BGC0001328: rakicidin A biosynthetic gene cluster from Micromonospora sp. M42
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Location: 194,525 - 233,421 nt. (total: 38,897 nt).
This entry is originally from NCBI GenBank KK037233.1.

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core biosynthetic genes
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Gene details
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General
Compounds
Genes
Polyketide
NRP
History
NRPS/PKS domains
KnownClusterBlast
General information about the BGC
MIBiG accession BGC0001328
Short description rakicidin A biosynthetic gene cluster from Micromonospora sp. M42
Status Minimal annotation: no
A minimal annotation only contains information on the BGC loci and one or more linked chemical product(s)

Completeness: complete
Whether the loci encodes everything needed for the pathway producing the compound(s)
Biosynthetic class(es)
  • NRP (Cyclic depsipeptide)
  • Polyketide (Macrolide)
Loci NCBI GenBank: KK037233.1
Compounds
  • rakicidin A
  • rakicidin B
Species Micromonospora sp. M42 [taxonomy]
References
Chemical products information
rakicidin A
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C32H54N4O7
rakicidin B
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C33H56N4O7
List of genes involved in compound(s) production
Identifiers Position Product Functions Evidence Extra
  • MCBG_00130
  • EWM62997.1
 194525 - >198593 (+) non-ribosomal peptide synthetase
  • Scaffold biosynthesis
Sequence-based prediction
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  • MCBG_00131
  • EWM62998.1
 198790 - 203130 (+) mycocerosic acid synthase
  • Scaffold biosynthesis
Sequence-based prediction
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  • MCBG_00132
  • EWM62999.1
 203245 - 203439 (+) hypothetical protein
  • Scaffold biosynthesis
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  • MCBG_00133
  • EWM63000.1
 203436 - 207341 (+) non-ribosomal peptide synthetase
  • Scaffold biosynthesis
Sequence-based prediction
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  • MCBG_00134
  • EWM63001.1
 207319 - 208275 (+) polyketide synthase type I
  • Scaffold biosynthesis
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  • MCBG_00135
  • EWM63002.1
 208277 - 211648 (+) non-ribosomal peptide synthetase
  • Scaffold biosynthesis
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  • MCBG_00136
  • EWM63003.1
 211656 - 213302 (+) polyketide synthase type I
  • Scaffold biosynthesis
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  • MCBG_00137
  • EWM63004.1
 213635 - 217669 (+) polyketide synthase type I
  • Scaffold biosynthesis
Sequence-based prediction
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  • MCBG_00138
  • EWM63005.1
 217773 - >220830 (+) linear gramicidin synthetase LgrC
  • Scaffold biosynthesis
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  • MCBG_00139
  • EWM63006.1
 221677 - 223899 (+) linear gramicidin synthetase LgrD
  • Scaffold biosynthesis
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  • MCBG_00140
  • EWM63007.1
 224280 - 226958 (+) linear gramicidin synthetase LgrC
  • Scaffold biosynthesis
Sequence-based prediction
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  • MCBG_00141
  • EWM63008.1
 226955 - 228667 (+) pyoverdine ABC transporter permease/ATP-binding protein
  • Transport
Sequence-based prediction
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  • MCBG_00142
  • EWM63009.1
 228621 - 229484 (+) gramicidin S biosynthesis protein GrsT
  • Scaffold biosynthesis
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  • MCBG_00143
  • EWM63010.1
 229481 - 232348 (+) non-ribosomal peptide synthetase
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  • MCBG_00144
  • EWM63011.1
 232432 - 233421 (+) clavaminate synthase
  • Precursor biosynthesis
Sequence-based prediction
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Polyketide-specific information
Subclass Macrolide
Cyclic? yes
Release type
  • Macrolactonization
Polyketide-synthases
Genes Properties Modules
MCBG_00133
+
MCBG_00130
+
MCBG_00136 		Synthase subclass: Modular type I
Module 0
Genes: MCBG_00130
Core domains: CoA-ligase, Thiolation (ACP/PCP)
Module 1
Genes: MCBG_00130
Core domains: Ketosynthase
Module 2
Specificity: Methylmalonyl-CoA
Evidence for specificity: Structure-based inference
Genes: MCBG_00133
Core domains: Ketosynthase, Acyltransferase
Module 4
Genes: MCBG_00136
Core domains: Ketosynthase
NRP-specific information
Subclass Cyclic depsipeptide
Cyclic? yes
Release type
  • Macrolactonization
Thioesterase genes
  • MCBG_00142 (Unknown)
NRP-synthases
Gene Modules
MCBG_00135
Module 3
Specificity: serine
Evidence for specificity:
  • Feeding study
Condensation domain type: LCL
MCBG_00138
Module 5
Specificity: glycine
Evidence for specificity:
  • Structure-based inference
Condensation domain type: LCL
MCBG_00139
Module 6
Condensation domain type: LCL
MCBG_00140
Module 6
Specificity: 3S-hydroxyasparagine
Evidence for specificity:
  • Structure-based inference
Module 7 [inactive]
Condensation domain type: LCL
Non-canonical activity:
  • Other
Evidence for non-canonical activity:
  • Structure-based inference
MCBG_00143
Module 8 [inactive]
Condensation domain type: DCL
Non-canonical activity:
  • Other
Evidence for non-canonical activity:
  • Structure-based inference
Annotation changelog
MIBiG version Submitter Notes
1.4
  • Hidden contributor (ID: DPAKSDGGIIU3JRGIDNMS7RSG, no GDPR consent given).
  • Submitted
2.0
  • Hidden contributor (ID: AAAAAAAAAAAAAAAAAAAAAAAA, no GDPR consent given).
  • Migrated from v1.4
  • Updated reference publication(s) (MIBiG Annotathon)
3.0
  • Hidden contributor (ID: AAAAAAAAAAAAAAAAAAAAAAAA, no GDPR consent given).
  • Corrected NRP module activity
  • Removed gene names of 'No gene ID'
  • Removed ketoreductase stereochemistry annotation from modules without ketoreductases
  • Updated bioactivity data
  • Updated NRP substrate specificities
3.1
  • Hidden contributor (ID: AAAAAAAAAAAAAAAAAAAAAAAA, no GDPR consent given).
  • Update chemical activity to schema version 2.11
Detailed domain annotation
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