Pimar_00090 : CDS information

Location

Organism	Streptomyces natalensis
Strain	ATCC 27448 (=NBRC 13367)
Entry name	Pimaricin
Contig	AJ278573
Start / Stop / Direction	52,684 / 51,653 / - [in whole cluster] 45,940 / 44,909 / - [in contig]
Location	complement(51653..52684) [in whole cluster] complement(44909..45940) [in contig]
Type	CDS
Length	1,032 bp (343 aa)

Annotation

Category	2.3 modification addition of sugar moiety
Product	putative GDP-mannose 4,6-dehydratase putative GDP-D-mannose dehydratase
Product (GenBank)	PimJ protein
Gene	pimJ gmd
Gene (GenBank)	pimJ
EC number	4.2.1.47
Keyword	mycosamine
Note
Note (GenBank)
Reference	ACC Q9EW99 PmId [11094342] A complex multienzyme system encoded by five polyketide synthase genes is involved in the biosynthesis of the 26-membered polyene macrolide pimaricin in Streptomyces natalensis. (Chem Biol. , 2000) comment pimaricin biosynthetic gene clusterの報告。 PimJ: sugar DH PimJは、 Pseudomonas aeruginosaのGDP-mannose 4,6-DH(Q51366)、 E.coliのdTDP-glucose 4,6-DH(P37759)など sugar biosynthesisに関連した酵素に有意な類似性がある。したがって、nucleotide-mannose-like sugarのreductive deoxygenationを触媒することが推測され、pimaricinのsugar moietyであるmycosamine(3-amino-3,6-dideoxy-D-mannose)の形成に関与していると考えられる。
Related Reference	ACC Q9L4X4 NITE Nysta_00040 PmId [17905880] Analysis of the mycosamine biosynthesis and attachment genes in the nystatin biosynthetic gene cluster of Streptomyces noursei ATCC 11455. (Appl Environ Microbiol. , 2007) comment 2nd(Q9L4X4) 85%, 1e-173 [Nysta_00040] Streptomyces noursei_nysDIII GDP-mannose 4,6-dehydratase(EC 4.2.1.47) NysDIIIがGDP-mannose→GDP-4-keto-6-deoxy-D-mannoseへ変換することを反応産物のHPLCで確認している。
	ACC Q6T1X7 PmId [11096116] Identification of two GDP-6-deoxy-D-lyxo-4-hexulose reductases synthesizing GDP-D-rhamnose in Aneurinibacillus thermoaerophilus L420-91T. (J Biol Chem. , 2001) comment 32nd(Q6T1X7) 60%, 1e-109 Aneurinibacillus thermoaerophilus_gmd GDP-mannose 4,6-dehydratase(EC 4.2.1.47) GDP-d-mannose dehydratase (Gmd) converted GDP-d-mannose to GDP-6-deoxy-d-lyxo-4-hexulose, with NADP+ as cofactor. Gmd and Rmd (GDP-6-deoxy-d-lyxo-4-hexulose reductase) required for biosynthesis of the nucleotide-activated precursor GDP-d-rhamnose.
	ACC P93031 PmId [9050909] The MUR1 gene of Arabidopsis thaliana encodes an isoform of GDP-D-mannose-4,6-dehydratase, catalyzing the first step in the de novo synthesis of GDP-L-fucose. (Proc Natl Acad Sci U S A. , 1997) [12881408] Interaction of GDP-4-keto-6-deoxymannose-3,5-epimerase-4-reductase with GDP-mannose-4,6-dehydratase stabilizes the enzyme activity for formation of GDP-fucose from GDP-mannose. (Glycobiology. , 2003) comment 125th(P93031) 51%, 6e-93 Arabidopsis thaliana_MUR1 GDP-mannose 4,6 dehydratase 2(EC 4.2.1.47) -- [PMID: 9050909] The mur1 mutant is deficient in L-fucose. The recombinant protein (expressed in E. coli) exhibited GDP-D-mannose-4,6-dehydratase activity in vitro. -- [PMID: 12881408] yeastでAtFX/GER1(GDP-L-fucose synthase), MUR1 genesを発現させると、GDP-fucose合成。 MUR1のみで発現させると、GDP-Man 4,6-dehydratase活性確かめられず。 --> AtFX/GER1は、MUR1 proteinがactive formになることにも関与している、と推測。

Sequence

>putative GDP-mannose 4,6-dehydratase [PimJ protein]
MSKRALITGITGQDGSYLAEHLLAQGYQVWGLIRGQANPRKSRVSRLVSELSFVDGDLMD
QSSLCSAVDKVQPDEIYNLGAISFVPMSWQQPELVTEINGMGVLRMLEAIRMVSGLNGSR
SDGGGQIRFYQASSSEMFGKVAETPQRETTIFRPRSPYGVAKTYGHFITRNYRESFGMYA
VSGMLFNHESPRRGAEFVTRKISLAVARIKLGYQDKLSLGNLDAVRDWGFAGDYVRAMHL
MLQQDEPGDYVIGTGEMHSVRDAVRIAFEHVGLNWEDYVSIDPSLVRPAEVEILCADAER
ARTQLGWEPSVDFPELMRMMVDSDLRQASREREYGDLLLAASW

>putative GDP-mannose 4,6-dehydratase [PimJ protein]
ATGTCCAAGCGTGCGCTGATCACCGGAATCACCGGGCAGGACGGCTCCTATCTGGCCGAG
CACCTGCTCGCCCAGGGGTACCAGGTATGGGGTCTGATACGAGGTCAGGCGAACCCCAGG
AAGTCGAGGGTCAGCCGGCTGGTGTCCGAACTGTCCTTCGTCGACGGCGACTTGATGGAC
CAGTCCAGCCTGTGCTCCGCCGTCGACAAGGTGCAGCCCGACGAGATCTACAACCTCGGT
GCGATCTCCTTCGTACCGATGTCCTGGCAGCAGCCCGAACTCGTCACCGAGATCAACGGC
ATGGGCGTCCTGCGCATGCTGGAGGCGATCCGCATGGTCAGCGGGCTGAACGGCTCCCGG
AGTGACGGCGGCGGCCAGATCCGGTTCTACCAGGCGTCCTCGTCGGAGATGTTCGGCAAG
GTCGCCGAGACCCCGCAGCGCGAGACCACGATCTTCCGCCCGCGCAGCCCCTACGGCGTG
GCGAAGACCTACGGGCACTTCATCACCCGCAACTACCGTGAGTCGTTCGGTATGTACGCG
GTCTCCGGGATGCTGTTCAACCACGAATCCCCGCGCCGTGGTGCGGAGTTCGTGACCCGG
AAGATCTCCCTCGCGGTGGCCCGTATCAAGCTCGGCTACCAGGACAAGCTGTCCCTGGGA
AACCTCGACGCCGTACGCGACTGGGGCTTCGCCGGCGACTACGTCCGTGCCATGCATCTG
ATGCTGCAACAGGACGAGCCGGGCGACTATGTGATCGGGACCGGCGAGATGCACTCGGTC
CGCGACGCCGTCCGCATCGCCTTCGAGCATGTGGGCCTGAACTGGGAGGACTACGTCAGC
ATCGACCCCTCGCTGGTGCGCCCGGCCGAGGTGGAGATCCTGTGCGCGGACGCCGAGCGC
GCCCGCACCCAGCTGGGCTGGGAGCCCAGCGTCGACTTCCCCGAACTGATGCGCATGATG
GTCGACTCCGACCTGCGCCAGGCATCCCGCGAGCGGGAGTACGGGGACCTGCTGCTGGCG
GCCAGCTGGTAG

Feature

BLASTP Database:UniProtKB:2011_09	show BLAST table
InterPro Database:interpro:38.0	IPR001509 NAD-dependent epimerase/dehydratase (Domain) PF01370 Epimerase IPR016040 NAD(P)-binding domain (Domain) G3DSA:3.40.50.720 NAD(P)-bd
SignalP	No significant hit
TMHMM	No significant hit

Pimar_00080 Pimar_00100