Rifam_00540 : CDS information

Location

Organism	Amycolatopsis mediterranei
Strain	S699
Entry name	Rifamycin
Contig	AF040570
Start / Stop / Direction	96,813 / 96,034 / - [in whole cluster] 96,813 / 96,034 / - [in contig]
Location	complement(96034..96813) [in whole cluster] complement(96034..96813) [in contig]
Type	CDS
Length	780 bp (259 aa)

Annotation

Category	1.4 Other
Product	type II thioesterase
Product (GenBank)	RifR
Gene
Gene (GenBank)	rifR
EC number
Keyword	type II thioesterase
Note
Note (GenBank)	putative thioesterase; similar to the thioesterase of Streptomyces fradiae (strain T59235)
Reference	ACC Q7BUF9 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) [10908112] Thioesterases and the premature termination of polyketide chain elongation in rifamycin B biosynthesis by Amycolatopsis mediterranei S699. (J Antibiot (Tokyo). , 2000) [19103602] Structure and functional analysis of RifR, the type II thioesterase from the rifamycin biosynthetic pathway. (J Biol Chem. , 2009) comment [PMID: 9512878](1998) ansamycin系抗生物質rifamycinの生合成gene clusterの報告。 Orf12(252aa): thioesterase -- [PMID: 10908112](2000) rifamycin PKSが容易に未熟なpolyketide鎖中間体を放出することについて検討。 RifR thioesterase 2はこれに関与しない。未熟な中間体の放出はRif PKS自身の特性である。正常なunitで伸長しているけど未熟なまま放出される場合の話。 -- [PMID: 19103602](2009) orf12=rifR RifRは、acyl-CoAsよりもacyl carrier domainのphosphopantetheinyl armからのacyl unitsを加水分解する(Steady-state kinetics)。 helical lidの運動が、RifR active siteへの基質のアクセスを調節する(立体構造解析)。 RifRがCoA基質よりACP基質への反応を好むことは、type II thioesteraseがcarrier domainsから異常unitsを除くようなhousekeeping functionsをすると考えられていることに一致する。

Sequence

>type II thioesterase [RifR]
MHRPEAEKWLRRFERAPDARARLVCLPHAGGSASFFFPLAKALAPAVEVLAVQYPGRQDR
RHEPPVDSIGGLTNRLLEVLRPFGDRPLALFGHSMGAIIGYELALRMPEAGLPAPVHLFA
SGRRAPSRYRDDDVRGASDERLVAELRKLGGSDAAMLADPELLAMVLPAIRSDYRAVETY
RHEPGRRVDCPVTVFTGDHDPRVSVGEARAWEEHTTGPADLRVLPGGHFFLVDQAAPMIA
TMTEKLAGPALTGSTGGNS

>type II thioesterase [RifR]
GTGCACCGACCAGAAGCCGAGAAGTGGTTGCGCCGTTTCGAACGGGCACCGGACGCGCGA
GCCCGGCTCGTGTGCCTGCCCCACGCCGGCGGCTCGGCCAGCTTCTTCTTCCCGCTCGCC
AAGGCCCTCGCTCCCGCGGTGGAGGTCCTGGCGGTCCAGTACCCGGGCCGCCAGGACCGG
CGGCACGAGCCGCCCGTCGACAGCATCGGCGGGCTGACGAACCGGCTGCTGGAGGTGCTG
CGCCCGTTCGGCGACCGGCCGCTGGCGTTGTTCGGGCACAGCATGGGCGCGATCATCGGC
TACGAACTGGCGTTGCGGATGCCCGAAGCCGGGCTGCCCGCGCCGGTGCACCTGTTCGCG
TCCGGGCGGCGGGCGCCCTCGCGCTACCGCGACGACGACGTGCGCGGCGCGTCGGACGAA
CGGCTCGTAGCCGAGCTGCGGAAGCTCGGCGGTTCCGACGCGGCCATGCTCGCCGACCCC
GAACTGCTGGCCATGGTCCTGCCCGCGATCCGCAGCGACTACCGCGCGGTGGAGACCTAC
CGGCACGAGCCCGGACGGCGGGTGGACTGCCCCGTCACGGTGTTCACCGGCGACCACGAT
CCGCGCGTGTCGGTCGGCGAAGCCCGCGCCTGGGAAGAGCACACCACCGGGCCGGCCGAC
CTGCGGGTGCTGCCGGGCGGTCACTTCTTCCTGGTGGACCAGGCCGCCCCGATGATCGCG
ACGATGACGGAGAAGCTGGCCGGCCCCGCGCTGACCGGATCCACGGGAGGGAACTCGTGA

Feature

BLASTP Database:UniProtKB:2011_09	show BLAST table
InterPro Database:interpro:38.0	IPR001031 Thioesterase (Domain) PF00975 Thioesterase
SignalP	No significant hit
TMHMM	No significant hit

Rifam_00530 Rifam_00550