding domain; Region: LytTR; pfam04397 565050008020 Predicted transcriptional regulator [Transcription]; Region: COG3636 565050008021 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 565050008022 non-specific DNA binding site [nucleotide binding]; other site 565050008023 sequence-specific DNA binding site [nucleotide binding]; other site 565050008024 salt bridge; other site 565050008025 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 565050008026 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 565050008027 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 565050008028 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 565050008029 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 565050008030 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 565050008031 Walker A motif/ATP binding site; other site 565050008032 Walker B motif; other site 565050008033 Beta-1,4-xylanase [Carbohydrate transport and metabolism]; Region: XynA; COG3693 565050008034 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 565050008035 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 565050008036 dimer interface [polypeptide binding]; other site 565050008037 active site 565050008038 heme binding site [chemical binding]; other site 565050008039 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 565050008040 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 565050008041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050008042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050008043 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 565050008044 putative dimerization interface [polypeptide binding]; other site 565050008045 putative substrate binding pocket [chemical binding]; other site 565050008046 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 565050008047 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 565050008048 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 565050008049 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 565050008050 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 565050008051 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 565050008052 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 565050008053 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050008054 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 565050008055 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 565050008056 DNA binding residues [nucleotide binding] 565050008057 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050008058 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008059 putative active site [active] 565050008060 heme pocket [chemical binding]; other site 565050008061 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008062 putative active site [active] 565050008063 heme pocket [chemical binding]; other site 565050008064 PAS domain S-box; Region: sensory_box; TIGR00229 565050008065 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008066 putative active site [active] 565050008067 heme pocket [chemical binding]; other site 565050008068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050008069 HWE histidine kinase; Region: HWE_HK; pfam07536 565050008070 DNA primase; Validated; Region: dnaG; PRK05667 565050008071 CHC2 zinc finger; Region: zf-CHC2; cl17510 565050008072 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 565050008073 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 565050008074 active site 565050008075 metal binding site [ion binding]; metal-binding site 565050008076 interdomain interaction site; other site 565050008077 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 565050008078 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 565050008079 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 565050008080 protein binding site [polypeptide binding]; other site 565050008081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 565050008082 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 565050008083 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565050008084 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565050008085 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565050008086 Domain of unknown function (DUF303); Region: DUF303; pfam03629 565050008087 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 565050008088 apolar tunnel; other site 565050008089 heme binding site [chemical binding]; other site 565050008090 dimerization interface [polypeptide binding]; other site 565050008091 2OG-Fe dioxygenase; Region: 2OG-Fe_Oxy_2; cl01794 565050008092 PAS fold; Region: PAS_4; pfam08448 565050008093 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008094 putative active site [active] 565050008095 heme pocket [chemical binding]; other site 565050008096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050008097 HWE histidine kinase; Region: HWE_HK; pfam07536 565050008098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008099 active site 565050008100 phosphorylation site [posttranslational modification] 565050008101 intermolecular recognition site; other site 565050008102 dimerization interface [polypeptide binding]; other site 565050008103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 565050008104 Predicted periplasmic protein [Function unknown]; Region: COG3656 565050008105 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 565050008106 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 565050008107 Flavodoxin; Region: Flavodoxin_1; pfam00258 565050008108 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 565050008109 FAD binding pocket [chemical binding]; other site 565050008110 FAD binding motif [chemical binding]; other site 565050008111 catalytic residues [active] 565050008112 NAD binding pocket [chemical binding]; other site 565050008113 phosphate binding motif [ion binding]; other site 565050008114 beta-alpha-beta structure motif; other site 565050008115 Molybdopterin-guanine dinucleotide biosynthesis protein A [Coenzyme metabolism]; Region: MobA; COG0746 565050008116 active site 565050008117 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565050008118 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565050008119 DNA binding site [nucleotide binding] 565050008120 domain linker motif; other site 565050008121 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 565050008122 putative dimerization interface [polypeptide binding]; other site 565050008123 putative ligand binding site [chemical binding]; other site 565050008124 SurA N-terminal domain; Region: SurA_N_3; cl07813 565050008125 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 565050008126 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 565050008127 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 565050008128 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 565050008129 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 565050008130 SEC-C motif; Region: SEC-C; pfam02810 565050008131 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 565050008132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050008133 putative substrate translocation pore; other site 565050008134 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 565050008135 dimerization interface [polypeptide binding]; other site 565050008136 putative DNA binding site [nucleotide binding]; other site 565050008137 putative Zn2+ binding site [ion binding]; other site 565050008138 Glycine zipper; Region: Gly-zipper_Omp; pfam13488 565050008139 Bacterial SH3 domain; Region: SH3_3; pfam08239 565050008140 Predicted protease of the Abi (CAAX) family [General function prediction only]; Region: COG4449 565050008141 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 565050008142 dimer interface [polypeptide binding]; other site 565050008143 phosphorylation site [posttranslational modification] 565050008144 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008145 ATP binding site [chemical binding]; other site 565050008146 Mg2+ binding site [ion binding]; other site 565050008147 G-X-G motif; other site 565050008148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008149 active site 565050008150 phosphorylation site [posttranslational modification] 565050008151 intermolecular recognition site; other site 565050008152 dimerization interface [polypeptide binding]; other site 565050008153 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 565050008154 classical (c) SDRs; Region: SDR_c; cd05233 565050008155 NAD(P) binding site [chemical binding]; other site 565050008156 active site 565050008157 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 565050008158 putative hydrophobic ligand binding site [chemical binding]; other site 565050008159 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 565050008160 active site 565050008161 NTP binding site [chemical binding]; other site 565050008162 metal binding triad [ion binding]; metal-binding site 565050008163 antibiotic binding site [chemical binding]; other site 565050008164 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 565050008165 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 565050008166 B12 binding site [chemical binding]; other site 565050008167 cobalt ligand [ion binding]; other site 565050008168 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 565050008169 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 565050008170 DNA binding residues [nucleotide binding] 565050008171 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 565050008172 putative active site [active] 565050008173 putative FMN binding site [chemical binding]; other site 565050008174 putative substrate binding site [chemical binding]; other site 565050008175 putative catalytic residue [active] 565050008176 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 565050008177 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050008178 substrate binding site [chemical binding]; other site 565050008179 oxyanion hole (OAH) forming residues; other site 565050008180 trimer interface [polypeptide binding]; other site 565050008181 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 565050008182 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 565050008183 putative NAD(P) binding site [chemical binding]; other site 565050008184 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050008185 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 565050008186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050008187 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050008188 active site 565050008189 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050008190 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 565050008191 putative C-terminal domain interface [polypeptide binding]; other site 565050008192 putative GSH binding site (G-site) [chemical binding]; other site 565050008193 putative dimer interface [polypeptide binding]; other site 565050008194 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 565050008195 putative N-terminal domain interface [polypeptide binding]; other site 565050008196 putative dimer interface [polypeptide binding]; other site 565050008197 putative substrate binding pocket (H-site) [chemical binding]; other site 565050008198 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 565050008199 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 565050008200 EamA-like transporter family; Region: EamA; pfam00892 565050008201 EamA-like transporter family; Region: EamA; pfam00892 565050008202 Epoxide hydrolase N terminus; Region: EHN; pfam06441 565050008203 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 565050008204 Uncharacterized conserved protein [Function unknown]; Region: COG3791 565050008205 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 565050008206 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 565050008207 tetramer interface [polypeptide binding]; other site 565050008208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008209 catalytic residue [active] 565050008210 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 565050008211 PAS fold; Region: PAS_4; pfam08448 565050008212 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008213 putative active site [active] 565050008214 heme pocket [chemical binding]; other site 565050008215 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050008216 metal binding site [ion binding]; metal-binding site 565050008217 active site 565050008218 I-site; other site 565050008219 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 565050008220 Uncharacterized conserved protein [Function unknown]; Region: COG2128 565050008221 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 565050008222 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 565050008223 Zn binding site [ion binding]; other site 565050008224 Membrane protein of unknown function; Region: DUF360; pfam04020 565050008225 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 565050008226 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 565050008227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050008228 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 565050008229 DNA binding residues [nucleotide binding] 565050008230 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050008231 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050008232 TAP-like protein; Region: Abhydrolase_4; pfam08386 565050008233 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050008234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008235 active site 565050008236 phosphorylation site [posttranslational modification] 565050008237 intermolecular recognition site; other site 565050008238 dimerization interface [polypeptide binding]; other site 565050008239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050008240 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 565050008241 dimer interface [polypeptide binding]; other site 565050008242 phosphorylation site [posttranslational modification] 565050008243 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008244 ATP binding site [chemical binding]; other site 565050008245 Mg2+ binding site [ion binding]; other site 565050008246 G-X-G motif; other site 565050008247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008248 active site 565050008249 phosphorylation site [posttranslational modification] 565050008250 intermolecular recognition site; other site 565050008251 dimerization interface [polypeptide binding]; other site 565050008252 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 565050008253 GDP-binding site [chemical binding]; other site 565050008254 ACT binding site; other site 565050008255 IMP binding site; other site 565050008256 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 565050008257 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 565050008258 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 565050008259 tetramer interface [polypeptide binding]; other site 565050008260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008261 catalytic residue [active] 565050008262 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 565050008263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 565050008264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565050008265 catalytic residue [active] 565050008266 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 565050008267 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 565050008268 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 565050008269 Uncharacterized conserved protein [Function unknown]; Region: COG1801 565050008270 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 565050008271 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 565050008272 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 565050008273 active site 565050008274 Predicted transcriptional regulators [Transcription]; Region: COG1733 565050008275 Predicted transcriptional regulators [Transcription]; Region: COG1733 565050008276 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 565050008277 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 565050008278 active site 565050008279 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 565050008280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 565050008281 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 565050008282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050008283 DNA-binding site [nucleotide binding]; DNA binding site 565050008284 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 565050008285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008286 homodimer interface [polypeptide binding]; other site 565050008287 catalytic residue [active] 565050008288 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050008289 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050008290 WHG domain; Region: WHG; pfam13305 565050008291 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 565050008292 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 565050008293 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050008294 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 565050008295 MMPL family; Region: MMPL; cl14618 565050008296 MMPL family; Region: MMPL; cl14618 565050008297 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 565050008298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050008299 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 565050008300 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 565050008301 [2Fe-2S] cluster binding site [ion binding]; other site 565050008302 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 565050008303 alpha subunit interface [polypeptide binding]; other site 565050008304 active site 565050008305 substrate binding site [chemical binding]; other site 565050008306 Fe binding site [ion binding]; other site 565050008307 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 565050008308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050008309 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 565050008310 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 565050008311 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 565050008312 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 565050008313 active site 565050008314 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 565050008315 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008316 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 565050008317 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 565050008318 Tetratricopeptide repeat; Region: TPR_16; pfam13432 565050008319 binding surface 565050008320 TPR motif; other site 565050008321 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 565050008322 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 565050008323 TPR motif; other site 565050008324 binding surface 565050008325 TPR repeat; Region: TPR_11; pfam13414 565050008326 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 565050008327 TPR motif; other site 565050008328 binding surface 565050008329 Sulfotransferase domain; Region: Sulfotransfer_1; cl19239 565050008330 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 565050008331 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 565050008332 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 565050008333 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 565050008334 Predicted transcriptional regulator [Transcription]; Region: COG3905 565050008335 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 565050008336 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 565050008337 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 565050008338 inhibitor-cofactor binding pocket; inhibition site 565050008339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008340 catalytic residue [active] 565050008341 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 565050008342 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 565050008343 catalytic triad [active] 565050008344 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 565050008345 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 565050008346 Walker A/P-loop; other site 565050008347 ATP binding site [chemical binding]; other site 565050008348 Q-loop/lid; other site 565050008349 ABC transporter signature motif; other site 565050008350 Walker B; other site 565050008351 D-loop; other site 565050008352 H-loop/switch region; other site 565050008353 TOBE domain; Region: TOBE_2; pfam08402 565050008354 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 565050008355 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 565050008356 dimer interface [polypeptide binding]; other site 565050008357 conserved gate region; other site 565050008358 putative PBP binding loops; other site 565050008359 ABC-ATPase subunit interface; other site 565050008360 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 565050008361 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 565050008362 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 565050008363 aminotransferase; Validated; Region: PRK07046 565050008364 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 565050008365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050008366 catalytic residue [active] 565050008367 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 565050008368 tetramerization interface [polypeptide binding]; other site 565050008369 NAD(P) binding site [chemical binding]; other site 565050008370 catalytic residues [active] 565050008371 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 565050008372 NAD(P) binding site [chemical binding]; other site 565050008373 catalytic residues [active] 565050008374 Transcriptional regulators [Transcription]; Region: GntR; COG1802 565050008375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 565050008376 DNA-binding site [nucleotide binding]; DNA binding site 565050008377 FCD domain; Region: FCD; pfam07729 565050008378 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 565050008379 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 565050008380 dimerization interface [polypeptide binding]; other site 565050008381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050008382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 565050008383 dimer interface [polypeptide binding]; other site 565050008384 putative CheW interface [polypeptide binding]; other site 565050008385 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 565050008386 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008387 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 565050008388 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008389 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 565050008390 Pectate lyase; Region: Pec_lyase_C; cl01593 565050008391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 565050008392 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 565050008393 Tetramer interface [polypeptide binding]; other site 565050008394 active site 565050008395 FMN-binding site [chemical binding]; other site 565050008396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008397 active site 565050008398 phosphorylation site [posttranslational modification] 565050008399 intermolecular recognition site; other site 565050008400 dimerization interface [polypeptide binding]; other site 565050008401 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 565050008402 queuosine biosynthesis protein QueD; Region: queuosine_QueD; TIGR03367 565050008403 active site 565050008404 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 565050008405 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 565050008406 FeS/SAM binding site; other site 565050008407 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 565050008408 Ligand Binding Site [chemical binding]; other site 565050008409 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008410 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 565050008411 PilZ domain; Region: PilZ; pfam07238 565050008412 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 565050008413 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 565050008414 homodimer interface [polypeptide binding]; other site 565050008415 substrate-cofactor binding pocket; other site 565050008416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008417 catalytic residue [active] 565050008418 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 565050008419 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 565050008420 dimerization interface [polypeptide binding]; other site 565050008421 putative DNA binding site [nucleotide binding]; other site 565050008422 putative Zn2+ binding site [ion binding]; other site 565050008423 AsnC family; Region: AsnC_trans_reg; pfam01037 565050008424 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008425 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 565050008426 putative active site [active] 565050008427 heme pocket [chemical binding]; other site 565050008428 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008429 putative active site [active] 565050008430 heme pocket [chemical binding]; other site 565050008431 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050008432 HWE histidine kinase; Region: HWE_HK; pfam07536 565050008433 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 565050008434 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 565050008435 putative active site [active] 565050008436 catalytic site [active] 565050008437 putative metal binding site [ion binding]; other site 565050008438 oligomer interface [polypeptide binding]; other site 565050008439 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 565050008440 putative ADP-binding pocket [chemical binding]; other site 565050008441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050008442 FAD dependent oxidoreductase; Region: DAO; pfam01266 565050008443 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 565050008444 short chain dehydrogenase; Provisional; Region: PRK06181 565050008445 classical (c) SDRs; Region: SDR_c; cd05233 565050008446 NAD(P) binding site [chemical binding]; other site 565050008447 active site 565050008448 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 565050008449 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 565050008450 dimer interface [polypeptide binding]; other site 565050008451 PYR/PP interface [polypeptide binding]; other site 565050008452 TPP binding site [chemical binding]; other site 565050008453 substrate binding site [chemical binding]; other site 565050008454 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 565050008455 TPP-binding site [chemical binding]; other site 565050008456 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 565050008457 Pirin-related protein [General function prediction only]; Region: COG1741 565050008458 Pirin; Region: Pirin; pfam02678 565050008459 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 565050008460 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 565050008461 active site 565050008462 purine riboside binding site [chemical binding]; other site 565050008463 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 565050008464 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 565050008465 oligomer interface [polypeptide binding]; other site 565050008466 metal binding site [ion binding]; metal-binding site 565050008467 metal binding site [ion binding]; metal-binding site 565050008468 putative Cl binding site [ion binding]; other site 565050008469 basic sphincter; other site 565050008470 hydrophobic gate; other site 565050008471 periplasmic entrance; other site 565050008472 Predicted transcriptional regulators [Transcription]; Region: COG1695 565050008473 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 565050008474 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 565050008475 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 565050008476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 565050008477 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 565050008478 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 565050008479 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 565050008480 acyl-activating enzyme (AAE) consensus motif; other site 565050008481 putative AMP binding site [chemical binding]; other site 565050008482 putative active site [active] 565050008483 putative CoA binding site [chemical binding]; other site 565050008484 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 565050008485 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 565050008486 substrate binding site [chemical binding]; other site 565050008487 oxyanion hole (OAH) forming residues; other site 565050008488 trimer interface [polypeptide binding]; other site 565050008489 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 565050008490 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050008491 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565050008492 PAS domain S-box; Region: sensory_box; TIGR00229 565050008493 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008494 putative active site [active] 565050008495 heme pocket [chemical binding]; other site 565050008496 PAS fold; Region: PAS_3; pfam08447 565050008497 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008498 heme pocket [chemical binding]; other site 565050008499 putative active site [active] 565050008500 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 565050008501 dimer interface [polypeptide binding]; other site 565050008502 phosphorylation site [posttranslational modification] 565050008503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008504 ATP binding site [chemical binding]; other site 565050008505 Mg2+ binding site [ion binding]; other site 565050008506 G-X-G motif; other site 565050008507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008508 active site 565050008509 phosphorylation site [posttranslational modification] 565050008510 intermolecular recognition site; other site 565050008511 dimerization interface [polypeptide binding]; other site 565050008512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050008513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050008514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050008515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050008516 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008517 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 565050008518 N-terminal plug; other site 565050008519 ligand-binding site [chemical binding]; other site 565050008520 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 565050008521 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 565050008522 HlyD family secretion protein; Region: HlyD_3; pfam13437 565050008523 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 565050008524 MMPL family; Region: MMPL; cl14618 565050008525 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 565050008526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050008527 Histidine kinase; Region: HisKA_2; pfam07568 565050008528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008529 ATP binding site [chemical binding]; other site 565050008530 Mg2+ binding site [ion binding]; other site 565050008531 G-X-G motif; other site 565050008532 elongation factor Tu; Reviewed; Region: PRK00049 565050008533 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 565050008534 G1 box; other site 565050008535 GEF interaction site [polypeptide binding]; other site 565050008536 GTP/Mg2+ binding site [chemical binding]; other site 565050008537 Switch I region; other site 565050008538 G2 box; other site 565050008539 G3 box; other site 565050008540 Switch II region; other site 565050008541 G4 box; other site 565050008542 G5 box; other site 565050008543 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 565050008544 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 565050008545 Antibiotic Binding Site [chemical binding]; other site 565050008546 elongation factor G; Reviewed; Region: PRK00007 565050008547 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 565050008548 G1 box; other site 565050008549 putative GEF interaction site [polypeptide binding]; other site 565050008550 GTP/Mg2+ binding site [chemical binding]; other site 565050008551 Switch I region; other site 565050008552 G2 box; other site 565050008553 G3 box; other site 565050008554 Switch II region; other site 565050008555 G4 box; other site 565050008556 G5 box; other site 565050008557 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 565050008558 Elongation Factor G, domain II; Region: EFG_II; pfam14492 565050008559 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 565050008560 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 565050008561 30S ribosomal protein S7; Validated; Region: PRK05302 565050008562 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 565050008563 S17 interaction site [polypeptide binding]; other site 565050008564 S8 interaction site; other site 565050008565 16S rRNA interaction site [nucleotide binding]; other site 565050008566 streptomycin interaction site [chemical binding]; other site 565050008567 23S rRNA interaction site [nucleotide binding]; other site 565050008568 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 565050008569 hypothetical protein; Provisional; Region: PRK06489 565050008570 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 565050008571 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 565050008572 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 565050008573 putative homodimer interface [polypeptide binding]; other site 565050008574 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 565050008575 heterodimer interface [polypeptide binding]; other site 565050008576 homodimer interface [polypeptide binding]; other site 565050008577 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 565050008578 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 565050008579 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 565050008580 dimer interface [polypeptide binding]; other site 565050008581 putative functional site; other site 565050008582 putative MPT binding site; other site 565050008583 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 565050008584 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 565050008585 NAD(P) binding site [chemical binding]; other site 565050008586 homodimer interface [polypeptide binding]; other site 565050008587 substrate binding site [chemical binding]; other site 565050008588 active site 565050008589 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 565050008590 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 565050008591 putative active site [active] 565050008592 putative PHP Thumb interface [polypeptide binding]; other site 565050008593 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 565050008594 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 565050008595 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 565050008596 generic binding surface I; other site 565050008597 generic binding surface II; other site 565050008598 DNA Polymerase Y-family; Region: PolY_like; cd03468 565050008599 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 565050008600 DNA binding site [nucleotide binding] 565050008601 Uncharacterized conserved protein [Function unknown]; Region: COG4544 565050008602 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 565050008603 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565050008604 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050008605 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 565050008606 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 565050008607 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 565050008608 carboxyltransferase (CT) interaction site; other site 565050008609 biotinylation site [posttranslational modification]; other site 565050008610 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 565050008611 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 565050008612 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 565050008613 VanZ like family; Region: VanZ; cl01971 565050008614 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 565050008615 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 565050008616 ligand binding site [chemical binding]; other site 565050008617 NAD binding site [chemical binding]; other site 565050008618 dimerization interface [polypeptide binding]; other site 565050008619 catalytic site [active] 565050008620 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 565050008621 putative L-serine binding site [chemical binding]; other site 565050008622 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 565050008623 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050008624 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 565050008625 catalytic residue [active] 565050008626 HAMP domain; Region: HAMP; pfam00672 565050008627 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 565050008628 dimer interface [polypeptide binding]; other site 565050008629 phosphorylation site [posttranslational modification] 565050008630 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008631 ATP binding site [chemical binding]; other site 565050008632 Mg2+ binding site [ion binding]; other site 565050008633 G-X-G motif; other site 565050008634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008635 active site 565050008636 phosphorylation site [posttranslational modification] 565050008637 intermolecular recognition site; other site 565050008638 dimerization interface [polypeptide binding]; other site 565050008639 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 565050008640 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 565050008641 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 565050008642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 565050008643 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 565050008644 dimer interface [polypeptide binding]; other site 565050008645 substrate binding site [chemical binding]; other site 565050008646 ATP binding site [chemical binding]; other site 565050008647 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 565050008648 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 565050008649 substrate binding pocket [chemical binding]; other site 565050008650 dimer interface [polypeptide binding]; other site 565050008651 inhibitor binding site; inhibition site 565050008652 FtsH Extracellular; Region: FtsH_ext; pfam06480 565050008653 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 565050008654 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 565050008655 Walker A motif; other site 565050008656 ATP binding site [chemical binding]; other site 565050008657 Walker B motif; other site 565050008658 arginine finger; other site 565050008659 Peptidase family M41; Region: Peptidase_M41; pfam01434 565050008660 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 565050008661 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 565050008662 Ligand Binding Site [chemical binding]; other site 565050008663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 565050008664 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 565050008665 Tetratricopeptide repeat; Region: TPR_6; pfam13174 565050008666 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 565050008667 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 565050008668 ligand binding site [chemical binding]; other site 565050008669 translocation protein TolB; Provisional; Region: tolB; PRK05137 565050008670 TolB amino-terminal domain; Region: TolB_N; pfam04052 565050008671 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050008672 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050008673 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050008674 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 565050008675 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 565050008676 TolR protein; Region: tolR; TIGR02801 565050008677 TolQ protein; Region: tolQ; TIGR02796 565050008678 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 565050008679 active site 565050008680 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 565050008681 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 565050008682 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 565050008683 Walker A motif; other site 565050008684 ATP binding site [chemical binding]; other site 565050008685 Walker B motif; other site 565050008686 arginine finger; other site 565050008687 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 565050008688 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 565050008689 RuvA N terminal domain; Region: RuvA_N; pfam01330 565050008690 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 565050008691 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 565050008692 active site 565050008693 putative DNA-binding cleft [nucleotide binding]; other site 565050008694 dimer interface [polypeptide binding]; other site 565050008695 hypothetical protein; Provisional; Region: PRK09133 565050008696 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 565050008697 putative metal binding site [ion binding]; other site 565050008698 TIGR02594 family protein; Region: TIGR02594 565050008699 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 565050008700 ATP binding site [chemical binding]; other site 565050008701 active site 565050008702 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 565050008703 substrate binding site [chemical binding]; other site 565050008704 hypothetical protein; Validated; Region: PRK00110 565050008705 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 565050008706 putative active site [active] 565050008707 metal binding site [ion binding]; metal-binding site 565050008708 homodimer binding site [polypeptide binding]; other site 565050008709 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 565050008710 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050008711 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050008712 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 565050008713 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 565050008714 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 565050008715 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 565050008716 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 565050008717 substrate binding site [chemical binding]; other site 565050008718 hinge regions; other site 565050008719 ADP binding site [chemical binding]; other site 565050008720 catalytic site [active] 565050008721 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 565050008722 intersubunit interface [polypeptide binding]; other site 565050008723 active site 565050008724 zinc binding site [ion binding]; other site 565050008725 Na+ binding site [ion binding]; other site 565050008726 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 565050008727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 565050008728 RNA polymerase sigma factor; Provisional; Region: PRK12536 565050008729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050008730 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 565050008731 DNA binding residues [nucleotide binding] 565050008732 Predicted integral membrane protein [Function unknown]; Region: COG5572 565050008733 Protein of unknown function (DUF692); Region: DUF692; pfam05114 565050008734 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 565050008735 Predicted membrane protein [Function unknown]; Region: COG2259 565050008736 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050008737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008738 active site 565050008739 phosphorylation site [posttranslational modification] 565050008740 intermolecular recognition site; other site 565050008741 dimerization interface [polypeptide binding]; other site 565050008742 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 565050008743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050008744 Coenzyme A binding pocket [chemical binding]; other site 565050008745 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 565050008746 Ferritin-like domain; Region: Ferritin; pfam00210 565050008747 heme binding site [chemical binding]; other site 565050008748 ferroxidase pore; other site 565050008749 ferroxidase diiron center [ion binding]; other site 565050008750 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 565050008751 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 565050008752 thiamine phosphate binding site [chemical binding]; other site 565050008753 active site 565050008754 pyrophosphate binding site [ion binding]; other site 565050008755 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 565050008756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050008757 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 565050008758 DNA binding residues [nucleotide binding] 565050008759 SnoaL-like domain; Region: SnoaL_2; pfam12680 565050008760 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 565050008761 active site 565050008762 dimerization interface [polypeptide binding]; other site 565050008763 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 565050008764 salt bridge; other site 565050008765 non-specific DNA binding site [nucleotide binding]; other site 565050008766 sequence-specific DNA binding site [nucleotide binding]; other site 565050008767 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 565050008768 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 565050008769 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 565050008770 putative active site [active] 565050008771 catalytic site [active] 565050008772 putative metal binding site [ion binding]; other site 565050008773 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 565050008774 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050008775 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 565050008776 Walker A/P-loop; other site 565050008777 ATP binding site [chemical binding]; other site 565050008778 Q-loop/lid; other site 565050008779 ABC transporter signature motif; other site 565050008780 Walker B; other site 565050008781 D-loop; other site 565050008782 H-loop/switch region; other site 565050008783 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 565050008784 hypothetical protein; Provisional; Region: PRK05170 565050008785 Transglycosylase; Region: Transgly; pfam00912 565050008786 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 565050008787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565050008788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 565050008789 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 565050008790 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 565050008791 Walker A/P-loop; other site 565050008792 ATP binding site [chemical binding]; other site 565050008793 Q-loop/lid; other site 565050008794 ABC transporter signature motif; other site 565050008795 Walker B; other site 565050008796 D-loop; other site 565050008797 H-loop/switch region; other site 565050008798 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 565050008799 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565050008800 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 565050008801 non-specific DNA binding site [nucleotide binding]; other site 565050008802 salt bridge; other site 565050008803 sequence-specific DNA binding site [nucleotide binding]; other site 565050008804 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 565050008805 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 565050008806 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565050008807 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 565050008808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050008809 metal binding site [ion binding]; metal-binding site 565050008810 active site 565050008811 I-site; other site 565050008812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008813 active site 565050008814 phosphorylation site [posttranslational modification] 565050008815 intermolecular recognition site; other site 565050008816 dimerization interface [polypeptide binding]; other site 565050008817 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 565050008818 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 565050008819 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 565050008820 protein binding site [polypeptide binding]; other site 565050008821 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 565050008822 Uncharacterized conserved protein [Function unknown]; Region: COG5589 565050008823 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 565050008824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 565050008825 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 565050008826 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 565050008827 NAD(P) binding site [chemical binding]; other site 565050008828 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 565050008829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 565050008830 Uncharacterized conserved protein [Function unknown]; Region: COG5590 565050008831 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 565050008832 ABC-2 type transporter; Region: ABC2_membrane; cl17235 565050008833 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 565050008834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050008835 Walker A/P-loop; other site 565050008836 ATP binding site [chemical binding]; other site 565050008837 Q-loop/lid; other site 565050008838 ABC transporter signature motif; other site 565050008839 Walker B; other site 565050008840 D-loop; other site 565050008841 H-loop/switch region; other site 565050008842 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 565050008843 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565050008844 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050008845 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 565050008846 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 565050008847 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 565050008848 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 565050008849 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 565050008850 ligand binding site [chemical binding]; other site 565050008851 homodimer interface [polypeptide binding]; other site 565050008852 NAD(P) binding site [chemical binding]; other site 565050008853 trimer interface B [polypeptide binding]; other site 565050008854 trimer interface A [polypeptide binding]; other site 565050008855 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 565050008856 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 565050008857 putative active site [active] 565050008858 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050008859 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 565050008860 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050008861 CoenzymeA binding site [chemical binding]; other site 565050008862 subunit interaction site [polypeptide binding]; other site 565050008863 PHB binding site; other site 565050008864 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 565050008865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050008866 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 565050008867 DNA binding residues [nucleotide binding] 565050008868 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 565050008869 active site 565050008870 ATP binding site [chemical binding]; other site 565050008871 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 565050008872 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 565050008873 active site 565050008874 Zn binding site [ion binding]; other site 565050008875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3801 565050008876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 565050008877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050008878 active site 565050008879 phosphorylation site [posttranslational modification] 565050008880 intermolecular recognition site; other site 565050008881 dimerization interface [polypeptide binding]; other site 565050008882 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 565050008883 Walker A motif; other site 565050008884 ATP binding site [chemical binding]; other site 565050008885 Walker B motif; other site 565050008886 arginine finger; other site 565050008887 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 565050008888 hypothetical protein; Provisional; Region: PRK13694 565050008889 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 565050008890 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 565050008891 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 565050008892 lytic murein transglycosylase; Region: MltB_2; TIGR02283 565050008893 Transglycosylase SLT domain; Region: SLT_2; pfam13406 565050008894 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 565050008895 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 565050008896 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 565050008897 active site 565050008898 catalytic residues [active] 565050008899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 565050008900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 565050008901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565050008902 FecR protein; Region: FecR; pfam04773 565050008903 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 565050008904 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050008905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050008906 ATP binding site [chemical binding]; other site 565050008907 Mg2+ binding site [ion binding]; other site 565050008908 G-X-G motif; other site 565050008909 nuclear egress membrane protein; Provisional; Region: PHA03326 565050008910 Uncharacterized conserved protein [Function unknown]; Region: COG0397 565050008911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050008912 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050008913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050008914 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050008915 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl19499 565050008916 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050008917 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 565050008918 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 565050008919 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 565050008920 metal binding site [ion binding]; metal-binding site 565050008921 acyl-CoA synthetase; Provisional; Region: PRK12582 565050008922 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 565050008923 acyl-activating enzyme (AAE) consensus motif; other site 565050008924 putative AMP binding site [chemical binding]; other site 565050008925 putative active site [active] 565050008926 putative CoA binding site [chemical binding]; other site 565050008927 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 565050008928 putative active site [active] 565050008929 putative metal binding site [ion binding]; other site 565050008930 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565050008931 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 565050008932 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 565050008933 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050008934 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 565050008935 PAS domain; Region: PAS_9; pfam13426 565050008936 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008937 putative active site [active] 565050008938 heme pocket [chemical binding]; other site 565050008939 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050008940 PAS fold; Region: PAS_3; pfam08447 565050008941 putative active site [active] 565050008942 heme pocket [chemical binding]; other site 565050008943 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 565050008944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050008945 dimer interface [polypeptide binding]; other site 565050008946 putative CheW interface [polypeptide binding]; other site 565050008947 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 565050008948 tetramer interface [polypeptide binding]; other site 565050008949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050008950 catalytic residue [active] 565050008951 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 565050008952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565050008953 catalytic residue [active] 565050008954 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 565050008955 lipoyl attachment site [posttranslational modification]; other site 565050008956 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 565050008957 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 565050008958 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 565050008959 ORF6N domain; Region: ORF6N; pfam10543 565050008960 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 565050008961 active site 565050008962 HAMP domain; Region: HAMP; pfam00672 565050008963 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 565050008964 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 565050008965 dimer interface [polypeptide binding]; other site 565050008966 putative CheW interface [polypeptide binding]; other site 565050008967 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 565050008968 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 565050008969 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 565050008970 active site 565050008971 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565050008972 active site 565050008973 HIGH motif; other site 565050008974 HIGH motif; other site 565050008975 nucleotide binding site [chemical binding]; other site 565050008976 KMSK motif region; other site 565050008977 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 565050008978 tRNA binding surface [nucleotide binding]; other site 565050008979 anticodon binding site; other site 565050008980 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 565050008981 Fe-S cluster binding site [ion binding]; other site 565050008982 substrate binding site [chemical binding]; other site 565050008983 catalytic site [active] 565050008984 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 565050008985 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 565050008986 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 565050008987 Phosphotransferase enzyme family; Region: APH; pfam01636 565050008988 putative active site [active] 565050008989 putative substrate binding site [chemical binding]; other site 565050008990 ATP binding site [chemical binding]; other site 565050008991 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 565050008992 RNA/DNA hybrid binding site [nucleotide binding]; other site 565050008993 active site 565050008994 Predicted transcriptional regulators [Transcription]; Region: COG1733 565050008995 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 565050008996 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 565050008997 NADP binding site [chemical binding]; other site 565050008998 ABC-2 type transporter; Region: ABC2_membrane; cl17235 565050008999 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 565050009000 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 565050009001 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565050009002 Walker A/P-loop; other site 565050009003 ATP binding site [chemical binding]; other site 565050009004 Q-loop/lid; other site 565050009005 ABC transporter signature motif; other site 565050009006 Walker B; other site 565050009007 D-loop; other site 565050009008 H-loop/switch region; other site 565050009009 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 565050009010 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 565050009011 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 565050009012 Predicted secreted protein [Function unknown]; Region: COG5451 565050009013 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 565050009014 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 565050009015 FMN binding site [chemical binding]; other site 565050009016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050009017 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 565050009018 NAD(P) binding site [chemical binding]; other site 565050009019 active site 565050009020 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 565050009021 nudix motif; other site 565050009022 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 565050009023 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 565050009024 active site 565050009025 nucleophile elbow; other site 565050009026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050009027 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 565050009028 NAD(P) binding site [chemical binding]; other site 565050009029 active site 565050009030 hypothetical protein; Validated; Region: PRK02101 565050009031 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050009032 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 565050009033 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 565050009034 FAD binding domain; Region: FAD_binding_4; pfam01565 565050009035 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 565050009036 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 565050009037 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 565050009038 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 565050009039 YceI-like domain; Region: YceI; pfam04264 565050009040 Uncharacterized conserved protein [Function unknown]; Region: COG2353 565050009041 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 565050009042 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050009043 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 565050009044 active site 565050009045 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 565050009046 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 565050009047 catalytic triad [active] 565050009048 dimer interface [polypeptide binding]; other site 565050009049 Putative transcriptional regulator [Transcription]; Region: COG1678 565050009050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 565050009051 metal binding site [ion binding]; metal-binding site 565050009052 active site 565050009053 I-site; other site 565050009054 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 565050009055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565050009056 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 565050009057 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050009058 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050009059 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050009060 threonine synthase; Validated; Region: PRK09225 565050009061 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 565050009062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050009063 catalytic residue [active] 565050009064 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 565050009065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 565050009066 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 565050009067 Subunit III/VIIa interface [polypeptide binding]; other site 565050009068 Phospholipid binding site [chemical binding]; other site 565050009069 Subunit I/III interface [polypeptide binding]; other site 565050009070 Subunit III/VIb interface [polypeptide binding]; other site 565050009071 Subunit III/VIa interface; other site 565050009072 Subunit III/Vb interface [polypeptide binding]; other site 565050009073 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 565050009074 putative active site [active] 565050009075 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 565050009076 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 565050009077 Subunit I/III interface [polypeptide binding]; other site 565050009078 D-pathway; other site 565050009079 Subunit I/VIIc interface [polypeptide binding]; other site 565050009080 Subunit I/IV interface [polypeptide binding]; other site 565050009081 Subunit I/II interface [polypeptide binding]; other site 565050009082 Low-spin heme (heme a) binding site [chemical binding]; other site 565050009083 Subunit I/VIIa interface [polypeptide binding]; other site 565050009084 Subunit I/VIa interface [polypeptide binding]; other site 565050009085 Dimer interface; other site 565050009086 Putative water exit pathway; other site 565050009087 Binuclear center (heme a3/CuB) [ion binding]; other site 565050009088 K-pathway; other site 565050009089 Subunit I/Vb interface [polypeptide binding]; other site 565050009090 Putative proton exit pathway; other site 565050009091 Subunit I/VIb interface; other site 565050009092 Subunit I/VIc interface [polypeptide binding]; other site 565050009093 Electron transfer pathway; other site 565050009094 Subunit I/VIIIb interface [polypeptide binding]; other site 565050009095 Subunit I/VIIb interface [polypeptide binding]; other site 565050009096 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 565050009097 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 565050009098 Cupredoxin superfamily; Region: Cupredoxin; cl19115 565050009099 Predicted transcriptional regulators [Transcription]; Region: COG1695 565050009100 Predicted membrane protein [Function unknown]; Region: COG4709 565050009101 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 565050009102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050009103 Coenzyme A binding pocket [chemical binding]; other site 565050009104 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 565050009105 POT family; Region: PTR2; cl17359 565050009106 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 565050009107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 565050009108 Polyphosphate kinase 2 (PPK2); Region: PPK2; pfam03976 565050009109 Uncharacterized conserved protein [Function unknown]; Region: COG5646 565050009110 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 565050009111 Serine carboxypeptidase; Region: Peptidase_S10; pfam00450 565050009112 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 565050009113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565050009114 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565050009115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050009116 Walker A/P-loop; other site 565050009117 ATP binding site [chemical binding]; other site 565050009118 Q-loop/lid; other site 565050009119 ABC transporter signature motif; other site 565050009120 Walker B; other site 565050009121 D-loop; other site 565050009122 H-loop/switch region; other site 565050009123 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 565050009124 putative active site [active] 565050009125 Predicted methyltransferase [General function prediction only]; Region: COG3897 565050009126 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 565050009127 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 565050009128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565050009129 NAD(P) binding site [chemical binding]; other site 565050009130 active site 565050009131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3801 565050009132 FAR-17a/AIG1-like protein; Region: Far-17a_AIG1; pfam04750 565050009133 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 565050009134 active site 565050009135 catalytic tetrad [active] 565050009136 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 565050009137 putative catalytic cysteine [active] 565050009138 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 565050009139 active site 565050009140 (T/H)XGH motif; other site 565050009141 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 565050009142 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 565050009143 Herpesvirus UL25 family; Region: Herpes_UL25; pfam01499 565050009144 Peptidase family M23; Region: Peptidase_M23; pfam01551 565050009145 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 565050009146 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 565050009147 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 565050009148 protein binding site [polypeptide binding]; other site 565050009149 Catalytic dyad [active] 565050009150 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 565050009151 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 565050009152 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 565050009153 NodB motif; other site 565050009154 putative active site [active] 565050009155 putative catalytic site [active] 565050009156 Zn binding site [ion binding]; other site 565050009157 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 565050009158 putative active site [active] 565050009159 Ap4A binding site [chemical binding]; other site 565050009160 nudix motif; other site 565050009161 putative metal binding site [ion binding]; other site 565050009162 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050009163 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050009164 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050009165 Probable pheophorbidase; Region: PLN02965; cl17657 565050009166 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 565050009167 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 565050009168 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 565050009169 gamma subunit interface [polypeptide binding]; other site 565050009170 epsilon subunit interface [polypeptide binding]; other site 565050009171 LBP interface [polypeptide binding]; other site 565050009172 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 565050009173 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 565050009174 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 565050009175 alpha subunit interaction interface [polypeptide binding]; other site 565050009176 Walker A motif; other site 565050009177 ATP binding site [chemical binding]; other site 565050009178 Walker B motif; other site 565050009179 inhibitor binding site; inhibition site 565050009180 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 565050009181 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 565050009182 core domain interface [polypeptide binding]; other site 565050009183 delta subunit interface [polypeptide binding]; other site 565050009184 epsilon subunit interface [polypeptide binding]; other site 565050009185 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 565050009186 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 565050009187 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 565050009188 beta subunit interaction interface [polypeptide binding]; other site 565050009189 Walker A motif; other site 565050009190 ATP binding site [chemical binding]; other site 565050009191 Walker B motif; other site 565050009192 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 565050009193 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 565050009194 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 565050009195 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; cl09932 565050009196 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 565050009197 active site 565050009198 LemA family; Region: LemA; pfam04011 565050009199 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 565050009200 Predicted membrane protein [Function unknown]; Region: COG3762 565050009201 CAAX protease self-immunity; Region: Abi; pfam02517 565050009202 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 565050009203 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 565050009204 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 565050009205 active site 565050009206 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 565050009207 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 565050009208 dimer interface [polypeptide binding]; other site 565050009209 active site 565050009210 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 565050009211 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 565050009212 ATP binding site [chemical binding]; other site 565050009213 putative Mg++ binding site [ion binding]; other site 565050009214 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 565050009215 nucleotide binding region [chemical binding]; other site 565050009216 ATP-binding site [chemical binding]; other site 565050009217 RQC domain; Region: RQC; pfam09382 565050009218 HRDC domain; Region: HRDC; pfam00570 565050009219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5321 565050009220 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 565050009221 EamA-like transporter family; Region: EamA; pfam00892 565050009222 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 565050009223 active site 565050009224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 565050009225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050009226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565050009227 active site 565050009228 phosphorylation site [posttranslational modification] 565050009229 intermolecular recognition site; other site 565050009230 dimerization interface [polypeptide binding]; other site 565050009231 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 565050009232 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 565050009233 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 565050009234 Predicted small secreted protein [Function unknown]; Region: COG5510 565050009235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050009236 Histidine kinase; Region: HisKA_2; pfam07568 565050009237 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050009238 ATP binding site [chemical binding]; other site 565050009239 Mg2+ binding site [ion binding]; other site 565050009240 G-X-G motif; other site 565050009241 RNA polymerase sigma factor; Provisional; Region: PRK12516 565050009242 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565050009243 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 565050009244 DNA binding residues [nucleotide binding] 565050009245 two-component response regulator; Provisional; Region: PRK09191 565050009246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050009247 active site 565050009248 phosphorylation site [posttranslational modification] 565050009249 intermolecular recognition site; other site 565050009250 dimerization interface [polypeptide binding]; other site 565050009251 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 565050009252 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 565050009253 dinuclear metal binding motif [ion binding]; other site 565050009254 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 565050009255 NAD+ binding site [chemical binding]; other site 565050009256 substrate binding site [chemical binding]; other site 565050009257 Zn binding site [ion binding]; other site 565050009258 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 565050009259 S-adenosylmethionine binding site [chemical binding]; other site 565050009260 Uncharacterized conserved protein [Function unknown]; Region: COG4715 565050009261 SWIM zinc finger; Region: SWIM; pfam04434 565050009262 PAS fold; Region: PAS_7; pfam12860 565050009263 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565050009264 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 565050009265 dimer interface [polypeptide binding]; other site 565050009266 phosphorylation site [posttranslational modification] 565050009267 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050009268 ATP binding site [chemical binding]; other site 565050009269 Mg2+ binding site [ion binding]; other site 565050009270 G-X-G motif; other site 565050009271 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 565050009272 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 565050009273 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 565050009274 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 565050009275 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 565050009276 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 565050009277 nucleophile elbow; other site 565050009278 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050009279 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 565050009280 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 565050009281 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 565050009282 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 565050009283 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 565050009284 Methyltransferase domain; Region: Methyltransf_31; pfam13847 565050009285 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 565050009286 S-adenosylmethionine binding site [chemical binding]; other site 565050009287 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 565050009288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 565050009289 TrkA-N domain; Region: TrkA_N; pfam02254 565050009290 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 565050009291 non-specific DNA binding site [nucleotide binding]; other site 565050009292 salt bridge; other site 565050009293 sequence-specific DNA binding site [nucleotide binding]; other site 565050009294 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 565050009295 dimer interaction site [polypeptide binding]; other site 565050009296 substrate-binding tunnel; other site 565050009297 active site 565050009298 catalytic site [active] 565050009299 substrate binding site [chemical binding]; other site 565050009300 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 565050009301 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 565050009302 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 565050009303 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 565050009304 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 565050009305 Cu(I) binding site [ion binding]; other site 565050009306 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 565050009307 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 565050009308 active site 565050009309 Zn binding site [ion binding]; other site 565050009310 Predicted transcriptional regulator [Transcription]; Region: COG3682 565050009311 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 565050009312 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 565050009313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565050009314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050009315 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 565050009316 dimerization interface [polypeptide binding]; other site 565050009317 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 565050009318 ATP phosphoribosyltransferase; Region: HisG; cl15266 565050009319 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 565050009320 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 565050009321 motif 1; other site 565050009322 dimer interface [polypeptide binding]; other site 565050009323 active site 565050009324 motif 2; other site 565050009325 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 565050009326 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 565050009327 dimer interface [polypeptide binding]; other site 565050009328 motif 1; other site 565050009329 active site 565050009330 motif 2; other site 565050009331 motif 3; other site 565050009332 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 565050009333 anticodon binding site; other site 565050009334 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 565050009335 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 565050009336 GIY-YIG motif/motif A; other site 565050009337 putative active site [active] 565050009338 putative metal binding site [ion binding]; other site 565050009339 DoxX-like family; Region: DoxX_2; pfam13564 565050009340 Biotin synthase and related enzymes [Coenzyme metabolism]; Region: BioB; COG0502 565050009341 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 565050009342 FeS/SAM binding site; other site 565050009343 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 565050009344 Uncharacterized conserved protein [Function unknown]; Region: COG3025 565050009345 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 565050009346 putative active site [active] 565050009347 putative metal binding residues [ion binding]; other site 565050009348 signature motif; other site 565050009349 putative triphosphate binding site [ion binding]; other site 565050009350 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 565050009351 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 565050009352 catalytic loop [active] 565050009353 iron binding site [ion binding]; other site 565050009354 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 565050009355 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050009356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565050009357 Reductase C-terminal; Region: Reductase_C; pfam14759 565050009358 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 565050009359 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 565050009360 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 565050009361 catalytic loop [active] 565050009362 iron binding site [ion binding]; other site 565050009363 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 565050009364 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 565050009365 Iron-sulfur protein interface; other site 565050009366 proximal quinone binding site [chemical binding]; other site 565050009367 SdhD (CybS) interface [polypeptide binding]; other site 565050009368 proximal heme binding site [chemical binding]; other site 565050009369 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 565050009370 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 565050009371 dimer interface [polypeptide binding]; other site 565050009372 ADP-ribose binding site [chemical binding]; other site 565050009373 active site 565050009374 nudix motif; other site 565050009375 metal binding site [ion binding]; metal-binding site 565050009376 Predicted ATPase [General function prediction only]; Region: COG1485 565050009377 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 565050009378 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 565050009379 Phosphotransferase enzyme family; Region: APH; pfam01636 565050009380 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 565050009381 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 565050009382 Substrate binding site; other site 565050009383 metal-binding site 565050009384 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 565050009385 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 565050009386 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 565050009387 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 565050009388 Part of AAA domain; Region: AAA_19; pfam13245 565050009389 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 565050009390 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 565050009391 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565050009392 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 565050009393 catalytic residues [active] 565050009394 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 565050009395 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565050009396 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 565050009397 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 565050009398 substrate binding site [chemical binding]; other site 565050009399 active site 565050009400 catalytic residues [active] 565050009401 heterodimer interface [polypeptide binding]; other site 565050009402 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 565050009403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050009404 catalytic residue [active] 565050009405 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 565050009406 active site 565050009407 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 565050009408 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 565050009409 Malic enzyme, N-terminal domain; Region: malic; pfam00390 565050009410 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 565050009411 putative NAD(P) binding site [chemical binding]; other site 565050009412 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 565050009413 dihydrodipicolinate reductase; Provisional; Region: PRK00048 565050009414 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 565050009415 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 565050009416 Dicarboxylate transport; Region: DctA-YdbH; cl14674 565050009417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 565050009418 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 565050009419 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 565050009420 putative active site [active] 565050009421 putative metal binding site [ion binding]; other site 565050009422 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 565050009423 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 565050009424 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 565050009425 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 565050009426 GAF domain; Region: GAF_3; pfam13492 565050009427 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 565050009428 PAS fold; Region: PAS_3; pfam08447 565050009429 putative active site [active] 565050009430 heme pocket [chemical binding]; other site 565050009431 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565050009432 HWE histidine kinase; Region: HWE_HK; pfam07536 565050009433 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 565050009434 active site 565050009435 phosphorylation site [posttranslational modification] 565050009436 intermolecular recognition site; other site 565050009437 dimerization interface [polypeptide binding]; other site 565050009438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565050009439 Coenzyme A binding pocket [chemical binding]; other site 565050009440 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050009441 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050009442 CoenzymeA binding site [chemical binding]; other site 565050009443 subunit interaction site [polypeptide binding]; other site 565050009444 PHB binding site; other site 565050009445 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 565050009446 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 565050009447 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 565050009448 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 565050009449 Zn binding site [ion binding]; other site 565050009450 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 565050009451 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 565050009452 Walker A/P-loop; other site 565050009453 ATP binding site [chemical binding]; other site 565050009454 Q-loop/lid; other site 565050009455 ABC transporter signature motif; other site 565050009456 Walker B; other site 565050009457 D-loop; other site 565050009458 H-loop/switch region; other site 565050009459 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 565050009460 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 565050009461 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 565050009462 C-terminal domain interface [polypeptide binding]; other site 565050009463 GSH binding site (G-site) [chemical binding]; other site 565050009464 putative dimer interface [polypeptide binding]; other site 565050009465 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 565050009466 dimer interface [polypeptide binding]; other site 565050009467 N-terminal domain interface [polypeptide binding]; other site 565050009468 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 565050009469 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_cladeA; cd00883 565050009470 active site clefts [active] 565050009471 zinc binding site [ion binding]; other site 565050009472 dimer interface [polypeptide binding]; other site 565050009473 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 565050009474 Transglycosylase; Region: Transgly; pfam00912 565050009475 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565050009476 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 565050009477 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 565050009478 MG2 domain; Region: A2M_N; pfam01835 565050009479 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 565050009480 Alpha-2-macroglobulin family; Region: A2M; pfam00207 565050009481 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 565050009482 surface patch; other site 565050009483 thioester region; other site 565050009484 specificity defining residues; other site 565050009485 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 565050009486 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 565050009487 putative DNA binding site [nucleotide binding]; other site 565050009488 putative Zn2+ binding site [ion binding]; other site 565050009489 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 565050009490 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 565050009491 hexamer interface [polypeptide binding]; other site 565050009492 ligand binding site [chemical binding]; other site 565050009493 putative active site [active] 565050009494 NAD(P) binding site [chemical binding]; other site 565050009495 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 565050009496 ligand binding site; other site 565050009497 bifunctional regulator KidO; Provisional; Region: PRK14863 565050009498 active site 565050009499 catalytic tetrad [active] 565050009500 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 565050009501 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 565050009502 XdhC Rossmann domain; Region: XdhC_C; pfam13478 565050009503 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 565050009504 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 565050009505 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 565050009506 aldehyde dehydrogenase family 2 member; Region: PLN02466 565050009507 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 565050009508 NAD(P) binding site [chemical binding]; other site 565050009509 catalytic residues [active] 565050009510 acetyl-CoA synthetase; Provisional; Region: PRK00174 565050009511 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 565050009512 active site 565050009513 CoA binding site [chemical binding]; other site 565050009514 acyl-activating enzyme (AAE) consensus motif; other site 565050009515 AMP binding site [chemical binding]; other site 565050009516 acetate binding site [chemical binding]; other site 565050009517 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 565050009518 hydrophobic ligand binding site; other site 565050009519 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 565050009520 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050009521 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050009522 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050009523 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 565050009524 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 565050009525 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 565050009526 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 565050009527 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 565050009528 dimer interface [polypeptide binding]; other site 565050009529 DNA binding site [nucleotide binding] 565050009530 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 565050009531 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 565050009532 RNA binding site [nucleotide binding]; other site 565050009533 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 565050009534 RNA binding site [nucleotide binding]; other site 565050009535 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 565050009536 RNA binding site [nucleotide binding]; other site 565050009537 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 565050009538 RNA binding site [nucleotide binding]; other site 565050009539 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 565050009540 RNA binding site [nucleotide binding]; other site 565050009541 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 565050009542 RNA binding site [nucleotide binding]; other site 565050009543 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 565050009544 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 565050009545 CMP-binding site; other site 565050009546 The sites determining sugar specificity; other site 565050009547 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 565050009548 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 565050009549 hinge; other site 565050009550 active site 565050009551 TIGR02300 family protein; Region: FYDLN_acid 565050009552 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 565050009553 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 565050009554 putative dimer interface [polypeptide binding]; other site 565050009555 Uncharacterized small protein [Function unknown]; Region: COG5568 565050009556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050009557 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 565050009558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 565050009559 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 565050009560 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 565050009561 active site 565050009562 phosphorylation site [posttranslational modification] 565050009563 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 565050009564 30S subunit binding site; other site 565050009565 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 565050009566 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 565050009567 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 565050009568 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 565050009569 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 565050009570 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 565050009571 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 565050009572 Walker A/P-loop; other site 565050009573 ATP binding site [chemical binding]; other site 565050009574 Q-loop/lid; other site 565050009575 ABC transporter signature motif; other site 565050009576 Walker B; other site 565050009577 D-loop; other site 565050009578 H-loop/switch region; other site 565050009579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 565050009580 OstA-like protein; Region: OstA; pfam03968 565050009581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 565050009582 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 565050009583 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 565050009584 catalytic site [active] 565050009585 putative active site [active] 565050009586 putative substrate binding site [chemical binding]; other site 565050009587 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 565050009588 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 565050009589 putative NAD(P) binding site [chemical binding]; other site 565050009590 active site 565050009591 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 565050009592 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 565050009593 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 565050009594 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 565050009595 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 565050009596 active site 565050009597 dimer interface [polypeptide binding]; other site 565050009598 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 565050009599 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 565050009600 active site 565050009601 FMN binding site [chemical binding]; other site 565050009602 substrate binding site [chemical binding]; other site 565050009603 3Fe-4S cluster binding site [ion binding]; other site 565050009604 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 565050009605 domain interface; other site 565050009606 DNA ligase N terminus; Region: DNA_ligase_A_N; pfam04675 565050009607 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 565050009608 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 565050009609 active site 565050009610 DNA binding site [nucleotide binding] 565050009611 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 565050009612 DNA binding site [nucleotide binding] 565050009613 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 565050009614 inhibitor-cofactor binding pocket; inhibition site 565050009615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050009616 catalytic residue [active] 565050009617 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 565050009618 Mechanosensitive ion channel; Region: MS_channel; pfam00924 565050009619 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 565050009620 active site 565050009621 intersubunit interactions; other site 565050009622 catalytic residue [active] 565050009623 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 565050009624 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 565050009625 NADP binding site [chemical binding]; other site 565050009626 active site 565050009627 putative substrate binding site [chemical binding]; other site 565050009628 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 565050009629 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 565050009630 active site 565050009631 motif I; other site 565050009632 motif II; other site 565050009633 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 565050009634 dimerization interface [polypeptide binding]; other site 565050009635 putative active cleft [active] 565050009636 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 565050009637 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 565050009638 Substrate binding site; other site 565050009639 Cupin domain; Region: Cupin_2; cl17218 565050009640 NAD synthetase; Reviewed; Region: nadE; PRK02628 565050009641 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 565050009642 multimer interface [polypeptide binding]; other site 565050009643 active site 565050009644 catalytic triad [active] 565050009645 protein interface 1 [polypeptide binding]; other site 565050009646 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 565050009647 homodimer interface [polypeptide binding]; other site 565050009648 NAD binding pocket [chemical binding]; other site 565050009649 ATP binding pocket [chemical binding]; other site 565050009650 Mg binding site [ion binding]; other site 565050009651 active-site loop [active] 565050009652 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 565050009653 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 565050009654 TPP-binding site [chemical binding]; other site 565050009655 dimer interface [polypeptide binding]; other site 565050009656 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 565050009657 PYR/PP interface [polypeptide binding]; other site 565050009658 dimer interface [polypeptide binding]; other site 565050009659 TPP binding site [chemical binding]; other site 565050009660 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 565050009661 Uncharacterized conserved protein [Function unknown]; Region: COG1872 565050009662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565050009663 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 565050009664 dimer interface [polypeptide binding]; other site 565050009665 phosphorylation site [posttranslational modification] 565050009666 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 565050009667 ATP binding site [chemical binding]; other site 565050009668 Mg2+ binding site [ion binding]; other site 565050009669 G-X-G motif; other site 565050009670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 565050009671 active site 565050009672 phosphorylation site [posttranslational modification] 565050009673 intermolecular recognition site; other site 565050009674 dimerization interface [polypeptide binding]; other site 565050009675 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 565050009676 additional DNA contacts [nucleotide binding]; other site 565050009677 mismatch recognition site; other site 565050009678 active site 565050009679 zinc binding site [ion binding]; other site 565050009680 DNA intercalation site [nucleotide binding]; other site 565050009681 cysteine synthase; Region: PLN02565 565050009682 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 565050009683 dimer interface [polypeptide binding]; other site 565050009684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050009685 catalytic residue [active] 565050009686 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 565050009687 cofactor binding site; other site 565050009688 DNA binding site [nucleotide binding] 565050009689 substrate interaction site [chemical binding]; other site 565050009690 Predicted membrane protein [Function unknown]; Region: COG3650 565050009691 Beta-lactamase; Region: Beta-lactamase; pfam00144 565050009692 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 565050009693 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 565050009694 NAD binding site [chemical binding]; other site 565050009695 substrate binding site [chemical binding]; other site 565050009696 homodimer interface [polypeptide binding]; other site 565050009697 active site 565050009698 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 565050009699 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 565050009700 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 565050009701 putative active site [active] 565050009702 putative substrate binding site [chemical binding]; other site 565050009703 putative cosubstrate binding site; other site 565050009704 catalytic site [active] 565050009705 acetylornithine deacetylase; Provisional; Region: PRK07522 565050009706 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 565050009707 metal binding site [ion binding]; metal-binding site 565050009708 putative dimer interface [polypeptide binding]; other site 565050009709 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 565050009710 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 565050009711 Probable Catalytic site; other site 565050009712 metal-binding site 565050009713 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 565050009714 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050009715 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050009716 threonine dehydratase; Provisional; Region: PRK07334 565050009717 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 565050009718 tetramer interface [polypeptide binding]; other site 565050009719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565050009720 catalytic residue [active] 565050009721 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 565050009722 epoxyqueuosine reductase; Region: TIGR00276 565050009723 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 565050009724 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 565050009725 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 565050009726 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 565050009727 C-terminal domain interface [polypeptide binding]; other site 565050009728 GSH binding site (G-site) [chemical binding]; other site 565050009729 dimer interface [polypeptide binding]; other site 565050009730 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 565050009731 N-terminal domain interface [polypeptide binding]; other site 565050009732 dimer interface [polypeptide binding]; other site 565050009733 substrate binding pocket (H-site) [chemical binding]; other site 565050009734 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 565050009735 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 565050009736 putative ribose interaction site [chemical binding]; other site 565050009737 putative ADP binding site [chemical binding]; other site 565050009738 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 565050009739 active site 565050009740 nucleotide binding site [chemical binding]; other site 565050009741 HIGH motif; other site 565050009742 KMSKS motif; other site 565050009743 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 565050009744 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 565050009745 Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 565050009746 dimer interface [polypeptide binding]; other site 565050009747 active site 565050009748 citrylCoA binding site [chemical binding]; other site 565050009749 oxalacetate/citrate binding site [chemical binding]; other site 565050009750 coenzyme A binding site [chemical binding]; other site 565050009751 catalytic triad [active] 565050009752 Helix-turn-helix domain; Region: HTH_17; pfam12728 565050009753 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 565050009754 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 565050009755 dimer interface [polypeptide binding]; other site 565050009756 active site 565050009757 coenzyme A binding site [chemical binding]; other site 565050009758 citrylCoA binding site [chemical binding]; other site 565050009759 oxalacetate/citrate binding site [chemical binding]; other site 565050009760 catalytic triad [active] 565050009761 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 565050009762 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565050009763 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 565050009764 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 565050009765 CoenzymeA binding site [chemical binding]; other site 565050009766 subunit interaction site [polypeptide binding]; other site 565050009767 PHB binding site; other site 565050009768 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 565050009769 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 565050009770 putative active site [active] 565050009771 Zn binding site [ion binding]; other site 565050009772 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 565050009773 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 565050009774 active site 565050009775 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 565050009776 catalytic triad [active] 565050009777 dimer interface [polypeptide binding]; other site 565050009778 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 565050009779 dimer interface [polypeptide binding]; other site 565050009780 ADP-ribose binding site [chemical binding]; other site 565050009781 active site 565050009782 nudix motif; other site 565050009783 metal binding site [ion binding]; metal-binding site 565050009784 RimM N-terminal domain; Region: RimM; pfam01782 565050009785 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 565050009786 PRC-barrel domain; Region: PRC; pfam05239 565050009787 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 565050009788 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 565050009789 signal recognition particle protein; Provisional; Region: PRK10867 565050009790 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 565050009791 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 565050009792 P loop; other site 565050009793 GTP binding site [chemical binding]; other site 565050009794 Signal peptide binding domain; Region: SRP_SPB; pfam02978 565050009795 malate dehydrogenase; Reviewed; Region: PRK06223 565050009796 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 565050009797 NAD(P) binding site [chemical binding]; other site 565050009798 dimer interface [polypeptide binding]; other site 565050009799 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565050009800 substrate binding site [chemical binding]; other site 565050009801 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 565050009802 putative active site [active] 565050009803 putative catalytic site [active] 565050009804 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 565050009805 putative active site [active] 565050009806 putative catalytic site [active] 565050009807 HIT domain; Region: HIT; pfam01230 565050009808 nucleotide binding site/active site [active] 565050009809 HIT family signature motif; other site 565050009810 catalytic residue [active] 565050009811 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 565050009812 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 565050009813 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 565050009814 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 565050009815 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 565050009816 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 565050009817 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 565050009818 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 565050009819 active site 565050009820 catalytic tetrad [active] 565050009821 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 565050009822 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 565050009823 aconitate hydratase; Validated; Region: PRK09277 565050009824 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 565050009825 substrate binding site [chemical binding]; other site 565050009826 ligand binding site [chemical binding]; other site 565050009827 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 565050009828 substrate binding site [chemical binding]; other site 565050009829 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 565050009830 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050009831 Walker A/P-loop; other site 565050009832 ATP binding site [chemical binding]; other site 565050009833 Q-loop/lid; other site 565050009834 ABC transporter signature motif; other site 565050009835 Walker B; other site 565050009836 D-loop; other site 565050009837 H-loop/switch region; other site 565050009838 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 565050009839 heme exporter protein CcmC; Region: ccmC; TIGR01191 565050009840 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 565050009841 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 565050009842 catalytic residues [active] 565050009843 central insert; other site 565050009844 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565050009845 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 565050009846 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 565050009847 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 565050009848 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 565050009849 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 565050009850 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 565050009851 Uncharacterized conserved protein [Function unknown]; Region: COG3791 565050009852 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 565050009853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 565050009854 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 565050009855 FeS/SAM binding site; other site 565050009856 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 565050009857 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 565050009858 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 565050009859 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 565050009860 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050009861 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 565050009862 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050009863 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 565050009864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 565050009865 Predicted transcriptional regulators [Transcription]; Region: COG1695 565050009866 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 565050009867 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 565050009868 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 565050009869 mce related protein; Region: MCE; pfam02470 565050009870 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 565050009871 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 565050009872 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 565050009873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565050009874 Walker A/P-loop; other site 565050009875 ATP binding site [chemical binding]; other site 565050009876 Q-loop/lid; other site 565050009877 ABC transporter signature motif; other site 565050009878 Walker B; other site 565050009879 D-loop; other site 565050009880 H-loop/switch region; other site 565050009881 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 565050009882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565050009883 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 565050009884 dimerization interface [polypeptide binding]; other site 565050009885 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 565050009886 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 565050009887 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 565050009888 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 565050009889 hydrophobic ligand binding site; other site 565050009890 TraB family; Region: TraB; pfam01963 565050009891 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 565050009892 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 565050009893 active site 565050009894 Zn binding site [ion binding]; other site 565050009895 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 565050009896 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 565050009897 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 565050009898 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 565050009899 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 565050009900 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 565050009901 putative catalytic site [active] 565050009902 putative phosphate binding site [ion binding]; other site 565050009903 active site 565050009904 metal binding site A [ion binding]; metal-binding site 565050009905 DNA binding site [nucleotide binding] 565050009906 putative AP binding site [nucleotide binding]; other site 565050009907 putative metal binding site B [ion binding]; other site 565050009908 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 565050009909 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 565050009910 DNA binding site [nucleotide binding] 565050009911 catalytic residue [active] 565050009912 H2TH interface [polypeptide binding]; other site 565050009913 putative catalytic residues [active] 565050009914 turnover-facilitating residue; other site 565050009915 intercalation triad [nucleotide binding]; other site 565050009916 8OG recognition residue [nucleotide binding]; other site 565050009917 putative reading head residues; other site 565050009918 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 565050009919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 565050009920 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 565050009921 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 565050009922 S-adenosylmethionine binding site [chemical binding]; other site 565050009923 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 565050009924 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 565050009925 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 565050009926 active site 565050009927 ATP binding site [chemical binding]; other site 565050009928 Pyocin large subunit [General function prediction only]; Region: COG5529 565050009929 FDF domain; Region: FDF; pfam09532 565050009930 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 565050009931 Flavoprotein; Region: Flavoprotein; cl19190 565050009932 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 565050009933 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 565050009934 trimer interface [polypeptide binding]; other site 565050009935 active site 565050009936 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 565050009937 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565050009938 putative substrate translocation pore; other site 565050009939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565050009940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565050009941 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 565050009942 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 565050009943 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 565050009944 NAD binding site [chemical binding]; other site 565050009945 homotetramer interface [polypeptide binding]; other site 565050009946 homodimer interface [polypeptide binding]; other site 565050009947 substrate binding site [chemical binding]; other site 565050009948 active site 565050009949 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 565050009950 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 565050009951 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 565050009952 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 565050009953 dimer interface [polypeptide binding]; other site 565050009954 active site 565050009955 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 565050009956 active site 1 [active] 565050009957 dimer interface [polypeptide binding]; other site 565050009958 active site 2 [active] 565050009959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 565050009960 Bacterial SH3 domain; Region: SH3_4; pfam06347 565050009961 Bacterial SH3 domain; Region: SH3_4; pfam06347 565050009962 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565050009963 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565050009964 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 565050009965 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 565050009966 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 565050009967 Putative lysophospholipase; Region: Hydrolase_4; cl19140 565050009968 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 565050009969 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565050009970 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 565050009971 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 565050009972 ATP binding site [chemical binding]; other site 565050009973 substrate interface [chemical binding]; other site 565050009974 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 565050009975 active site 565050009976 HslU subunit interaction site [polypeptide binding]; other site 565050009977 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 565050009978 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 565050009979 Walker A motif; other site 565050009980 ATP binding site [chemical binding]; other site 565050009981 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 565050009982 Walker B motif; other site 565050009983 arginine finger; other site 565050009984 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 565050009985 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 565050009986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565050009987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 565050009988 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 565050009989 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 565050009990 DNA binding site [nucleotide binding] 565050009991 active site 565050009992 Integral membrane protein [Function unknown]; Region: COG5488 565050009993 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 565050009994 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565050009995 minor groove reading motif; other site 565050009996 helix-hairpin-helix signature motif; other site 565050009997 substrate binding pocket [chemical binding]; other site 565050009998 active site 565050009999 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 565050010000 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 565050010001 putative active site pocket [active] 565050010002 4-fold oligomerization interface [polypeptide binding]; other site 565050010003 metal binding residues [ion binding]; metal-binding site 565050010004 3-fold/trimer interface [polypeptide binding]; other site 565050010005 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 565050010006 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 565050010007 putative active site [active] 565050010008 oxyanion strand; other site 565050010009 catalytic triad [active] 565050010010 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 565050010011 catalytic residues [active] 565050010012 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 565050010013 substrate binding site [chemical binding]; other site 565050010014 glutamase interaction surface [polypeptide binding]; other site 565050010015 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 565050010016 metal binding site [ion binding]; metal-binding site 565050010017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 565050010018 Smr domain; Region: Smr; pfam01713 565050010019 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 565050010020 MltA specific insert domain; Region: MltA; smart00925 565050010021 3D domain; Region: 3D; pfam06725 565050010022 Preprotein translocase subunit SecB [Intracellular trafficking and secretion]; Region: SecB; COG1952 565050010023 SecA binding site; other site 565050010024 Preprotein binding site; other site 565050010025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 565050010026 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 565050010027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565050010028 catalytic residue [active] 565050010029 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 565050010030 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 565050010031 active site 565050010032 HIGH motif; other site 565050010033 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 565050010034 KMSKS motif; other site 565050010035 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 565050010036 tRNA binding surface [nucleotide binding]; other site 565050010037 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 565050010038 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 565050010039 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 565050010040 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 565050010041 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 565050010042 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 565050010043 P-loop; other site 565050010044 Magnesium ion binding site [ion binding]; other site 565050010045 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 565050010046 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 565050010047 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 565050010048 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 565050010049 Dienelactone hydrolase family; Region: DLH; pfam01738 565050010050 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 565050010051 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 565050010052 NADP binding site [chemical binding]; other site 565050010053 dimer interface [polypeptide binding]; other site 565050010054 Predicted membrane protein [Function unknown]; Region: COG1981 565050010055 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 565050010056 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 565050010057 C-terminal domain interface [polypeptide binding]; other site 565050010058 active site 565050010059 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 565050010060 active site 565050010061 N-terminal domain interface [polypeptide binding]; other site 565050010062 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 565050010063 substrate binding site [chemical binding]; other site 565050010064 active site