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CDS information : Rifam_00240


close this sectionLocation

Organism
StrainS699
Entry nameRifamycin
Contig
Start / Stop / Direction52,544 / 57,730 / + [in whole cluster]
52,544 / 57,730 / + [in contig]
Location52544..57730 [in whole cluster]
52544..57730 [in contig]
TypeCDS
Length5,187 bp (1,728 aa)
Click on the icon to see Genetic map.

close this sectionAnnotation

Category1.1 PKS
Productpolyketide synthase
Product (GenBank)RifD
Gene
Gene (GenBank)rifD
EC number
Keyword
Note
Note (GenBank)
  • rifamycin polyketide synthase
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)
[10430893] Direct evidence that the rifamycin polyketide synthase assembles polyketide chains processively. (Proc Natl Acad Sci U S A. , 1999)

close this sectionPKS/NRPS Module

8 methylmalonyl-CoA
KS34..410
AT563..879
dh911..1107
KR1300..1475
ACP1575..1645

close this sectionSequence

selected fasta
>polyketide synthase [RifD]
MADEGQLRDYLKRAIADARDARTRLREVEEQAREPIAIVAMACRYPGGVSSPEDLWRLVA
EGTDAVSAFPGDRGWDVDGLVDPDPDRPGTTYTDQGGFLHEAGLFDAGFFGISPREAVAM
DPQQRLLLETSWEAIERTGTDPLSLKGSDIGVFTGVASMGYGAGGGVVAPELEGFVGTGA
APCIASGRVSYVLGFEGPAVTVDTGCSSSLVAMHLAAQALRRGECSMALAGGAMVMAQPG
SFVSFSRQRGLALDGRCKAFSDSADGMGLAEGVGVIALERLSVARERGHRVLAVLRGIAV
NQDGASNGLTAPNGPSQQRVIRAALAEAGLSPSDVDAVEGHGTGTTLGDPIEAQALLATY
GKGRDPEKPLWLGSVKSNLGHTQAAAGVASVIKMVQALRHGVLPPTLHVDRPSTEVDWSA
GAVSLLTEAREWPREGRPRRAGVSSFGISGTNAHLILEEAPEEEPPVAEAPSAGVVPVVV
SARGALAGQAGRLAAFLEASDEPLVTVAGALICGRSRFGDRAVVVAGTRAEATAGLAALA
RGESAADVVTGTVAASGVPGKLVWVFPGQGSQWVGMGRELLEASPVFAARIAECAAALEP
WIDWSLLDVLRGEGDLDRVDVVQPASFAVMVGLAAVWSSVGVVPDAVLGHSQGEIAAACV
SGALSLQDAAKVVALRSQAIAAKLAGRGGMASVALSEEDAVARLRHWADRVEVAAVNSPS
SVVIAGDAEALDQALEALTGQDIRVRRVAVDYASHTRHVEDIQEPLAEALAGIEAHAPTL
PFFSTLTGDWIREAGVVDGGYWYRNLRNQVGFGPAVAELLGLGHRVFVEVSAHPVLVQAI
SAIADDTDAVVTGSLRREEGGLRRLLTSMAELFVRGVDVDWATMVPPARVDLPTYAFDHQ
HYWLRYVETATDAAGPVVRLPQTGGLVFTTEWSLKSQPWLAEHTLEDLVVVPGAALVELA
VRAGDEAGTPVLDELVIETPLVVPERGAIRVQVTVSGPDDGTRTLEVHSQPEDATDEWTR
HATGTLSATPDESSGFDFTAWPPPGARQLDGVPAIWRAGDEIFAEVSLPDDADAEAFGIH
PALLDAALHPALPGDDGLTQPMEWRGLTLHAAGASTLRVRLVPGGFLEAADGAGSLVVTA
KEVALRPVTIARSRTTTRDSLFQLNWIELPESGVVAAADDTEVLEVPAGDSPLAATSRVL
ERLQTWLTEPEAEQLVVVTRGAVPAGDTPVTDPAAAAVWGLVRSAQAENPDRIVLLDTDG
EVPLGAVLAGGEPQVAVRGTALYVPRLARADAAPVSGLHGTVLVSGAGVLGEIVARHLVT
RHGVRKLVLASRRGLDADGAKDLVTDLTGEGADVSVVACDLADRNQVAALLADHRPASVI
HTAGVLDDGVIGTLTPERLAKVFAPKVDAVRHLDELTRDLDLDAFVVFSSGSGVFGSPGQ
GNYAAANAFLDAAMASRRAAGLPGLSLAWGLWEQATGMTAHLGGTDQARMSRGGVRPITA
EEGMALFDTALGAQPALLVPVKLDLREVRAGGAVPHLLRGLVRAGRRQAQAASTVDNQLL
GRLAGLGAPEQEALLVDLVRGQVAAVLGHAGPDAVRADTAFKDAGFDSLTSVDLRNRLRE
STGLKLPATLAFDYPTPLVLARHLRDELGAGDDALSVVHARLEDVEALLGGLRLDESTKT
GLTLRLQGLVARCNGVNDQTGGETLADRLEAASADEVLDFIDEELGLT
selected fasta
>polyketide synthase [RifD]
GTGGCTGACGAGGGACAACTCCGCGACTACCTCAAGCGGGCCATCGCCGACGCCCGCGAC
GCCCGCACGCGGCTGCGCGAGGTCGAGGAGCAGGCGCGGGAGCCGATCGCCATCGTCGCC
ATGGCGTGCCGGTACCCGGGCGGGGTGTCCTCGCCCGAGGACCTGTGGCGGCTGGTGGCC
GAGGGGACCGACGCCGTCTCCGCGTTCCCCGGCGACCGCGGCTGGGACGTCGACGGGCTC
GTCGACCCGGACCCCGACCGCCCGGGCACGACGTACACGGACCAGGGTGGCTTCCTCCAC
GAGGCCGGCCTCTTCGACGCGGGGTTCTTCGGGATCTCGCCGCGGGAGGCCGTCGCGATG
GACCCGCAGCAGCGGCTGCTGCTGGAGACGTCCTGGGAGGCCATCGAACGCACCGGCACC
GACCCGCTTTCGCTGAAGGGCAGCGACATCGGCGTCTTCACCGGCGTCGCGAGCATGGGT
TACGGCGCCGGTGGCGGCGTGGTCGCGCCGGAGCTGGAGGGTTTCGTCGGCACCGGTGCG
GCGCCGTGCATCGCGTCCGGCCGGGTGTCGTACGTCCTCGGCTTCGAAGGCCCGGCGGTC
ACCGTCGACACCGGGTGTTCGTCGTCGCTGGTGGCGATGCACCTCGCCGCGCAGGCGCTG
CGGCGGGGTGAGTGCTCGATGGCTCTGGCCGGCGGCGCGATGGTGATGGCCCAGCCGGGT
TCGTTCGTGTCCTTCTCGCGGCAACGCGGGCTCGCCCTGGACGGGCGCTGCAAGGCGTTT
TCGGACAGCGCCGACGGGATGGGACTGGCCGAGGGCGTCGGCGTCATCGCGCTGGAACGG
CTGTCGGTCGCCCGTGAGCGTGGGCACCGGGTGCTGGCCGTGCTGCGCGGTATCGCGGTG
AACCAGGATGGCGCGTCGAACGGCTTGACCGCCCCGAACGGCCCGTCCCAGCAGCGGGTG
ATCCGCGCCGCGCTGGCCGAAGCCGGGCTGTCGCCGTCCGATGTGGACGCCGTCGAAGGG
CACGGGACGGGCACGACGCTGGGCGATCCGATCGAAGCGCAGGCGTTGCTGGCCACCTAC
GGCAAGGGCCGGGACCCGGAGAAGCCGCTCTGGCTGGGCTCGGTGAAGTCGAACCTCGGG
CACACGCAAGCGGCCGCGGGCGTGGCCAGCGTGATCAAGATGGTGCAGGCGCTGCGCCAC
GGCGTGCTGCCCCCGACGCTGCACGTCGACCGGCCGTCCACCGAAGTCGACTGGTCGGCC
GGTGCGGTCTCGCTGTTGACGGAGGCTCGGGAGTGGCCGCGCGAAGGGCGGCCGCGCCGG
GCCGGGGTGTCCTCGTTCGGGATCAGCGGGACCAACGCGCACCTCATCCTGGAGGAAGCG
CCCGAGGAGGAGCCGCCCGTCGCCGAAGCGCCTTCCGCCGGAGTGGTGCCCGTGGTGGTG
TCGGCTCGTGGGGCCCTGGCGGGTCAGGCCGGCCGGCTGGCCGCGTTCCTCGAGGCGTCC
GACGAGCCGTTGGTGACCGTCGCCGGGGCGCTGATCTGCGGCCGGTCCCGGTTCGGCGAC
CGGGCCGTCGTGGTGGCGGGCACGCGCGCAGAGGCGACGGCCGGGCTGGCCGCGCTGGCC
CGCGGCGAAAGCGCCGCCGACGTCGTGACCGGCACGGTCGCGGCCTCGGGCGTGCCGGGC
AAGCTCGTGTGGGTGTTCCCGGGCCAGGGTTCGCAGTGGGTGGGCATGGGCCGGGAGCTC
CTCGAAGCCTCGCCGGTGTTCGCCGCGCGGATCGCGGAGTGCGCGGCTGCCCTCGAACCG
TGGATCGACTGGTCGCTGCTGGACGTCCTCCGTGGCGAGGGCGACCTCGACCGCGTCGAC
GTGGTGCAGCCCGCGAGTTTCGCGGTGATGGTCGGCCTGGCCGCGGTGTGGTCGTCCGTC
GGGGTGGTGCCCGACGCGGTGCTCGGGCACTCGCAGGGGGAGATCGCGGCGGCGTGCGTG
TCGGGGGCGTTGTCGCTGCAGGACGCGGCGAAGGTGGTCGCGTTGCGCAGCCAGGCGATC
GCGGCGAAGCTGGCCGGCCGCGGCGGCATGGCCTCGGTCGCGCTGAGCGAGGAAGACGCG
GTCGCGCGGTTGCGGCACTGGGCGGACCGGGTCGAGGTGGCCGCGGTCAACAGCCCGTCG
TCGGTGGTGATCGCCGGCGACGCCGAAGCCCTCGACCAGGCCCTCGAAGCACTGACCGGC
CAGGACATCCGGGTCCGGCGGGTGGCGGTGGACTACGCCTCGCACACCCGGCACGTCGAA
GACATCCAGGAGCCCCTCGCCGAGGCACTGGCCGGGATCGAGGCGCACGCGCCGACCCTG
CCGTTCTTCTCGACCCTCACCGGTGACTGGATTCGCGAAGCGGGCGTCGTGGACGGCGGC
TACTGGTACCGGAACCTGCGCAACCAGGTCGGTTTCGGCCCGGCGGTGGCCGAGCTGCTC
GGCCTCGGCCACCGGGTGTTCGTCGAGGTCAGCGCGCACCCCGTGCTCGTCCAGGCGATC
AGCGCGATTGCCGACGACACCGACGCGGTCGTCACCGGCTCGCTGCGGCGCGAGGAGGGC
GGCCTGCGGCGGCTGCTGACGTCGATGGCCGAGCTGTTCGTCCGCGGAGTCGACGTGGAC
TGGGCCACGATGGTGCCGCCAGCGCGGGTCGATTTGCCGACCTACGCCTTCGACCACCAG
CACTACTGGCTGCGGTACGTCGAGACCGCGACCGACGCGGCCGGTCCGGTGGTCCGGCTG
CCGCAGACGGGCGGCCTGGTCTTCACCACCGAGTGGTCGCTGAAGTCACAGCCGTGGCTG
GCCGAGCACACCCTGGAAGACCTGGTCGTCGTCCCCGGCGCGGCACTGGTCGAGCTGGCC
GTCCGGGCCGGTGACGAGGCCGGGACCCCGGTGCTGGACGAACTCGTCATCGAGACGCCC
CTGGTCGTGCCGGAACGCGGCGCGATCCGGGTGCAGGTCACGGTGAGCGGACCGGACGAC
GGCACACGGACCCTGGAAGTGCATTCCCAGCCCGAAGACGCCACCGACGAATGGACCCGG
CACGCCACCGGCACGCTGTCGGCGACCCCGGACGAAAGCAGCGGGTTCGACTTCACGGCC
TGGCCGCCCCCGGGCGCCCGGCAGCTCGACGGCGTTCCGGCGATCTGGCGGGCCGGCGAC
GAGATCTTCGCCGAAGTCTCCCTGCCCGACGATGCGGACGCCGAGGCATTCGGCATCCAC
CCCGCGCTCCTGGACGCGGCCCTGCACCCCGCCCTGCCCGGCGATGACGGTCTGACGCAG
CCCATGGAATGGCGTGGCCTGACGCTGCACGCCGCGGGGGCGTCGACGCTGCGGGTCCGG
TTGGTGCCCGGCGGGTTCCTGGAAGCGGCCGACGGCGCCGGCAGCCTGGTCGTCACGGCG
AAGGAGGTTGCCCTCCGCCCGGTGACGATCGCGCGGTCGCGCACCACCACCCGAGACTCG
CTGTTCCAGCTGAACTGGATCGAGCTGCCCGAGAGTGGCGTGGTGGCCGCGGCAGACGAC
ACCGAGGTGCTGGAGGTGCCCGCGGGCGATTCCCCGCTGGCGGCGACCTCCCGAGTCTTG
GAGCGGCTCCAGACCTGGCTGACCGAGCCCGAGGCGGAACAGCTGGTCGTCGTGACGCGC
GGCGCGGTGCCCGCCGGGGACACCCCGGTGACCGACCCGGCCGCGGCGGCGGTCTGGGGC
CTGGTCCGGTCCGCGCAGGCGGAGAACCCGGACCGGATCGTCCTGCTCGACACCGACGGC
GAAGTCCCGCTGGGTGCGGTGCTGGCCGGCGGCGAGCCGCAGGTCGCGGTGCGCGGCACG
GCGCTGTACGTCCCGCGCCTGGCCCGCGCCGACGCGGCCCCGGTATCCGGTCTACATGGG
ACGGTCCTCGTCTCCGGTGCCGGTGTGCTCGGCGAGATCGTGGCGCGGCACCTGGTCACC
CGCCACGGCGTGCGCAAGCTGGTGCTCGCCAGCCGCCGCGGCCTGGACGCCGACGGCGCG
AAGGACCTCGTCACCGACCTCACCGGCGAGGGCGCGGACGTGTCCGTCGTCGCCTGCGAC
CTGGCCGATCGGAACCAGGTGGCCGCGCTGCTGGCCGACCACCGCCCGGCGAGCGTCATC
CACACGGCGGGCGTCCTCGACGACGGCGTCATCGGGACGCTGACCCCGGAGCGGCTGGCC
AAGGTGTTCGCGCCCAAGGTCGACGCGGTCCGCCATCTCGACGAGCTGACTCGCGACCTC
GACCTCGACGCGTTCGTCGTGTTCTCCTCCGGCTCCGGCGTGTTCGGTTCGCCGGGGCAG
GGCAACTACGCGGCGGCGAACGCGTTCCTGGACGCGGCGATGGCGAGCCGCCGCGCGGCG
GGTCTTCCTGGTCTCTCGCTGGCGTGGGGCCTGTGGGAACAGGCCACCGGCATGACCGCG
CACCTCGGCGGCACCGACCAGGCCCGGATGAGCCGGGGCGGGGTGCGGCCGATCACGGCC
GAGGAAGGCATGGCCCTGTTCGACACGGCACTGGGTGCGCAGCCCGCGCTGCTCGTGCCG
GTCAAGCTCGACCTGCGGGAGGTGCGGGCCGGCGGGGCCGTGCCGCACCTGCTGCGCGGG
CTGGTCCGGGCCGGGCGGCGGCAGGCCCAAGCCGCGTCCACAGTGGACAACCAGCTGCTG
GGCCGGCTGGCCGGGCTGGGCGCGCCCGAGCAGGAGGCGCTGCTCGTCGACCTCGTGCGC
GGCCAGGTCGCGGCGGTGCTCGGGCACGCCGGGCCGGACGCGGTCCGCGCCGACACGGCG
TTCAAGGACGCCGGGTTCGACTCGCTCACCTCGGTCGACCTGCGCAACCGGCTGCGGGAG
AGCACCGGGCTGAAGCTGCCCGCCACGCTCGCCTTCGACTACCCGACCCCGCTGGTCCTC
GCCCGGCACCTGCGTGACGAGCTCGGGGCCGGCGACGACGCGCTTTCGGTGGTGCACGCG
CGGCTCGAAGACGTCGAGGCGCTGCTCGGCGGGCTGCGCCTCGACGAATCCACGAAGACC
GGTCTCACCCTCCGGCTGCAGGGCCTGGTCGCCCGGTGCAACGGCGTGAACGACCAGACC
GGCGGCGAAACGCTGGCGGACCGGCTCGAGGCCGCGTCCGCCGACGAAGTCCTCGACTTC
ATCGACGAGGAGCTGGGTCTCACCTGA
[8] KS34..410
[8] AT563..879
[8] methylmalonyl-CoA752..756
[8] dh911..1107
[8] KR1300..1475
[8] ACP1575..1645
[8] KS100..1230
[8] AT1687..2637
[8] methylmalonyl-CoA2254..2268
[8] dh2731..3321
[8] KR3898..4425
[8] ACP4723..4935

close this sectionFeature

BLASTP
Database:UniProtKB:2011_09
show BLAST table
InterPro
Database:interpro:38.0
IPR001227 Acyl transferase domain (Domain)
 [751-867]  1.9e-71 G3DSA:3.40.366.10
G3DSA:3.40.366.10   no description
IPR006162 Phosphopantetheine attachment site (PTM)
 [1603-1618]  PS00012
PS00012   PHOSPHOPANTETHEINE
IPR009081 Acyl carrier protein-like (Domain)
 [1578-1644]  4.2e-11 PF00550
PF00550   PP-binding
 [1566-1652]  4.6e-22 SSF47336
SSF47336   ACP-like
 [1575-1645]  19.819 PS50075
PS50075   ACP_DOMAIN
 [1575-1649]  7.5e-20 G3DSA:1.10.1200.10
G3DSA:1.10.1200.10   no description
IPR013968 Polyketide synthase, KR (Domain)
 [1300-1474]  3e-54 PF08659
PF08659   KR
IPR014030 Beta-ketoacyl synthase, N-terminal (Domain)
 [34-283]  4.2e-90 PF00109
PF00109   ketoacyl-synt
IPR014031 Beta-ketoacyl synthase, C-terminal (Domain)
 [292-410]  2e-49 PF02801
PF02801   Ketoacyl-synt_C
IPR014043 Acyl transferase (Domain)
 [563-879]  3.2e-102 PF00698
PF00698   Acyl_transf_1
IPR015083 Polyketide synthase, docking (Domain)
 [1-27]  3.6e-10 PF08990
PF08990   Docking
 [4-34]  3.6e-07 SSF101173
SSF101173   Docking domain B of the erythromycin polyketide synthase (DEBS)
IPR016035 Acyl transferase/acyl hydrolase/lysophospholipase (Domain)
 [561-862]  5.8e-67 SSF52151
SSF52151   FabD/lysophospholipase-like
IPR016036 Malonyl-CoA ACP transacylase, ACP-binding (Domain)
 [686-751]  1.9e-19 SSF55048
SSF55048   Probable ACP-binding domain of malonyl-CoA ACP transacylase
IPR016038 Thiolase-like, subgroup (Domain)
 [36-296]  7.8e-83 G3DSA:3.40.47.10 [297-464]  9.9e-67 G3DSA:3.40.47.10
G3DSA:3.40.47.10   no description
IPR016039 Thiolase-like (Domain)
 [26-408]  1e-99 SSF53901
SSF53901   Thiolase-like
IPR016040 NAD(P)-binding domain (Domain)
 [1301-1507]  3.2e-29 G3DSA:3.40.50.720
G3DSA:3.40.50.720   no description
IPR018201 Beta-ketoacyl synthase, active site (Active_site)
 [197-213]  PS00606
PS00606   B_KETOACYL_SYNTHASE
IPR020801 Polyketide synthase, acyl transferase domain (Domain)
 [565-859]  1.5e-118 SM00827
SM00827   Acyl transferase domain in polyketide syntha
IPR020806 Polyketide synthase, phosphopantetheine-binding domain (Domain)
 [1576-1648]  8.8e-31 SM00823
SM00823   Phosphopantetheine attachment site
IPR020807 Polyketide synthase, dehydratase domain (Domain)
 [911-1107]  9.1e-49 SM00826
SM00826   no description
IPR020841 Polyketide synthase, beta-ketoacyl synthase domain (Domain)
 [36-462]  5.5e-207 SM00825
SM00825   Beta-ketoacyl synthase
IPR020842 Polyketide synthase/Fatty acid synthase, KR (Domain)
 [1300-1475]  2.3e-49 SM00822
SM00822   no description
SignalP No significant hit
TMHMM No significant hit