myxochromide S
naturalproductmech:mibig-c2e4d35396 MINTED SEEDED
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REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record.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.
Structure
| Standard InChIKey | BHYCLFCOZPICKT-CNDSVILGSA-N |
|---|---|
| SMILES | C\C=C\C=C\C=C\C=C\C=C\C=C\C=C\C(=O)N(C)[C@H]1[C@@H](C)OC(=O)[C@H](CCC(N)=O)NC(=O)[C@H](C)NC(=O)[C@H](C)NC(=O)[C@H](CC(C)C)NC1=O |
| Stereochemistry | fully defined |
| Cross-references | npatlas:NPA01302 |
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 nrps, pks, from MIBiG.
Producer organisms 4
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.
| Taxon | Basis | Cluster | Evidence |
|---|---|---|---|
| Stigmatella aurantiaca NCBITaxon:41 |
BGC_CHARACTERIZED | mibig:BGC0001023 | PMID:15651040 |
| Stigmatella aurantiaca DW4/3-1 NCBITaxon:378806 |
BGC_CHARACTERIZED | mibig:BGC0001429 | PMID:28128551 |
| Stigmatella aurantiaca Sg a15 NCBITaxon:675526 |
SOURCE_ASSERTION | mibig:BGC0001430 | PMID:28128551 |
| Stigmatella aurantiaca NCBITaxon:41 |
SOURCE_ASSERTION | mibig:BGC0001431 | PMID:28128551 |
Occurrences 1
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.
| Taxon | Source | Reference |
|---|---|---|
| Stigmatella aurantiaca NCBITaxon:41 |
LOTUS | DOI:10.1002/CBIC.200400282 |
Biosynthetic gene clusters 4
| Accession | Host | Locus evidence | Genome |
|---|---|---|---|
| mibig:BGC0001023 | Stigmatella aurantiaca NCBITaxon:41 |
CLUSTER_DEMONSTRATED | genbank:AJ698723.2 |
| mibig:BGC0001429 | Stigmatella aurantiaca DW4/3-1 NCBITaxon:378806 |
CLUSTER_DEMONSTRATED | genbank:KX622599.1 |
| mibig:BGC0001430 | Stigmatella aurantiaca Sg a15 NCBITaxon:675526 |
CLUSTER_UNSTATED | genbank:KX622600.1 |
| mibig:BGC0001431 | Stigmatella aurantiaca NCBITaxon:41 |
CLUSTER_UNSTATED | genbank:KX622601.1 |
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.
Biosynthesis curated
Written by a curator with claim-level evidence on each step; not derived from a source. This is what the rest of the record exists to support.
| Step | Enzyme | Reaction | Substrate → product | Evidence |
|---|---|---|---|---|
| 1 | MchA polyketide synthase NCBIProtein:CAG28678.1 |
ungrounded → ungrounded | DOI:10.1002/cbic.200400282 | |
| 2 | MchB nonribosomal peptide synthetase NCBIProtein:CAG29031.1 |
ungrounded → ungrounded | DOI:10.1002/cbic.200400282 | |
| 3 | MchC nonribosomal peptide synthetase NCBIProtein:CAG29032.1 |
ungrounded → ungrounded | DOI:10.1002/cbic.200400282 |
Step 1: MIBiG assigns AJ698723.2 CAG28678.1/mchA to the iterative type I PKS module that contributes the polyketide portion of the myxochromide S1 scaffold. The exact isolated substrate and product are not resolved, and UniParc UPI000050C125 (2166 aa, shared by AJ698723.2 CAG28678.1 and BGC0001429 KX622599.1 APZ78820.1) maps only to deleted UniProtKB/TrEMBL entries Q50JA4 and A0A1P8VQB4 (whereas active Stigmatella aurantiaca DW4/3-1 STAUR_1142 / UniProtKB:E3FG11 is a 2157-aa alternative start-site translation, UPI0001E74347).
Step 2: MIBiG assigns AJ698723.2 CAG29031.1/mchB to the NRPS modules that incorporate the threonine and leucine portions inferred for myxochromide S1 scaffold biosynthesis. The exact isolated substrate and product are not resolved; while the direct AJ698723.2 UniProtKB/TrEMBL cross-reference Q50JA3 is deleted, active Stigmatella aurantiaca DW4/3-1 UniProtKB:E3FG12 (STAUR_1143) shares 100% amino-acid sequence identity (3057 aa, UPI000050C126) with CAG29031.1 and BGC0001429 APZ78821.1.
Step 3: MIBiG assigns AJ698723.2 CAG29032.1/mchC to the downstream NRPS modules and thioesterase that complete myxochromide S1 scaffold biosynthesis. The exact isolated substrate and product are not resolved; while the direct AJ698723.2 UniProtKB/TrEMBL cross-reference Q50JA2 is deleted, active Stigmatella aurantiaca DW4/3-1 UniProtKB:E3FG13 (bacA / STAUR_1144) shares 100% amino-acid sequence identity (4468 aa, UPI000050C1DE) with CAG29032.1 and BGC0001429 APZ78822.1.
Mechanism & Biosynthesis Overview
Causal graph — biosynthesis 7 nodes, 6 edges
Partial Stigmatella aurantiaca myxochromide S1 biosynthesis graph for the BGC0001023 MchA-MchB-MchC PKS/NRPS scaffold genes.
| Subject | Predicate | Object | Notes | Evidence |
|---|---|---|---|---|
| MchA polyketide synthase | contributes to | myxochromide S1 PKS/NRPS scaffold biosynthesis | This edge follows MIBiG's scaffold-biosynthesis assignment for mchA/CAG28678.1 and stops at the process level because the isolated MchA substrate-product pair was not assayed. | DOI:10.1002/cbic.200400282 |
| MchB nonribosomal peptide synthetase | contributes to | myxochromide S1 PKS/NRPS scaffold biosynthesis | This edge follows MIBiG's scaffold-biosynthesis assignment for mchB/CAG29031.1 and stops at the process level because the isolated MchB substrate-product pair was not assayed. | DOI:10.1002/cbic.200400282 |
| MchC nonribosomal peptide synthetase | contributes to | myxochromide S1 PKS/NRPS scaffold biosynthesis | This edge follows MIBiG's scaffold-biosynthesis assignment for mchC/CAG29032.1 and stops at the process level because the isolated MchC substrate-product pair was not assayed. | DOI:10.1002/cbic.200400282 |
| myxochromide S1 PKS/NRPS scaffold biosynthesis | assembles | myxochromide S1 | The edge connects the Mch PKS/NRPS scaffold process to the exact myxochromide S1 structure in this record; the record's shared-structure discussion about later MIBiG entries is left open. | DOI:10.1002/cbic.200400282 |
| MchB nonribosomal peptide synthetase | has a sequence-identical UniProtKB example | MchB (Stigmatella aurantiaca DW4/3-1 STAUR_1143 UniProtKB example) | UniProtKB:E3FG12 (Stigmatella aurantiaca DW4/3-1 STAUR_1143 / mchB) shares 100% amino-acid sequence identity (3057 aa, UPI000050C126) with AJ698723.2 CAG29031.1 (MchB). | https://www.uniprot.org/uniprotkb/E3FG12 |
| MchC nonribosomal peptide synthetase | has a sequence-identical UniProtKB example | MchC (Stigmatella aurantiaca DW4/3-1 bacA/STAUR_1144 UniProtKB example) | UniProtKB:E3FG13 (Stigmatella aurantiaca DW4/3-1 bacA / STAUR_1144 / mchC) shares 100% amino-acid sequence identity (4468 aa, UPI000050C1DE) with AJ698723.2 CAG29032.1 (MchC). | https://www.uniprot.org/uniprotkb/E3FG13 |
Every edge carries its own citation; an uncited edge is refused by the corpus tests.
Explore across X-Mech
Open questions 1
shared-structure — This structure is reported by more than one MIBiG entry: BGC0001023, BGC0001429, BGC0001430, BGC0001431. Confirm they describe the same compound rather than an upstream cross-reference error.
Provenance
| Source concept | Source | Version |
|---|---|---|
| BGC0001023 | MIBIG | 5 |
| BGC0001429 | MIBIG | 4 |
| BGC0001430 | MIBIG | 4 |
| BGC0001431 | MIBIG | 4 |
This page is generated from data/natural_products/unclassified/myxochromide-s.yaml, which is generated from the committed inventories. Neither is edited by hand.