NaturalProductMech

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bicozamycin

CHEBI:60584 EXACT SEEDED antibacterial

What these status tags mean

Curation status describes a workflow state. SEEDED means the record entered through the source-seeding workflow; it does not imply that no later curation occurred. PROPOSED marks an addition awaiting review; REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record. These are workflow decisions, not independently verified human review. Agent-assisted contributions may appear in the record history.

Grounding describes the identifier mapping: EXACT uses an ontology identity asserted by the source; MINTED keeps a local identifier when no defensible ontology identity is available; REVIEW_NEEDED flags an exact structure whose ontology identity needs adjudication. The grounding note retains any unresolved alternatives. These tags do not establish the strength of producer or activity evidence.

A commercially important azabicyclic antibiotic obtained from Streptomyces sapporonensis. It inhibits the Rho protein of E. coli.

Structure

Standard InChIKeyWOUDXEYYJPOSNE-VKZDFBPFSA-N
SMILES[H][C@](O)([C@@](C)(O)CO)[C@@]12NC(=O)[C@@](O)(NC1=O)C(=C)CCO2
Stereochemistryfully defined
Cross-referencespubchem:70685091, npatlas:NPA09159

Filing pathway

Unclassified — computed by NPClassifier npclassifier.gnps2.org@2026-09-07, which is why it is pinned rather than recomputed. The gene cluster's asserted class is other, from MIBiG.

Producer organisms 1

A claim that this taxon makes the compound. The basis says what the evidence addressed — a knockout and a database assertion are not the same claim.

TaxonBasisClusterEvidence
Streptomyces cinnamoneus
NCBITaxon:53446		 SOURCE_ASSERTION mibig:BGC0001468 PMID:8466900

Occurrences 6

Somebody found the compound in this organism and cited it. That is not a claim that the organism makes it, and nothing here promotes one to the other.

TaxonSourceReference
Streptomyces griseoflavus
NCBITaxon:35619		 LOTUS DOI:10.1099/00221287-130-8-2007
Streptomyces griseoflavus
NCBITaxon:35619		 LOTUS DOI:10.7164/ANTIBIOTICS.41.1106
Streptomyces sapporonensis
NCBITaxon:97401		 LOTUS DOI:10.1016/0040-4039(96)01521-3
Streptomyces sapporonensis
NCBITaxon:97401		 LOTUS DOI:10.1038/S41598-019-56747-7
Streptomyces cinnamoneus
NCBITaxon:53446		 LOTUS DOI:10.1016/0040-4039(96)01521-3
Streptomyces cinnamoneus
NCBITaxon:53446		 LOTUS DOI:10.1038/S41598-019-56747-7

Biosynthetic gene clusters 1

AccessionHostLocus evidenceGenome
mibig:BGC0001468 Streptomyces cinnamoneus
NCBITaxon:53446 		CLUSTER_DEMONSTRATED genbank:PKFQ01000001.1

A locus claim and a taxon claim are different questions. Heterologous expression settles the first and leaves the second where the isolation report left it.

Mechanism & Biosynthesis Overview

PRODUCERS & OCCURRENCE 1 producer (0 causal) 6 cited occurrences BIOSYNTHETIC LOCUS 1 gene cluster 0 curated pathway steps NATURAL PRODUCT bicozamycin CHEBI:60584 Unclassified TARGETS & BIOACTIVITY 0 molecular targets 0 bioactivities · 8 graphs

Causal graph — biosynthesis 3 nodes, 2 edges

Native-reference identity and deliberate UniProtKB sequence example for BcmD, not a catalytic reaction. The DSM 41675 native protein and ATCC 21532 reference example are separate nodes; strain equivalence is not asserted. Placement in this owner is curator-inferred from the shared PKFQ01000001.1/BGC0001468 context. No hydroxylation, dehydrogenation, deletion phenotype, pathway order or physical complex is asserted. MITE reaction models leave stereochemistry unspecified; compatibility is not exact owner identity. DOI:10.1038/s41598-019-56747-7 was only partially accessible, DOI:10.1021/acs.biochem.7b00943 was inaccessible, and DOI:10.1128/AEM.02828-17 full text encountered a browser challenge on 2026-10-08. Retrieval stopped; no primary protein experiment is independently adopted.

SubjectPredicateObjectNotesEvidence
bcmD CDS (DSM 41675) encodes the native protein reference BcmD (DSM 41675 native reference) CYQ11_26535; reverse strand 5991821..5993287; 1467-nt complete CDS including stop, 488 residues. Native reference identity does not establish an enzyme assay or reaction.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15946.1
https://github.com/mite-standard/mite_data/blob/6eacd913b2036376031072f69cbb33908f132998/mite_data/data/MITE0000437.json
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    snippet
    /gene="bcmD"
    notes
    Deposited DSM 41675/taxon53446 cluster region 5989046..5998011 annotates bcmD/CYQ11_26535/PPT15946.1; codon_start1, translation table11. This is a genomic database annotation, not inspected primary activity evidence.
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15946.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate versioned GenPept PPT15946.1 names bcmD, CYQ11_26535, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5991821..5993287).
  • reference
    https://github.com/mite-standard/mite_data/blob/6eacd913b2036376031072f69cbb33908f132998/mite_data/data/MITE0000437.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Pinned active MITE0000437 v1 links BcmD, PPT15946.1, BGC0001468 and a UniParc identifier. Database assay codes and underdefined reaction models are not promoted into independently inspected exact-owner reactions.
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 488 residues. The exact gene, locus, protein, strain and taxon establish native reference identity. Owner placement is inferred from its existing BGC0001468 and genome context, not an exact-owner experiment.
BcmD (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmD (ATCC 21532 sequence example) Deliberately selected reference example, not a native-strain equivalence, assay construct, catalytic or physical-interaction claim.
https://rest.uniprot.org/uniprotkb/A0ACM8RGD1.json
https://rest.uniprot.org/uniparc/UPI000C089C81.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAS5.json
https://rest.uniprot.org/uniprotkb/A0ACM8RGD1.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0ACM8RGD1.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry2/sequence1, submitted protein name BcmD, MG018995/AXQ04975.1 and ATCC 21532 reference strain. Selected as a sequence-identical named BcmD example, not a DSM 41675 accession or an independently verified assay construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C089C81.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C089C81 links PPT15946 and active A0ACM8RGD1; all 488 residues agree. UniParc is a sequence archive, not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAS5.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Alternative current unreviewed entry23/sequence1 A0A2G1XAS5 also matches all 488 residues, with BLA24_33485, NHZO01000168/PHQ48315.1 and ATCC 21532 reference strain. A0ACM8RGD1 is deliberately selected for its submitted BcmD identity and distinct MG018995 deposition; this is not evidence of superior experimental validation. No duplicate example node or paralog is inferred from the two accessions.
  • reference
    https://rest.uniprot.org/uniprotkb/A0ACM8RGD1.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete native CDS translation, deposited translation, separate GenPept, UniParc and this current KB entry agree over all 488 residues. The example refers to the ATCC 21532 record context; DSM 41675/ATCC 21532 strain equivalence remains unverified. Equal sequences do not prove equal strains, constructs or assayed activity.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

Native-reference identity and deliberate UniProtKB sequence example for BcmF, not a catalytic reaction. The DSM 41675 native protein and ATCC 21532 reference example are separate nodes; strain equivalence is not asserted. Placement in this owner is curator-inferred from the shared PKFQ01000001.1/BGC0001468 context. No hydroxylation, dehydrogenation, deletion phenotype, pathway order or physical complex is asserted. MITE reaction models leave stereochemistry unspecified; compatibility is not exact owner identity. DOI:10.1038/s41598-019-56747-7 was only partially accessible, DOI:10.1021/acs.biochem.7b00943 was inaccessible, and DOI:10.1128/AEM.02828-17 full text encountered a browser challenge on 2026-10-08. Retrieval stopped; no primary protein experiment is independently adopted.

SubjectPredicateObjectNotesEvidence
bcmF CDS (DSM 41675) encodes the native protein reference BcmF (DSM 41675 native reference) CYQ11_26525; reverse strand 5989945..5990835; 891-nt complete CDS including stop, 296 residues. Native reference identity does not establish an enzyme assay or reaction.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15945.1
https://github.com/mite-standard/mite_data/blob/6eacd913b2036376031072f69cbb33908f132998/mite_data/data/MITE0000436.json
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    snippet
    /gene="bcmF"
    notes
    Deposited DSM 41675/taxon53446 cluster region 5989046..5998011 annotates bcmF/CYQ11_26525/PPT15945.1; codon_start1, translation table11. This is a genomic database annotation, not inspected primary activity evidence.
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15945.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate versioned GenPept PPT15945.1 names bcmF, CYQ11_26525, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5989945..5990835).
  • reference
    https://github.com/mite-standard/mite_data/blob/6eacd913b2036376031072f69cbb33908f132998/mite_data/data/MITE0000436.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Pinned active MITE0000436 v1 links BcmF, PPT15945.1, BGC0001468 and a UniParc identifier. Database assay codes and underdefined reaction models are not promoted into independently inspected exact-owner reactions.
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 296 residues. The exact gene, locus, protein, strain and taxon establish native reference identity. Owner placement is inferred from its existing BGC0001468 and genome context, not an exact-owner experiment.
BcmF (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmF (ATCC 21532 sequence example) Deliberately selected reference example, not a native-strain equivalence, assay construct, catalytic or physical-interaction claim.
https://rest.uniprot.org/uniprotkb/A0A2G1XAP8.json
https://rest.uniprot.org/uniparc/UPI000C07B921.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAP8.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAP8.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry31/sequence1, BLA24_33475 and NHZO01000168/PHQ48314.1, ATCC 21532 reference strain; secondary accession A0A346M2I9. The generic dioxygenase name and automated annotations do not independently establish BcmF catalytic activity.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C07B921.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C07B921 links PPT15945 and active A0A2G1XAP8; all 296 residues agree. UniParc is a sequence archive, not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAP8.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete native CDS translation, deposited translation, separate GenPept, UniParc and this current KB entry agree over all 296 residues. The example refers to the ATCC 21532 record context; DSM 41675/ATCC 21532 strain equivalence remains unverified. Equal sequences do not prove equal strains, constructs or assayed activity.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmA native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmA CDS (DSM 41675) encodes the native protein reference BcmA (DSM 41675 native reference) CYQ11_26550; reverse strand 5995171..5995896; 726-nt complete CDS including stop, 241 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15948.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://rest.uniprot.org/uniprotkb/A0ACM8RGD4.json
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmA/CYQ11_26550/PPT15948.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmA"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15948.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT15948.1 names bcmA, CYQ11_26550, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5995171..5995896).
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 241 residues. The ATG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0ACM8RGD4.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Unreviewed entry2/sequence1 explicitly links bcmA/CYQ11_26550 and PKFQ01000001/PPT15948.1; all 241 residues match. Its references include DSM 41675 and a separate MG018995/AXQ04972.1 ATCC 21532 submission. Native-linked grounding does not establish equivalence of those strains. Protein existence is inferred from homology, not independent experimental validation.
BcmA (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmA (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XAZ9.json
https://rest.uniprot.org/uniparc/UPI000C07596F.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAZ9.json
https://data.rcsb.org/rest/v1/core/polymer_entity/9J61/1
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAZ9.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry24/sequence1; BLA24_33500, NHZO01000168/PHQ48396.1, taxon53446 and ATCC 21532 reference context; protein-level evidence, with the construct qualifications below. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C07596F.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C07596F actively links PPT15948 and A0A2G1XAZ9; its complete 241-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAZ9.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 241 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.
  • reference
    https://data.rcsb.org/rest/v1/core/polymer_entity/9J61/1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Independent PDB9J61 entity1 identity metadata maps chains A-H by SIFTS to A0A2G1XAZ9 residues2..241 at construct positions10..249. The 249-residue construct has an N-terminal MGHHHHHHG segment; its mapped core matches, not its full sequence. Source taxon53446 and E. coli expression host taxon562 are distinct; no strain is given. A0A2G1XAZ9 is deliberately retained as the structural-reference example beside the native-linked A0ACM8RGD4, not a second native paralog or physical complex. DOI:10.1021/acs.biochem.4c00505 full text was inaccessible; no primary reaction is adopted.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmB native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmB CDS (DSM 41675) encodes the native protein reference BcmB (DSM 41675 native reference) CYQ11_26545; reverse strand 5994191..5995168; 978-nt complete CDS including stop, 325 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT16817.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmB/CYQ11_26545/PPT16817.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmB"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT16817.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT16817.1 names bcmB, CYQ11_26545, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5994191..5995168).
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 325 residues. The ATG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
BcmB (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmB (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XB00.json
https://rest.uniprot.org/uniparc/UPI000C08AEFE.json
https://rest.uniprot.org/uniprotkb/A0A2G1XB00.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XB00.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry28/sequence1; BLA24_33495, NHZO01000168/PHQ48395.1, taxon53446 and ATCC 21532 reference context; protein existence inferred from homology. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C08AEFE.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C08AEFE actively links PPT16817 and A0A2G1XB00; its complete 325-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XB00.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 325 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmC native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmC CDS (DSM 41675) encodes the native protein reference BcmC (DSM 41675 native reference) CYQ11_26540; reverse strand 5993284..5994201; 918-nt complete CDS including stop, 305 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15947.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmC/CYQ11_26540/PPT15947.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmC"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15947.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT15947.1 names bcmC, CYQ11_26540, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5993284..5994201).
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 305 residues. The GTG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
BcmC (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmC (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XAR5.json
https://rest.uniprot.org/uniparc/UPI000C075C93.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAR5.json
https://data.rcsb.org/rest/v1/core/polymer_entity/8XHP/1
https://rest.uniprot.org/uniprotkb/A0ACM8RGD3.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAR5.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry28/sequence1; BLA24_33490, NHZO01000168/PHQ48316.1, taxon53446 and ATCC 21532 reference context; protein-level evidence, with the construct qualifications below. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C075C93.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C075C93 actively links PPT15947 and A0A2G1XAR5; its complete 305-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAR5.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 305 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.
  • reference
    https://data.rcsb.org/rest/v1/core/polymer_entity/8XHP/1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    PDB8XHP entity1/chains A-C maps by SIFTS to A0A2G1XAR5 residues1..305. Direct comparison finds M1V plus C-terminal LEHHHHHHHH in the deposited 315-residue sequence, despite a zero-mutation summary. Native CDS-aware GTG initiation and current KB both give M1. No cause for this discrepancy or exact native construct is asserted. Source taxon53446, expression host E. coli/taxon562; no strain given. DOI:10.1038/s41467-025-58997-8 was only partly accessible before an access error; unread methods/results and reaction evidence are not adopted.
  • reference
    https://rest.uniprot.org/uniprotkb/A0ACM8RGD3.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Alternative unreviewed entry2/sequence1, submitted BcmC, MG018995/AXQ04974.1, ATCC 21532, also matches all 305 canonical residues. A0A2G1XAR5 is deliberately selected for its structural reference, with the construct caveat retained; no duplicate native paralog or superiority of catalytic evidence is inferred.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmE native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmE CDS (DSM 41675) encodes the native protein reference BcmE (DSM 41675 native reference) CYQ11_26530; reverse strand 5990877..5991821; 945-nt complete CDS including stop, 314 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT16816.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmE/CYQ11_26530/PPT16816.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmE"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT16816.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT16816.1 names bcmE, CYQ11_26530, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5990877..5991821).
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 314 residues. The ATG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
BcmE (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmE (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XAX5.json
https://rest.uniprot.org/uniparc/UPI000C0F1758.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAX5.json
https://data.rcsb.org/rest/v1/core/polymer_entity/8XHY/1
https://www.rcsb.org/structure/8XHY
https://rest.uniprot.org/uniprotkb/A0ACM8RGD2.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAX5.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry28/sequence1; BLA24_33480, NHZO01000168/PHQ48394.1, taxon53446 and ATCC 21532 reference context; protein-level evidence, with the construct qualifications below. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C0F1758.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C0F1758 actively links PPT16816 and A0A2G1XAX5; its complete 314-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAX5.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 314 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.
  • reference
    https://data.rcsb.org/rest/v1/core/polymer_entity/8XHY/1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    PDB8XHY entity1/chain A maps by SIFTS to A0A2G1XAX5 residues1..314. Direct comparison finds T307A plus C-terminal EHHHHHHHH in its 323-residue sequence despite a zero-mutation summary. This is not the wild-type native construct. Source taxon53446 and E. coli expression host taxon562 remain distinct; no strain is given. DOI:10.1038/s41467-025-58997-8 was only partly accessible before an access error; no primary reaction or mutant activity is adopted.
  • reference
    https://www.rcsb.org/structure/8XHY
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    The deposition title calls the construct T307A, consistent with direct sequence comparison but inconsistent with its zero-mutation summary. Canonical KB sequence identity is adopted separately; wild-type structural identity is not.
    snippet
    The complex structure of mutant T307A of SsBcmE and its natural substrate cIL
  • reference
    https://rest.uniprot.org/uniprotkb/A0ACM8RGD2.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Alternative unreviewed entry2/sequence1, submitted BcmE, MG018995/AXQ04976.1, ATCC 21532, also matches all 314 canonical residues. A0A2G1XAX5 is deliberately selected for its structural reference with the T307A qualification, not as a claim that its canonical sequence is the assayed mutant.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmG native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmG CDS (DSM 41675) encodes the native protein reference BcmG (DSM 41675 native reference) CYQ11_26520; reverse strand 5989046..5989948; 903-nt complete CDS including stop, 300 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15944.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmG/CYQ11_26520/PPT15944.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmG"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15944.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT15944.1 names bcmG, CYQ11_26520, DSM 41675/taxon53446 and coded_by complement(PKFQ01000001.1:5989046..5989948).
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware reverse-strand translation equals the deposited translation and separate GenPept over all 300 residues. The ATG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
BcmG (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmG (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XAR4.json
https://rest.uniprot.org/uniparc/UPI000C073D86.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAR4.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAR4.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry30/sequence1; BLA24_33470, NHZO01000168/PHQ48313.1, taxon53446 and ATCC 21532 reference context; protein existence inferred from homology. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C073D86.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C073D86 actively links PPT15944 and A0A2G1XAR4; its complete 300-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAR4.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 300 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Causal graph — biosynthesis 3 nodes, 2 edges

BcmT native-reference identity and a deliberate canonical UniProtKB sequence example. Placement is curator-inferred from BGC0001468/PKFQ01000001.1. DSM 41675 native and ATCC 21532 example contexts remain distinct; strain equivalence is not asserted. This partial identity graph establishes no catalytic reaction, transport, resistance, pathway order or physical complex. Primary protein activity experiments are not independently adopted.

SubjectPredicateObjectNotesEvidence
bcmT CDS (DSM 41675) encodes the native protein reference BcmT (DSM 41675 native reference) CYQ11_26555; forward strand 5996589..5998010; 1422-nt complete CDS including stop, 473 residues. Native reference identity, not a protein activity experiment.
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
https://www.ncbi.nlm.nih.gov/protein/PPT15949.1
https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Deposited DSM 41675/taxon53446 region annotates bcmT/CYQ11_26555/PPT15949.1; codon_start1 and translation table11. Genomic annotation, not an enzyme assay.
    snippet
    /gene="bcmT"
  • reference
    https://www.ncbi.nlm.nih.gov/protein/PPT15949.1
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Separate GenPept PPT15949.1 names bcmT, CYQ11_26555, DSM 41675/taxon53446 and coded_by PKFQ01000001.1:5996589..5998010.
  • reference
    https://www.ncbi.nlm.nih.gov/nuccore/PKFQ01000001.1
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    Complete-CDS-aware forward-strand translation equals the deposited translation and separate GenPept over all 473 residues. The GTG initiation codon is translated as initiating methionine. Placement in this owner is inferred from its existing BGC0001468/PKFQ01000001.1 locus, not independently inspected exact-owner activity evidence.
BcmT (DSM 41675 native reference) has a sequence-identical UniProtKB example BcmT (ATCC 21532 canonical sequence example) Canonical sequence comparison, not equivalence of strains, deposited constructs or assays.
https://rest.uniprot.org/uniprotkb/A0A2G1XAP9.json
https://rest.uniprot.org/uniparc/UPI000C087D49.json
https://rest.uniprot.org/uniprotkb/A0A2G1XAP9.json
https://rest.uniprot.org/uniparc/UPI000C087D49.json
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAP9.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    Current unreviewed entry29/sequence1; BLA24_33505, NHZO01000168/PHQ48317.1, taxon53446 and ATCC 21532 reference context; predicted protein existence. Selected as a canonical sequence example, not a native DSM 41675 construct.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C087D49.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    UniParc UPI000C087D49 actively links PPT15949 and A0A2G1XAP9; its complete 473-residue sequence matches both. This sequence archive is not a UniProtKB accession or independent experimental evidence.
  • reference
    https://rest.uniprot.org/uniprotkb/A0A2G1XAP9.json
    evidence type
    CURATOR_INFERENCE
    retrieved on
    2026-10-08
    notes
    All 473 residues match the complete native CDS translation and separate GenPept. This is sequence identity between explicitly distinct source contexts, not evidence of strain equivalence, catalytic activity or identical assay constructs.
  • reference
    https://rest.uniprot.org/uniparc/UPI000C087D49.json
    evidence type
    DATABASE_ASSERTION
    retrieved on
    2026-10-08
    notes
    The archive carries historical BcmR naming for A0A346M2I3/AXQ04971; current A0A2G1XAP9 lists A0A346M2I3 as secondary. Native gene bcmT is retained. Neither this name nor automated transport/resistance annotations establishes a transport substrate, resistance phenotype or bcmH equivalence.

Every edge carries its own citation; an uncited edge is refused by the corpus tests.

Elsewhere in the fleet

Explore across X-Mech

AntibioticMech (bicozamycin) ↗ MediaIngredientMech (CHEBI:60584) ↗ TaxonMech: Streptomyces cinnamoneus (NCBITaxon:53446) ↗ PathwayMech (mibig:BGC0001468) ↗

Open questions 1

name-disagreement — ChEBI calls this structure 'bicozamycin' and MIBiG calls it 'bicyclomycin'. They share a Standard InChIKey, so if the names denote different compounds then one upstream record has the wrong structure. Check which.

Provenance

Source conceptSourceVersion
BGC0001468MIBIG5
CHEBI:60584CHEBI3-star

This page is generated from data/natural_products/unclassified/bicozamycin.yaml, which is generated from the committed inventories. Neither is edited by hand.