Dynm_00170 Dynm_00170   Dynm_00190 Dynm_00190

Dynm_00180 : CDS information

close this sectionLocation

Organism
StrainATCC 53710 (=NBRC 15963)
Entry nameDynemicin
Contig
Start / Stop / Direction26,849 / 32,551 / + [in whole cluster]
26,849 / 32,551 / + [in contig]
Location26849..32551 [in whole cluster]
26849..32551 [in contig]
TypeCDS
Length5,703 bp (1,900 aa)
Click on the icon to see Genetic map.

close this sectionAnnotation

Category1.1 PKS
Productpolyketide synthase
Product (GenBank)DynE8
GenedynE8
Gene (GenBank)
EC number
Keyword
  • iterative
  • enediyne core
Note
Note (GenBank)
  • iterative polyketide synthase for enediyne core
Reference
ACC
PmId
[18328078] The biosynthetic genes encoding for the production of the dynemicin enediyne core in Micromonospora chersina ATCC53710. (FEMS Microbiol Lett. , 2008)
[22589546] Crystal structure of the acyltransferase domain of the iterative polyketide synthase in enediyne biosynthesis. (J Biol Chem. , 2012)
[12536216] A genomics-guided approach for discovering and expressing cryptic metabolic pathways. (Nat Biotechnol. , 2003)
[25019332] Enediyne polyketide synthases stereoselectively reduce the beta-ketoacyl intermediates to beta-D-hydroxyacyl intermediates in enediyne core biosynthesis. (Org Lett. , 2014)
comment
Q8GCW1の配列とは核酸レベルで100%一致

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[PMID:18328078]
dynemicin A生合成遺伝子クラスターの報告

dyn8: Enediyne core forming iterative polyketide synthase

dynE8, dynU14, dynU15, orf23の各不活性化株を作製し、dynemicin Aの生合成に必須であることを示した。

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[PMID:22589546]
dynemicin生合成遺伝子DynE8の結晶構造解析。
iterative PKSのAT domainでは初めての構造解析報告。

malonyl特異的 AT domainはacetyl-CoAを認識出来ないとされてきたが、構造解析および生化学解析からDynE8のAT domainは触媒残基Ser651上でmalonyl-CoAまたはacetyl-CoAかのどちらか一方からacyl基をuploadする事が出来ることを示した。DynE8のAT domainは加水分解からアセチル酵素中間体ではなくマロニル化酵素を保護し、ACPへのmalonyl基の移動を促進することを明らかにした。

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[PMID:12536216]
warhead cassette(UNBL-UNBV-UNBU-PKSE-TEBC)の報告

warhead cassette(UNBL-UNBV-UNBU-PKSE-TEBC)はactinomyceteにおいて全てのenediyne生合成遺伝子座で保存されているが、機能は未知のままである。enediyne warheadのformation, stabilization, or transport に関与しているのではないかと推測している。
dynemicinでも並びが保存されている。

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[PMID: 25019332]
Enediyne Polyketide SynthaseのKR domainについての調査。

close this sectionPKS/NRPS Module

1 acetyl-CoA
malonyl-CoA
KS4..408
AT617..815
ACP917..1011
KR1194..1368
DH1438..1587
PPT1685..1891

close this sectionSequence

selected fasta
>polyketide synthase [DynE8]
MVDDDVVIVGLACRYPAADNPTQLWENVLNRRQAFRPLPAGRLPLAEYGGDGPDRTTVRR
AAVLDGWRFDRARFRIPGSTFRAVDLSHWLALETAADALVDAGLPDGTGTDRSRVGVVIG
NSLTGEFSRAAGLRIRWPYVRRAVAAGLVDGGLATDEVAALLDRVEERFKAPFPVPGDET
LAGALANTIAGRICNQFDFHGTGYTVDGACASSLLAVITAAEAVAAGQLDVALAGGVDLS
LDPLELVGFSRVGALAGDEMRVYDAHPTGFLPGEGCGVVVLARAGYARERGLRPYGRLLG
WASSSDGSGGLTRPEESGQRLALRRAYDRAGIEPGAVRLVEGHGTGTAVGDEAELRALLG
VRGPAASPAVLGSIKANIGHTKAAAGVAGLIKAVLAVHREVLPPTTGCHRPHPLLAEGGA
LRVTDEARPWPDGERYASVSAMGFGGINTHVVLGGTAPSASRPLSAHVRRLSRPHPDHEL
VVCGAPDAAALTGLLTRVRAAATALSRPELTDLAAGLAAAHRGDVPARFAAAVRDADGLV
AALDRALGHLAEGGRRLLDAGRGLFLVVGGPLRVGLLFPGQAAPVHADRGALGHLLGDAD
AGTGSDPDSGVKPAEPVDTAVAQPAIIADSLAGIRWLDRLGARPVGALGHSLGELAALSW
AGALDADDTLALARARGEAMSAATEAPSGMLSLRADLAAARELAAGTGAVVAVDNGERHV
VVAGTRPELDRVAEAARHAGIEATPLAVSHAFHSPLMAPAAEALRRAAGRLPWRRPERPV
ASTVTGAWWADEDPVEVLVRQLTGPVRFREALGLLDADLLVEVGPGRMLSALAEAAGRTA
VSLDAGAASAAGMAAGTAALFAAGAVDDATPFFAGRFTRPFDRDREREFLVNPCEREVPA
VALPAPRAATPDPRPRASAGPVAARPADGRGTAELVAARVADLAELPAAEVGPGTRLLAD
LHLNSIRVGQLAAEIAGELGRALPATPLSLADATVGEFAAAIEGLPTADAPAAELPAAGV
GPWVRVFRHHLVPRPAGAAAPAGEPPAWEVVGPLAGHPHAEAVRTAFRVDAGAPAGRLLA
LPPGLADIPTADVVAALRAAAGDRRPLVVLHHGGVGAAVGRSLAVETGAPVLVVETPPGP
AGVRLAAVEASRPWSGYQEVVYGADGVRTVPVTRLLDGQPRTDRRIPLGPGEVCLVTGGA
KGIGAACAAALGEATGARLVLFGRSPADDPEVVEAVRRTGAVYRSVDLADPVAVAAAVTA
VRAEHGPVRGLLHAAGRNEPAPVTDLTAEELHRTLAPKAYGFEHVVAALDPDELRFAVAF
GSVIGRAGLPGEAAYATANEYLSRRCAELAATVPQVRWLSIEWSVWSGTGMGVRLGVLDG
LLRRGVSPIPPDEGTRLLLELLATPALPPVVLVAGRLPVSDTLEWDECAEEHGRFLESRL
VGTPCVELVSEARLSLGADPYLDDHRIDGAAVLPAVLGLEAMAQAAAALGAKQVPTVIRD
VALTRPVTVGDREPRPVRVAALTGADGTVRAAVRSAETGFAVDHLTGTYGGAVTSGEPVP
PPSTGLLVPGGPLYGPAFFHGPRFRRVAGYHGLSAYRCVAEVHAEAGTWFGGFHDQRLQL
GDPGVRDAFLHLLQACVPDRRVLPVGVDRIDIHARPEGTLTVHARQVAEAGDEFRFDVTV
IDADGSPVERWTGLRLRAVGPVENAVWPAELVGPLVTRRLRRWRPELRVDLAAAPAGRGD
RERSRALAGWLLGGEVRADATGRLRPGVPATPLGWRGISVSHLDGHLLTAAADRPVGVDW
EVVTPTPPLPEAAARVAEALARLTGEDAATAGTRVWTALEALVKAGAAVDVPLVLRDETG
PDGWVALHAGRHAVYGTVVPATPGPIAVSLAVAVDADGEG
selected fasta
>polyketide synthase [DynE8]
ATGGTCGACGACGACGTGGTGATCGTGGGCCTGGCCTGCCGCTACCCGGCGGCGGACAAC
CCGACCCAGCTGTGGGAGAACGTCCTCAACCGGCGGCAGGCGTTCCGGCCGCTGCCGGCG
GGCCGGCTGCCGCTGGCCGAGTACGGCGGCGACGGCCCCGACCGGACCACGGTCCGCCGG
GCCGCGGTACTGGACGGCTGGCGCTTCGACCGGGCCCGCTTCCGGATCCCGGGCAGCACC
TTCCGGGCCGTGGACCTGTCCCACTGGCTGGCGCTGGAGACCGCCGCGGACGCCCTTGTC
GACGCCGGCCTGCCGGACGGGACCGGCACCGACCGGTCCCGGGTCGGCGTGGTCATCGGC
AATTCGCTGACCGGCGAGTTCTCCCGGGCCGCCGGCCTGCGGATCCGCTGGCCCTACGTG
CGCCGGGCGGTCGCCGCCGGCCTGGTCGACGGAGGGCTGGCGACCGACGAGGTCGCGGCG
CTGCTGGACCGGGTGGAGGAGCGGTTCAAAGCGCCGTTCCCGGTGCCCGGCGACGAGACC
CTGGCCGGCGCGCTGGCAAACACGATCGCGGGCCGCATCTGCAACCAGTTCGACTTCCAC
GGCACCGGCTACACAGTGGACGGCGCCTGCGCCTCGTCGCTGCTCGCGGTGATCACCGCG
GCCGAGGCGGTGGCCGCCGGCCAGCTCGACGTGGCGCTGGCCGGCGGGGTGGACCTCAGC
CTCGACCCGCTGGAGCTGGTCGGCTTCTCCCGGGTCGGCGCGCTGGCCGGCGACGAGATG
CGGGTGTACGACGCCCACCCCACCGGCTTCCTGCCCGGCGAGGGCTGCGGCGTGGTGGTG
CTGGCCCGGGCCGGGTACGCGCGGGAGCGGGGGCTGCGCCCGTACGGGCGGCTGCTCGGC
TGGGCGTCCTCGTCGGACGGCAGCGGCGGGCTGACCCGGCCGGAGGAGAGCGGGCAGCGG
CTGGCGCTGCGCCGGGCGTACGACCGGGCCGGCATCGAGCCCGGCGCGGTCCGGCTCGTG
GAGGGGCACGGCACCGGCACCGCCGTCGGCGACGAGGCGGAACTGCGGGCGCTGCTCGGC
GTACGCGGGCCGGCCGCGTCACCGGCGGTGCTGGGCAGCATCAAGGCGAACATCGGGCAC
ACCAAGGCGGCGGCCGGGGTGGCCGGGCTGATCAAGGCGGTGCTGGCCGTGCACCGGGAG
GTGCTGCCGCCGACCACCGGCTGCCACCGGCCGCACCCGCTGCTCGCCGAGGGTGGCGCC
CTGCGGGTCACCGACGAGGCCCGGCCCTGGCCGGACGGCGAGCGGTACGCCTCGGTCAGC
GCGATGGGCTTCGGCGGGATCAACACGCACGTGGTGCTCGGCGGGACGGCTCCGTCGGCG
TCCCGGCCGCTCAGCGCGCACGTACGACGGTTGAGCCGGCCGCACCCCGACCACGAGCTG
GTGGTCTGCGGGGCCCCGGACGCGGCGGCGCTGACCGGGCTGCTCACCCGGGTCCGGGCG
GCGGCCACCGCGCTGTCCCGCCCCGAGCTGACCGACCTGGCCGCCGGGCTCGCCGCCGCC
CACCGCGGGGACGTCCCGGCCCGGTTCGCCGCGGCCGTCCGCGACGCCGACGGGCTGGTC
GCCGCCCTCGACCGGGCGCTCGGGCACCTGGCCGAGGGCGGCCGTCGCCTGCTGGACGCG
GGTCGCGGGCTGTTCCTCGTGGTCGGCGGGCCGCTGCGGGTGGGGCTGCTCTTCCCCGGC
CAGGCCGCACCGGTGCACGCCGACCGGGGCGCGCTGGGCCACCTGCTCGGCGACGCGGAC
GCGGGAACCGGCTCCGACCCCGATTCCGGGGTGAAGCCGGCGGAACCGGTCGACACGGCG
GTGGCCCAGCCGGCCATCATCGCCGACAGCCTGGCCGGGATCCGCTGGCTGGACCGGCTC
GGCGCCCGGCCGGTCGGCGCGCTCGGCCACAGCCTCGGCGAGCTGGCCGCGCTCAGCTGG
GCCGGTGCGCTGGACGCCGACGACACCCTGGCCCTGGCCCGCGCGCGCGGCGAGGCCATG
TCCGCCGCGACCGAGGCGCCCTCCGGGATGCTGTCGCTCCGGGCCGACCTGGCCGCCGCG
CGGGAACTGGCCGCCGGGACCGGCGCGGTGGTGGCCGTGGACAACGGCGAGAGGCACGTG
GTGGTGGCCGGCACCCGGCCCGAGCTGGACCGGGTCGCCGAGGCCGCGCGGCACGCCGGG
ATCGAGGCGACGCCGCTGGCCGTCTCGCACGCCTTCCACTCCCCGCTGATGGCCCCGGCC
GCCGAGGCGCTGCGCCGGGCCGCCGGGCGGCTCCCGTGGCGGCGGCCCGAGCGGCCGGTG
GCGTCCACGGTCACCGGGGCGTGGTGGGCCGACGAGGACCCGGTCGAGGTGCTGGTCCGG
CAGCTCACCGGGCCGGTCCGGTTCCGCGAGGCGCTCGGCCTGCTCGACGCCGACCTGCTC
GTTGAGGTCGGCCCCGGGCGGATGCTCAGCGCGCTGGCCGAGGCGGCCGGGCGTACCGCG
GTCAGCCTGGACGCCGGCGCGGCGAGCGCGGCGGGCATGGCCGCCGGTACCGCGGCGCTC
TTCGCCGCCGGCGCTGTCGACGACGCGACGCCCTTCTTCGCCGGGCGCTTCACCCGCCCG
TTCGACAGGGACCGGGAGCGGGAGTTCCTGGTCAACCCGTGCGAGCGGGAGGTGCCCGCG
GTGGCCCTGCCGGCGCCCCGCGCCGCGACGCCGGACCCGCGCCCCCGGGCGAGCGCCGGG
CCGGTCGCGGCCCGCCCGGCCGACGGCCGGGGCACCGCCGAGCTGGTCGCCGCCCGCGTG
GCCGACCTGGCCGAGCTGCCGGCCGCCGAGGTGGGCCCGGGCACCCGCCTCCTCGCCGAC
CTGCACCTGAACTCGATCCGGGTCGGCCAGCTCGCCGCCGAGATCGCCGGGGAACTGGGC
CGGGCGCTGCCCGCCACGCCGCTGTCCCTGGCCGACGCCACGGTGGGCGAGTTCGCCGCC
GCGATCGAGGGGCTGCCGACCGCCGACGCACCCGCCGCCGAGCTGCCCGCCGCCGGCGTC
GGCCCCTGGGTCCGGGTGTTCCGCCACCACCTGGTGCCCCGACCGGCCGGTGCCGCCGCC
CCCGCCGGCGAGCCGCCCGCCTGGGAGGTGGTCGGCCCGCTGGCCGGGCACCCGCACGCC
GAGGCGGTGCGGACCGCGTTCCGGGTGGACGCCGGGGCGCCGGCGGGCCGGCTGCTCGCC
CTGCCGCCAGGGCTGGCCGACATCCCGACCGCCGACGTGGTCGCCGCGCTGCGCGCCGCG
GCGGGCGACCGGCGGCCGCTCGTGGTGCTGCACCACGGCGGGGTCGGCGCGGCCGTCGGC
CGCAGCCTGGCCGTGGAGACCGGAGCGCCGGTGCTGGTGGTGGAGACCCCGCCGGGCCCG
GCCGGCGTCCGGCTGGCCGCCGTCGAGGCGTCCCGGCCGTGGTCCGGCTACCAGGAGGTC
GTGTACGGCGCGGACGGCGTACGCACCGTGCCGGTCACCCGGCTGCTGGACGGGCAGCCC
CGCACCGACCGGCGGATCCCGCTCGGCCCGGGCGAGGTCTGCCTGGTCACCGGGGGCGCG
AAGGGGATCGGGGCGGCCTGCGCGGCGGCCCTCGGCGAGGCCACCGGGGCGCGGCTCGTG
CTCTTCGGCCGCAGCCCCGCCGACGATCCGGAGGTGGTCGAGGCGGTCCGCCGCACCGGC
GCGGTCTACCGGTCGGTCGACCTGGCCGACCCGGTGGCGGTGGCCGCGGCGGTCACCGCC
GTCCGCGCCGAGCACGGCCCGGTGCGCGGCCTGCTGCACGCGGCCGGGCGCAACGAGCCG
GCGCCGGTGACCGACCTGACCGCCGAGGAGCTGCACCGCACCCTCGCCCCGAAGGCGTAC
GGCTTCGAGCACGTGGTGGCCGCGCTCGACCCCGACGAGCTGCGCTTCGCCGTGGCGTTC
GGCTCGGTGATCGGCCGCGCCGGACTTCCCGGCGAGGCGGCGTACGCCACCGCCAACGAG
TACCTCTCCCGGCGCTGCGCGGAGCTGGCCGCGACCGTGCCGCAGGTGCGCTGGCTGAGC
ATCGAGTGGTCGGTCTGGTCCGGGACCGGGATGGGCGTCCGGCTCGGCGTGCTCGACGGG
CTGCTGCGGCGCGGGGTCAGCCCCATCCCGCCCGACGAGGGCACCCGCCTGCTGCTGGAA
CTGCTCGCCACGCCGGCGCTGCCGCCGGTGGTGCTGGTGGCCGGCCGGCTGCCGGTGAGC
GACACCCTGGAGTGGGACGAGTGCGCCGAGGAGCACGGCCGTTTCCTGGAGTCACGGCTG
GTCGGCACGCCCTGCGTCGAGCTGGTCAGCGAGGCCCGGCTCTCCCTCGGCGCCGACCCC
TACCTGGACGACCACCGGATCGACGGCGCGGCGGTGCTCCCGGCCGTGCTCGGGCTGGAG
GCCATGGCCCAGGCCGCCGCCGCGCTCGGCGCGAAGCAGGTGCCCACGGTGATCCGGGAC
GTGGCGCTGACCCGCCCGGTGACGGTCGGCGACCGGGAGCCCCGGCCGGTCCGGGTGGCC
GCGCTGACCGGCGCCGACGGCACCGTCCGGGCGGCGGTGCGCAGCGCGGAGACCGGCTTC
GCCGTGGACCACCTCACCGGCACGTACGGCGGGGCGGTGACCTCGGGCGAGCCGGTGCCG
CCGCCCTCCACCGGGCTGCTGGTGCCCGGCGGGCCGCTCTACGGCCCGGCCTTCTTCCAC
GGCCCCCGGTTCCGGCGGGTGGCCGGCTACCACGGGCTGAGCGCCTACCGGTGCGTGGCG
GAGGTGCACGCCGAGGCGGGGACCTGGTTCGGCGGTTTCCACGACCAGCGGCTGCAACTG
GGCGACCCGGGGGTGCGGGACGCCTTCCTGCACCTGCTCCAGGCGTGCGTGCCGGACCGG
CGGGTGCTGCCCGTCGGGGTGGACCGGATCGACATCCACGCCCGCCCGGAGGGCACCCTG
ACCGTCCACGCCCGGCAGGTGGCCGAGGCGGGCGACGAGTTCCGCTTCGACGTCACAGTC
ATCGACGCGGACGGCTCGCCGGTGGAGCGCTGGACCGGGCTGCGGCTGCGCGCGGTCGGC
CCGGTGGAGAACGCCGTGTGGCCGGCCGAGCTGGTCGGGCCGCTGGTGACCCGGCGGCTG
CGCCGCTGGCGGCCGGAACTGCGGGTGGACCTGGCCGCCGCGCCGGCCGGGCGGGGCGAC
CGGGAACGCAGCCGGGCGCTGGCCGGCTGGCTGCTCGGCGGCGAGGTACGCGCCGACGCC
ACCGGCCGGCTCCGGCCCGGCGTACCGGCCACGCCGCTGGGGTGGCGCGGGATCAGCGTC
AGCCACCTCGACGGGCACCTGCTGACCGCCGCGGCGGACCGCCCGGTCGGGGTCGACTGG
GAGGTCGTCACCCCCACCCCACCGTTGCCCGAGGCGGCGGCGCGGGTCGCCGAGGCGCTG
GCCCGGCTCACCGGCGAGGACGCGGCCACCGCCGGCACCCGGGTGTGGACGGCGCTGGAG
GCGCTGGTGAAGGCGGGCGCCGCAGTCGACGTACCGCTGGTGCTGCGCGACGAGACCGGG
CCGGACGGCTGGGTGGCGCTGCACGCCGGCCGGCACGCGGTCTACGGGACGGTCGTGCCG
GCGACACCCGGGCCGATCGCGGTGAGCCTGGCCGTCGCCGTGGACGCCGACGGGGAGGGG
TGA
[1] KS4..408
[1] AT617..815
[1] acetyl-CoA malonyl-CoA750..754
[1] ACP917..1011
[1] KR1194..1368
[1] DH1438..1587
[1] PPT1685..1891
[1] KS10..1224
[1] AT1849..2445
[1] acetyl-CoA malonyl-CoA2248..2262
[1] ACP2749..3033
[1] KR3580..4104
[1] DH4312..4761
[1] PPT5053..5673

close this sectionFeature

BLASTP
Database:UniProtKB:2011_09 		show BLAST table
InterPro
Database:interpro:38.0
IPR001227 Acyl transferase domain (Domain)
[617-680] 2.99999999999998e-36 G3DSA:3.40.366.10 [749-836] 2.99999999999998e-36 G3DSA:3.40.366.10
G3DSA:3.40.366.10   Ac_transferase_reg
IPR009081 Acyl carrier protein-like (Domain)
[925-1037] 1e-11 SSF47336
SSF47336   ACP_like
[933-1005] 1.2e-06 G3DSA:1.10.1200.10
G3DSA:1.10.1200.10   ACP_like
IPR013968 Polyketide synthase, KR (Domain)
[1194-1368] 1.29999999999998e-33 PF08659
PF08659   KR
IPR014030 Beta-ketoacyl synthase, N-terminal (Domain)
[4-283] 1.2e-50 PF00109
PF00109   ketoacyl-synt
IPR014031 Beta-ketoacyl synthase, C-terminal (Domain)
[295-408] 1.2e-33 PF02801
PF02801   Ketoacyl-synt_C
IPR014043 Acyl transferase (Domain)
[617-815] 1.3e-26 PF00698
PF00698   Acyl_transf_1
IPR016035 Acyl transferase/acyl hydrolase/lysophospholipase (Domain)
[572-862] 4.60000044330862e-36 SSF52151
SSF52151   Acyl_Trfase/lysoPlipase
IPR016036 Malonyl-CoA ACP transacylase, ACP-binding (Domain)
[686-749] 3.0999994589937e-11 SSF55048
SSF55048   Malonyl_transacylase_ACP-bd
IPR016038 Thiolase-like, subgroup (Domain)
[6-124] 1.70000000000001e-59 G3DSA:3.40.47.10 [157-300] 1.70000000000001e-59 G3DSA:3.40.47.10 [301-455] 1.5e-47 G3DSA:3.40.47.10
G3DSA:3.40.47.10   Thiolase-like_subgr
IPR016039 Thiolase-like (Domain)
[3-405] 3.10001307370206e-63 SSF53901
SSF53901   Thiolase-like
IPR016040 NAD(P)-binding domain (Domain)
[1191-1403] 1.99999999999999e-32 G3DSA:3.40.50.720
G3DSA:3.40.50.720   NAD(P)-bd
SignalP No significant hit
TMHMM No significant hit
Dynm_00170 Dynm_00170   Dynm_00190 Dynm_00190
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