Rifam_00570 Rifam_00570   Rifam_00590 Rifam_00590

Rifam_00580 : CDS information

close this sectionLocation

Organism
StrainS699
Entry nameRifamycin
Contig
Start / Stop / Direction99,890 / 100,801 / + [in whole cluster]
99,890 / 100,801 / + [in contig]
Location99890..100801 [in whole cluster]
99890..100801 [in contig]
TypeCDS
Length912 bp (303 aa)
Click on the icon to see Genetic map.

close this sectionAnnotation

Category3.4 other modification
Productputative transketolase(fragment)
Product (GenBank)putative transketolase B subunit
Gene
Gene (GenBank)
EC number
Keyword
Note
Note (GenBank)
  • ORF15B
Reference
ACC
PmId
[9512878] Biosynthesis of the ansamycin antibiotic rifamycin: deductions from the molecular analysis of the rif biosynthetic gene cluster of Amycolatopsis mediterranei S699. (Chem Biol. , 1998)
comment
ansamycin系抗生物質rifamycinの生合成gene clusterの報告。
Orf15(590aa): transketolase

この論文ではorf15というひとつのORFとして述べられている。
Orf15は異なる生物のtransketolasesに良く似ている。

--
kanosamine合成経路についての論文[PMID: 12207505]では、aminoF6P→iminoE4Pへの触媒をOrf15が担うかもしれないと言っている。
Related Reference
ACC
D8HZB7
PmId
[20567260] Complete genome sequence of the rifamycin SV-producing Amycolatopsis mediterranei U32 revealed its genetic characteristics in phylogeny and metabolism. (Cell Res. , 2010)
[21986914] Two genes, rif15 and rif16, of the rifamycin biosynthetic gene cluster in Amycolatopsis mediterranei likely encode a transketolase and a P450 monooxygenase, respectively, both essential for the conversion of rifamycin SV into B. (Acta Biochim Biophys Sin (Shanghai). , 2011)
comment
blast search
Rifam_00580: 99.67%, 7e-175

Amycolatopsis mediterranei (strain U-32)_AMED_0652
Transketolase C-terminal subunit

---
[PMID:20567260](2010)
rifamycin SV → rifamycin Bへの変換にはCYP450が必須。
rifamycin SV産生株U32では、CYP450をコードするAMED_0653にR84Wのmissense変異あり。

この反応はtransketolases AMED_0651 and AMED_0652が一緒に触媒するかもしれない。

---
[PMID:21986914](2011)
同じ著者らの続報。
中間体 rifamycin SV → 最終産物 rifamycin Bへの変換には、これまでにわかっているCYP450(rif16がコード)の他に、putative transketolase(rif15がコード)も必須であることを遺伝学的に証明。

A. mediterranei U32のrif cluster null mutantにおけるrif15 and rif16の発現で、rifamycin SV → B へ変換可能。しかし、このRif15 and Rif16が媒介する変換はStreptomyce coelicolor or Mycobacterium smegmatisでは検出されなかったので、A. mediterranei内に未同定の必須遺伝子があると示唆される。
Family/Domain
FD
IPR005475
comment
[IPR005475] Transketolase-like, pyrimidine-binding domain (Domain)

close this sectionSequence

selected fasta
>putative transketolase(fragment) [putative transketolase B subunit]
MTAQVTRKQMRTVFAETVIESLATDPRVVMLTADISSWFFWEVKKDFPDRVHNFGIREQA
MIDIAGGFALAGQRPVVHTYAPFLVERPFEQIKIGLGHQDVGAVLVSVGASYDDPSWGRT
HQAPGDVALLDTLPGWTVHVPGHEDEVAPLLSKAIAGDNRVYVRLSERANSEAVPVSEKF
TVLRRGKAGVVLAVGPVLDQVLAATATADVTVLYASTIRPFDHAGLREAVAAAAPNVVLV
DPYLRGTSAFEVTEALGDVPHRLRSFGTWRDREARVYGTPEEHDRLFGVDAESLADSIAR
FVG
selected fasta
>putative transketolase(fragment) [putative transketolase B subunit]
ATGACCGCCCAGGTGACCAGGAAGCAGATGCGGACCGTCTTCGCCGAGACGGTGATCGAG
TCGCTGGCCACGGACCCGCGCGTGGTCATGCTGACCGCCGACATCTCGTCGTGGTTCTTC
TGGGAGGTCAAGAAGGACTTCCCGGACCGCGTCCACAACTTCGGCATCCGCGAGCAGGCG
ATGATCGACATCGCCGGCGGCTTCGCGCTGGCCGGCCAGCGGCCGGTGGTGCACACGTAC
GCGCCGTTCCTGGTCGAGCGGCCGTTCGAGCAGATCAAGATCGGCCTCGGCCACCAGGAC
GTCGGCGCGGTGCTGGTCAGCGTGGGCGCCTCCTACGACGACCCGTCGTGGGGCCGCACC
CACCAGGCCCCGGGCGACGTGGCGCTGCTGGACACGCTGCCGGGCTGGACGGTGCACGTC
CCGGGCCACGAGGACGAGGTCGCGCCCCTGCTGAGCAAGGCCATCGCGGGTGACAACCGG
GTCTACGTCCGGCTGTCCGAACGCGCGAACAGCGAAGCGGTGCCGGTGTCGGAGAAGTTC
ACGGTGCTGCGCCGGGGCAAGGCGGGCGTGGTGCTCGCGGTCGGCCCGGTGCTGGACCAG
GTCCTGGCGGCCACGGCCACGGCGGACGTGACGGTGCTGTACGCCTCGACGATCCGCCCG
TTCGACCACGCGGGCCTCCGGGAGGCGGTGGCCGCGGCGGCCCCGAACGTGGTGCTGGTC
GACCCGTACCTGCGCGGGACGTCGGCGTTCGAGGTGACCGAGGCTCTGGGAGACGTCCCG
CACCGCCTGCGCTCGTTCGGAACCTGGCGCGACCGCGAAGCCCGCGTCTACGGAACGCCC
GAGGAACACGACCGCCTGTTCGGCGTGGACGCCGAGTCGCTGGCGGATTCGATCGCCCGC
TTCGTCGGCTGA

close this sectionFeature

BLASTP
Database:UniProtKB:2011_09 		show BLAST table
InterPro
Database:interpro:38.0
IPR005475 Transketolase-like, pyrimidine-binding domain (Domain)
[8-169] 6.00000000000001e-28 PF02779
PF02779   Transket_pyr
[8-173] 7.60000011115812e-25 SM00861
SM00861   Transket_pyr
IPR009014 Transketolase, C-terminal/Pyruvate-ferredoxin oxidoreductase, domain II (Domain)
[172-303] 5.90000104995095e-13 SSF52922
SSF52922   Transketo_C_like
IPR015941 Transketolase-like, C-terminal (Domain)
[180-299] 3.3e-07 G3DSA:3.40.50.920
G3DSA:3.40.50.920   Transketo_C_like
SignalP
[1-15] 0.207 Signal
Bacteria, Gram-negative   
TMHMM No significant hit
Rifam_00570 Rifam_00570   Rifam_00590 Rifam_00590
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