Rifam_00330 : CDS information

Location

Organism	Amycolatopsis mediterranei
Strain	S699
Entry name	Rifamycin
Contig	AF040570
Start / Stop / Direction	74,662 / 75,360 / + [in whole cluster] 74,662 / 75,360 / + [in contig]
Location	74662..75360 [in whole cluster] 74662..75360 [in contig]
Type	CDS
Length	699 bp (232 aa)

Annotation

Category	2.2 modification addition of starter unit
Product	putative hydrolase
Product (GenBank)	RifM
Gene
Gene (GenBank)	rifM
EC number
Keyword	AHBA
Note
Note (GenBank)	putative phosphatase
Reference	ACC O52553 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) [11278540] Mutational analysis and reconstituted expression of the biosynthetic genes involved in the formation of 3-amino-5-hydroxybenzoic acid, the starter unit of rifamycin biosynthesis in amycolatopsis Mediterranei S699. (J Biol Chem. , 2001) [12207505] Characterization of the early stage aminoshikimate pathway in the formation of 3-amino-5-hydroxybenzoic acid: the RifN protein specifically converts kanosamine into kanosamine 6-phosphate. (J Am Chem Soc. , 2002) comment [PMID: 9512878](1998) ansamycin系抗生物質rifamycinの生合成gene clusterの報告。 RifM(232aa): phosphatase --- [PMID: 11278540](2001) rifamycinと関連ansamycinsのPKS starter 3-amino-5-hydroxybenzoic acid (AHBA)の生合成経路について調査。関連遺伝子の不活化、異種性発現、中間体を基質とした反応確認など。 RifM: phosphatase rifMは、PKSのstarter unitであるAHBAの合成に必要十分な7genes(rifG, H, J, K, L, M, N)のひとつだが、rifH, G, Jと異なりshikimate pathway関連遺伝子には似ていない。 rifM mutantの実験から、AHBA生合成の早期段階で作用し、aminoDAHP形成か、それより前で関与することが示唆されている。 --- [PMID: 12207505](2002) A.mediterraneiのrifN mutantは、rifLとrifMのmutant両方を相補してrifamycin B産生を回復することができたので、RifLとRifMは経路においてRifNより前で機能しなくてはいけない。 UDP-kanosamine→kanosamineへ触媒するのがRifMであるというschemaあるが、詳細な根拠なし。
Related Reference	ACC Q9X0Y1 PmId [15808744] Enzyme genomics: Application of general enzymatic screens to discover new enzymes. (FEMS Microbiol Rev. , 2005) comment 479th, id29%, 6e-11 Thermotoga maritima_TM_1254 Phosphorylated carbohydrates phosphatase(EC 3.1.3.-) Phosphatase (substrate = pNPP, erythrose 4P, fructose 6P)活性を確認。

Sequence

>putative hydrolase [RifM]
MTFPIVDRPDTGADPSAPVRHAVIFDLDGVVVDSFAVMSEAFAIAYAEVVGDGPAPFEEY
RRHLGRYFPDIMRIMDLPLEMEEPFVRESYRLAGEVQVFDGVTELLLTLRTRGLRLAIAT
GKSGPRARSLLDNLGLLPFFEHVIGSDEVARPKPAPDIVRHALDLLDVPPEAAIMIGDAP
TDLASARGAGVASAAALWAPPDDIGELLAAGPDVVLRQPADLLALCPSVPGR

>putative hydrolase [RifM]
ATGACATTCCCGATCGTCGACCGGCCGGACACCGGGGCCGATCCCTCGGCACCGGTCCGG
CACGCGGTCATCTTCGACCTCGACGGGGTCGTCGTCGACAGCTTCGCGGTGATGAGCGAG
GCCTTCGCCATCGCCTACGCCGAGGTGGTCGGCGACGGGCCCGCGCCCTTCGAGGAGTAT
CGGCGCCACCTCGGTCGATACTTTCCGGATATCATGCGGATCATGGACCTTCCACTGGAG
ATGGAGGAACCCTTCGTCCGCGAGAGCTACCGCCTCGCCGGCGAAGTCCAGGTCTTCGAC
GGGGTCACCGAGCTGCTCCTGACGCTGCGGACGCGTGGCCTGCGGCTGGCCATCGCCACC
GGCAAGAGCGGGCCGCGGGCCCGGTCCCTGCTCGACAACCTCGGCCTGCTCCCGTTCTTC
GAGCACGTCATCGGCTCCGACGAGGTCGCCCGGCCCAAGCCGGCGCCCGACATCGTGCGC
CACGCGCTGGACCTGCTGGACGTCCCGCCGGAGGCGGCCATCATGATCGGCGACGCCCCC
ACCGACCTGGCCAGCGCCCGAGGCGCCGGCGTCGCGTCGGCCGCCGCGCTGTGGGCGCCC
CCGGACGACATCGGCGAGCTGCTCGCCGCCGGTCCCGACGTGGTGCTGCGACAGCCGGCC
GACCTGCTCGCGCTCTGTCCGTCGGTGCCCGGCCGCTGA

Feature

BLASTP Database:UniProtKB:2011_09	show BLAST table
InterPro Database:interpro:38.0	IPR005833 Haloacid dehalogenase/epoxide hydrolase (Family) PR00413 HADHALOGNASE IPR006351 3-amino-5-hydroxybenzoic acid synthesis-related (Family) TIGR01454 AHBA_synth_RP: AHBA synthesis associated protein IPR006402 HAD-superfamily hydrolase, subfamily IA, variant 3 (Family) TIGR01509 HAD-SF-IA-v3: HAD hydrolase, family IA, variant 3 IPR006439 HAD-superfamily hydrolase, subfamily IA, variant 1 (Family) TIGR01549 HAD-SF-IA-v1: HAD hydrolase, family IA, variant 1 IPR023214 HAD-like domain (Domain) G3DSA:3.40.50.1000 no description SSF56784 HAD-like
SignalP	No significant hit
TMHMM	No significant hit

Rifam_00320 Rifam_00340