BGC0002044: empedopeptin biosynthetic gene cluster from Massilia sp. YMA4
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Location: 2,138,714 - 2,204,004 nt. (total: 65,291 nt).
This entry is originally from NCBI GenBank CP030092.1, but has been modified (see Modifications tab for details).

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core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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Gene details
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General
Compounds
Genes
Biosynthesis
History
NRPS/PKS domains
KnownClusterBlast
Modifications
General information about the BGC
MIBiG accession BGC0002044
Short description empedopeptin biosynthetic gene cluster from Massilia sp. YMA4
Status Quality: questionable
The quality level of this entry.

Status: active
The status of this entry.

Completeness: unknown
Whether the entry covers everything needed for the pathway producing the compound(s)
Biosynthetic class(es)
  • NRPS (Type I)
Loci
CP030092.1
2138714 - 2204004
via Knock-out studies
Compounds
  • empedopeptin
Species Massilia sp. YMA4 [taxonomy]
References
Chemical products information
empedopeptin Evidence:
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Chemical database entries
NPAtlas
List of genes involved in compound(s) production
Identifiers Position Product Functions Evidence Extra
  • DPH57_09050
  • AXA91284.1
 2138714 - 2139727 (-) hypothetical protein
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    • DPH57_09055
    • AXA91285.1
    		 2139766 - 2140737 (-) MBL fold metallo-hydrolase
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      • DPH57_09060
      • AXA91286.1
      		 2140841 - 2143039 (+) hybrid sensor histidine kinase/response regulator
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        • DPH57_09065
        • AXA91287.1
        		 2143084 - 2143401 (+) hypothetical protein
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          • DPH57_09070
          • AXA91288.1
          		 2143454 - 2143702 (+) DUF3297 family protein
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            • DPH57_09075
            • AXA91289.1
            		 2143858 - 2144421 (-) hypothetical protein
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              • DPH57_09080
              • AXA91290.1
              		 2144544 - 2145080 (-) hypothetical protein
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                • DPH57_09085
                • AXA94653.1
                		 2145114 - 2146127 (-) alpha/beta hydrolase
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                  • DPH57_09090
                  • AXA91291.1
                  		 2146305 - 2146682 (-) cupin
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                    • DPH57_09095
                    • AXA91292.1
                    		 2146964 - 2147236 (+) hypothetical protein
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                      • DPH57_09100
                      • AXA91293.1
                      		 2147325 - 2148485 (+) hypothetical protein
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                        • DPH57_09105
                        • AXA91294.1
                        		 2148482 - 2150320 (-) AI-2E family transporter
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                          • DPH57_09110
                          • AXA91295.1
                          		 2151013 - 2151735 (+) CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase
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                            • DPH57_09115
                            • AXA91296.1
                            • modA
                            		 2151668 - 2152399 (-) molybdate ABC transporter substrate-binding protein
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                              • DPH57_09120
                              • AXA91297.1
                              		 2152503 - 2153897 (-) hypothetical protein
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                                • DPH57_09125
                                • AXA91298.1
                                		 2153907 - 2155088 (-) hypothetical protein
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                                  • DPH57_09130
                                  • AXA91299.1
                                  		 2155136 - 2156053 (-) hypothetical protein
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                                    • DPH57_09135
                                    • AXA91300.1
                                    		 2156095 - 2157075 (-) TauD/TfdA family dioxygenase
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                                      • DPH57_09140
                                      • AXA91301.1
                                      		 2157075 - 2165330 (-) non-ribosomal peptide synthetase
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                                        • DPH57_09145
                                        • AXA94654.1
                                        		 2165327 - 2168695 (-) hypothetical protein
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                                          • DPH57_09150
                                          • AXA91302.1
                                          		 2168806 - 2184774 (-) non-ribosomal peptide synthetase
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                                            • DPH57_09155
                                            • AXA91303.1
                                            		 2184851 - 2186272 (-) hypothetical protein
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                                              • DPH57_09160
                                              • AXA91304.1
                                              • zwf
                                              		 2187342 - 2188808 (-) glucose-6-phosphate dehydrogenase
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                                                • DPH57_09165
                                                • AXA91305.1
                                                		 2189016 - 2189306 (-) hypothetical protein
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                                                  • DPH57_09170
                                                  • AXA91306.1
                                                  		 2190085 - 2193171 (+) ABC transporter
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                                                    • DPH57_09175
                                                    • AXA91307.1
                                                    		 2193548 - 2195215 (+) hypothetical protein
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                                                      • DPH57_09180
                                                      • AXA91308.1
                                                      		 2195212 - 2195562 (+) hypothetical protein
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                                                        • DPH57_09185
                                                        • AXA91309.1
                                                        		 2197908 - 2198933 (+) hypothetical protein
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                                                          • DPH57_09190
                                                          • AXA91310.1
                                                          		 2198970 - 2199422 (-) hypothetical protein
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                                                            • DPH57_09195
                                                            • AXA91311.1
                                                            		 2200204 - 2202525 (+) peptidase domain-containing ABC transporter
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                                                              • DPH57_09200
                                                              • AXA91312.1
                                                              		 2202581 - 2202790 (-) hypothetical protein
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                                                                • DPH57_09205
                                                                • AXA91313.1
                                                                		 2203666 - 2204004 (+) hypothetical protein
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                                                                  Biosynthesis information

                                                                  Biosynthetic modules

                                                                  Name
                                                                  Unk01
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09140
                                                                  Substrates
                                                                  proline (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk02
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09140
                                                                  Substrates
                                                                  aspartic acid (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk03
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09150
                                                                  Substrates
                                                                  proline (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk04
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09150
                                                                  Substrates
                                                                  serine (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk05
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09150
                                                                  Substrates
                                                                  proline (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk06
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09150
                                                                  Substrates
                                                                  arginine (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk07
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09150
                                                                  Substrates
                                                                  aspartic acid (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Name
                                                                  Unk08
                                                                  Type
                                                                  nrps-type1
                                                                  Genes
                                                                  DPH57_09145
                                                                  Substrates
                                                                  serine (evidence: Structure-based inference [2])
                                                                  Integrated Monomers
                                                                  Domains
                                                                  adenylation
                                                                  Annotation changelog

                                                                  Entry version: next

                                                                  Date
                                                                  Changes
                                                                  Submitters
                                                                  Reviewers
                                                                  2024-08-10
                                                                  MIBiG v4 annotathon
                                                                  • (ID: 4CEPXXFDQQ46VQJXBT4B4AUO)
                                                                  • (ID: AAAAAAAAAAAAAAAAAAAAAAAA)

                                                                  Entry version: 1

                                                                  Date
                                                                  Changes
                                                                  Submitters
                                                                  Reviewers
                                                                  2022-09-15
                                                                  Entry added
                                                                  • (ID: AAAAAAAAAAAAAAAAAAAAAAAA)
                                                                  • (ID: AAAAAAAAAAAAAAAAAAAAAAAA)
                                                                  2022-09-15
                                                                  Added NRP substrate specificities
                                                                  • (ID: AAAAAAAAAAAAAAAAAAAAAAAA)
                                                                  • (ID: AAAAAAAAAAAAAAAAAAAAAAAA)
                                                                  Detailed domain annotation
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                                                                  Modifications to original record
                                                                  • DPH57_00005 crossed the origin and was split into two features