echinomycin

naturalproductmech:mibig-0b86a253f1 MINTED SEEDED cytotoxicenzyme inhibitor

Grounding review: No 3-star ChEBI entry shares this structure, so the record keeps a content-hashed identifier.

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REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record.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	AUJXLBOHYWTPFV-CVLRASHMSA-N
SMILES	C[C@@H]1C(=O)N([C@H]2CSC([C@@H](C(=O)N([C@H](C(=O)OC[C@H](C(=O)N1)NC(=O)C3=NC4=CC=CC=C4N=C3)C(C)C)C)N(C(=O)[C@H](NC(=O)[C@@H](COC(=O)[C@@H](N(C2=O)C)C(C)C)NC(=O)C5=NC6=CC=CC=C6N=C5)C)C)SC)C
Stereochemistry	undefined stereocentres — the InChIKey does not distinguish this compound from its stereoisomers
Cross-references	pubchem:458034, pubchem:3197

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, 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.

Taxon	Basis	Cluster	Evidence
Streptomyces lasaliensis NCBITaxon:324833	SOURCE_ASSERTION	mibig:BGC0000339	PMID:16799553

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
Streptomyces echinatus NCBITaxon:67293	LOTUS	DOI:10.1002/HLCA.19590420127

Biosynthetic gene clusters 1

Accession	Host	Locus evidence	Genome
mibig:BGC0000339	Streptomyces lasaliensis NCBITaxon:324833	CLUSTER_UNSTATED	genbank:AB211309.1

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

Bioactivities 25

Entries preserve source qualifiers, targets and evidence. Repeated assay names or values are not independent replications; inspect source detail for differences.

Explore across X-Mech

AntibioticMech (echinomycin) ↗ MediaIngredientMech (naturalproductmech:mibig-0b86a253f1) ↗ TaxonMech: Streptomyces lasaliensis (NCBITaxon:324833) ↗ PathwayMech (mibig:BGC0000339) ↗

Provenance

Source concept	Source	Version
BGC0000339	MIBIG	5

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

Assay	Result	Target enzyme	Source detail
7124-02: inhibition of TNFa signaling in B cell lineage, counterscreen	OTHER 0.0005 uM; ACTIVE	Not recorded	pubchem.aid:1259334 assay 7124-02: inhibition of TNFa signaling in B cell lineage, counterscreen evidence reference pubchem.aid:1259334 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1259334, deposited by Broad Institute; assay type Other. Source endpoint: AC50. call ACTIVE measurement type OTHER value 0.0005 units uM activity class ENZYME_INHIBITOR
Dose Response Confirmation of SKN-1 Inhibitor hits in a fluorescence ratio assay	IC50 81.5 uM; INACTIVE	Not recorded	pubchem.aid:624474 assay Dose Response Confirmation of SKN-1 Inhibitor hits in a fluorescence ratio assay evidence reference pubchem.aid:624474 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 624474, deposited by Burnham Center for Chemical Genomics; assay type Confirmatory. Target accession NP_741406 was left ungrounded because PubChem did not provide a UniProtKB accession. call INACTIVE measurement type IC50 value 81.5 units uM
Dose ResponseConfirmation of SKN-1 Inhibitor hits in a fluorescence ratio assay - Set 2	IC50 70.2 uM; INACTIVE	Not recorded	pubchem.aid:651563 assay Dose ResponseConfirmation of SKN-1 Inhibitor hits in a fluorescence ratio assay - Set 2 evidence reference pubchem.aid:651563 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 651563, deposited by Burnham Center for Chemical Genomics; assay type Confirmatory. Target accession NP_741406 was left ungrounded because PubChem did not provide a UniProtKB accession. call INACTIVE measurement type IC50 value 70.2 units uM
In vivo-based yeast HTS to detect compounds rescuing yeast growth/survival of Plasmodium Falciparum HSP40-mediated toxicity Measured in Whole Organism System Using Plate Reader - 2120-01_Inhibitor_Dose_CherryPick_Activity	OTHER 12 uM; INACTIVE	Not recorded	pubchem.aid:540271 assay In vivo-based yeast HTS to detect compounds rescuing yeast growth/survival of Plasmodium Falciparum HSP40-mediated toxicity Measured in Whole Organism System Using Plate Reader - 2120-01_Inhibitor_Dose_CherryPick_Activity evidence reference pubchem.aid:540271 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 540271, deposited by Broad Institute; assay type Confirmatory. Source endpoint: AbsAC1000_uM. Target accession XP_001348533 was left ungrounded because PubChem did not provide a UniProtKB accession. call INACTIVE measurement type OTHER value 12.0 units uM
Inhibitors of Regulator of G Protein Signaling (RGS) 4: qHTS	OTHER 79.4328 uM; NOT_DETERMINED	Not recorded	pubchem.aid:504845 assay Inhibitors of Regulator of G Protein Signaling (RGS) 4: qHTS evidence reference pubchem.aid:504845 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 504845, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession ABC94591 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 79.4328 units uM
Nrf2 qHTS screen for inhibitors	OTHER 0.0065 uM; ACTIVE	Not recorded	pubchem.aid:504444 assay Nrf2 qHTS screen for inhibitors evidence reference pubchem.aid:504444 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 504444, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_001138884 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 0.0065 units uM
Nrf2 qHTS screen for inhibitors: A549 ARE-Fluc Cytotoxicity Counterscreen for Hit Validation	OTHER 10.3225 uM; ACTIVE	Not recorded	pubchem.aid:720523 assay Nrf2 qHTS screen for inhibitors: A549 ARE-Fluc Cytotoxicity Counterscreen for Hit Validation evidence reference pubchem.aid:720523 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720523, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. call ACTIVE measurement type OTHER value 10.3225 units uM activity class CYTOTOXIC
Nrf2 qHTS screen for inhibitors: Nrf2 A549 ARE-Fluc Confirmation Assay for Hit Validation	OTHER 6.5131 uM; ACTIVE	Not recorded	pubchem.aid:720524 assay Nrf2 qHTS screen for inhibitors: Nrf2 A549 ARE-Fluc Confirmation Assay for Hit Validation evidence reference pubchem.aid:720524 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720524, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_001138884 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 6.5131 units uM
Nrf2 qHTS screen for inhibitors: Purified Fluc Biochemical Counterscreen for Hit Validation	OTHER 13.4591 uM; NOT_DETERMINED	Not recorded	pubchem.aid:720522 assay Nrf2 qHTS screen for inhibitors: Purified Fluc Biochemical Counterscreen for Hit Validation evidence reference pubchem.aid:720522 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720522, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession ABM67533 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 13.4591 units uM
Nrf2 qHTS screen for inhibitors: counterscreen for cytotoxicity	OTHER 0.0046 uM; NOT_DETERMINED	Not recorded	pubchem.aid:504648 assay Nrf2 qHTS screen for inhibitors: counterscreen for cytotoxicity evidence reference pubchem.aid:504648 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 504648, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. call NOT_DETERMINED measurement type OTHER value 0.0046 units uM
Schnurri-3 Inhibitors: specific inducers of adult bone formation Measured in Cell-Based System Using Plate Reader - 2134-01_Inhibitor_Dose_CherryPick_Activity	OTHER 0.26 uM; ACTIVE	Not recorded	pubchem.aid:624132 assay Schnurri-3 Inhibitors: specific inducers of adult bone formation Measured in Cell-Based System Using Plate Reader - 2134-01_Inhibitor_Dose_CherryPick_Activity evidence reference pubchem.aid:624132 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 624132, deposited by Broad Institute; assay type Confirmatory. Source endpoint: AC50. call ACTIVE measurement type OTHER value 0.26 units uM
Schnurri-3 Inhibitors: specific inducers of adult bone formation Measured in Cell-Based System Using Plate Reader - 2134-01_Inhibitor_Dose_DryPowder_Activity_Set2	OTHER 0.26 uM; ACTIVE	Not recorded	pubchem.aid:743417 assay Schnurri-3 Inhibitors: specific inducers of adult bone formation Measured in Cell-Based System Using Plate Reader - 2134-01_Inhibitor_Dose_DryPowder_Activity_Set2 evidence reference pubchem.aid:743417 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 743417, deposited by Broad Institute; assay type Confirmatory. Source endpoint: AC50. call ACTIVE measurement type OTHER value 0.26 units uM
Shn3: Dual-Go Shn3RL cells Measured in Cell-Based System Using Plate Reader - 2134-02_Inhibitor_Dose_CherryPick_Activity	OTHER 0.26 uM; ACTIVE	Not recorded	pubchem.aid:624133 assay Shn3: Dual-Go Shn3RL cells Measured in Cell-Based System Using Plate Reader - 2134-02_Inhibitor_Dose_CherryPick_Activity evidence reference pubchem.aid:624133 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 624133, deposited by Broad Institute; assay type Confirmatory. Source endpoint: AC50. call ACTIVE measurement type OTHER value 0.26 units uM
Viability Counterscreen for Primary qHTS for Inhibitors of ATXN expression	OTHER 39.8107 uM; NOT_DETERMINED	Not recorded	PMID:35787375 assay Viability Counterscreen for Primary qHTS for Inhibitors of ATXN expression evidence reference PMID:35787375 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 651635, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. call NOT_DETERMINED measurement type OTHER value 39.8107 units uM
Viability Counterscreen for Primary qHTS for Inhibitors of ATXN expression	OTHER 39.8107 uM; NOT_DETERMINED	UniProtKB:Q99700	PMID:35787375 assay Viability Counterscreen for Primary qHTS for Inhibitors of ATXN expression evidence reference PMID:35787375 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 651635, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. call NOT_DETERMINED measurement type OTHER value 39.8107 units uM target enzyme UniProtKB:Q99700
qHTS Assay for Inhibitors of Hepatitis C Virus (HCV)	OTHER 7.0795 uM; NOT_DETERMINED	Not recorded	pubchem.aid:651820 assay qHTS Assay for Inhibitors of Hepatitis C Virus (HCV) evidence reference pubchem.aid:651820 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 651820, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. call NOT_DETERMINED measurement type OTHER value 7.0795 units uM
qHTS Assay for Inhibitors of Mammalian Selenoprotein Thioredoxin Reductase 1 (TrxR1): qHTS	OTHER 89.1251 uM; NOT_DETERMINED	Not recorded	pubchem.aid:588453 assay qHTS Assay for Inhibitors of Mammalian Selenoprotein Thioredoxin Reductase 1 (TrxR1): qHTS evidence reference pubchem.aid:588453 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 588453, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession AAC35244 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 89.1251 units uM
qHTS Assay for Inhibitors of the HIV-1 protein Vpr	OTHER 7.0795 uM; NOT_DETERMINED	Not recorded	pubchem.aid:651644 assay qHTS Assay for Inhibitors of the HIV-1 protein Vpr evidence reference pubchem.aid:651644 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 651644, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession NP_057852 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 7.0795 units uM
qHTS Assay for the Inhibitors of FEN1: Confirmatory Assay for Cherry-picked Compounds	OTHER 0.6012 uM; ACTIVE	Not recorded	pubchem.aid:720498 assay qHTS Assay for the Inhibitors of FEN1: Confirmatory Assay for Cherry-picked Compounds evidence reference pubchem.aid:720498 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720498, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_004102 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 0.6012 units uM activity class ENZYME_INHIBITOR
qHTS Assay for the Inhibitors of Human Flap endonuclease 1 (FEN1).	OTHER 0.5623 uM; ACTIVE	Not recorded	pubchem.aid:588795 assay qHTS Assay for the Inhibitors of Human Flap endonuclease 1 (FEN1). evidence reference pubchem.aid:588795 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 588795, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_004102 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 0.5623 units uM activity class ENZYME_INHIBITOR
qHTS Assay to Find Inhibitors of Pin1	OTHER 11.9955 uM; NOT_DETERMINED	Not recorded	pubchem.aid:504891 assay qHTS Assay to Find Inhibitors of Pin1 evidence reference pubchem.aid:504891 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 504891, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession NP_006212 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 11.9955 units uM
qHTS for Inhibitors of Glutaminase (GLS)	OTHER 11.2202 uM; NOT_DETERMINED	Not recorded	pubchem.aid:624170 assay qHTS for Inhibitors of Glutaminase (GLS) evidence reference pubchem.aid:624170 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 624170, deposited by NCGC; assay type Confirmatory. Source outcome: Inconclusive. Source endpoint: Potency. Target accession AAH38507 was left ungrounded because PubChem did not provide a UniProtKB accession. call NOT_DETERMINED measurement type OTHER value 11.2202 units uM
qHTS for Inhibitors of Polymerase Eta: Confirmatory Assay for Cherry-picked Compounds	OTHER 1.5101 uM; ACTIVE	Not recorded	pubchem.aid:720502 assay qHTS for Inhibitors of Polymerase Eta: Confirmatory Assay for Cherry-picked Compounds evidence reference pubchem.aid:720502 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720502, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_006493 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 1.5101 units uM activity class ENZYME_INHIBITOR
qHTS for Inhibitors of Polymerase Iota	OTHER 0.3162 uM; ACTIVE	Not recorded	pubchem.aid:588590 assay qHTS for Inhibitors of Polymerase Iota evidence reference pubchem.aid:588590 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 588590, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_009126 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 0.3162 units uM activity class ENZYME_INHIBITOR
qHTS for Inhibitors of Polymerase Iota: Confirmatory Assay for Cherry-picked Compounds	OTHER 1.5003 uM; ACTIVE	Not recorded	pubchem.aid:720496 assay qHTS for Inhibitors of Polymerase Iota: Confirmatory Assay for Cherry-picked Compounds evidence reference pubchem.aid:720496 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 720496, deposited by NCGC; assay type Confirmatory. Source endpoint: Potency. Target accession NP_009126 was left ungrounded because PubChem did not provide a UniProtKB accession. call ACTIVE measurement type OTHER value 1.5003 units uM activity class ENZYME_INHIBITOR notes 268 further PubChem assay results are in data/raw/pubchem_bioassay.tsv but not written here.