Avs III system

traitmech:000536 · CLASS · PROPOSED

An AVAST system in which an organism possesses a genome-encoded subtype III locus represented by DefenseFinder with Avs3A and Avs3B profiles.

Trait evidence (7)

DOI:10.1126/science.aba0372
AVAST, antiviral ATPase/NTPase of the STAND superfamily

Gao et al. coined AVAST as an antiviral STAND ATPase/NTPase defense-system family.
DOI:10.1126/science.abm4096
Avs1 to Avs3 recognize the large terminase subunit, and Avs4 recognizes the portal

Gao et al. support Avs3 as a phage-protein-sensing member of the AVAST receptor family.
DOI:10.1126/science.abm4096
In all four cases, target recognition led to Avs protein activation and antiviral activity

Gao et al. connect Avs1 through Avs4 target recognition to Avs activation and antiviral activity.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md
| Avs | 10\.1126/science\.aba0372 | Diverse enzymatic activities mediate antiviral immunity in prokaryotes |

The pinned DefenseFinder article registry maps the Avs source key to the Gao et al. pangenome-scale antiviral-immunity paper.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_III__Avs3A | Avs_III__Avs3A | Avs_III | Custom | 20 |

The pinned DefenseFinder HMM inventory records Avs_III__Avs3A under the Avs_III model namespace.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_III__Avs3B | Avs_III__Avs3B | Avs_III | Custom | 34 |

The pinned DefenseFinder HMM inventory records Avs_III__Avs3B under the Avs_III model namespace.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs Avs_III 2 2 Avs_III__Avs3A, Avs_III__Avs3B

The pinned DefenseFinder rules table models Avs_III as an Avs subsystem with Avs3A and Avs3B profiles.

Avs III loci support phage protein recognition

Conservative system-level sketch linking an Avs_III locus to Avs3-mediated phage protein recognition and Avs III system possession.

NONMECHANISTIC · The graph captures Avs_III at locus and Avs3 phage-protein recognition level without asserting the exact Avs3A and Avs3B component roles, direct effector activity, native host breadth, sensitive-phage breadth, or whether every DefenseFinder Avs_III prediction is a complete experimentally active Avs III locus.

Edge evidence

Avs III locus contributes to Avs3 phage protein recognition RO:0002326
Avs III loci encode Avs3 components, and Avs3 belongs to the AVAST receptors that recognize the phage large terminase subunit.
- DOI:10.1126/science.abm4096 Avs1 to Avs3 recognize the large terminase subunit, and Avs4 recognizes the portal Gao et al. support Avs3 as a phage-protein-sensing member of the AVAST receptor family.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | Avs_III__Avs3A | Avs_III__Avs3A | Avs_III | Custom | 20 | The pinned DefenseFinder HMM inventory records Avs_III__Avs3A under the Avs_III model namespace.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | Avs_III__Avs3B | Avs_III__Avs3B | Avs_III | Custom | 34 | The pinned DefenseFinder HMM inventory records Avs_III__Avs3B under the Avs_III model namespace.
Avs3 phage protein recognition confers Avs III system METPO:2007700
The first-pass Avs III system trait is realized by Avs3 target recognition and downstream antiviral activity.
- DOI:10.1126/science.abm4096 Avs1 to Avs3 recognize the large terminase subunit, and Avs4 recognizes the portal Gao et al. support Avs3 as a phage-protein-sensing member of the AVAST receptor family.
- DOI:10.1126/science.abm4096 In all four cases, target recognition led to Avs protein activation and antiviral activity Gao et al. connect Avs1 through Avs4 target recognition to Avs activation and antiviral activity.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv Avs Avs_III 2 2 Avs_III__Avs3A, Avs_III__Avs3B The pinned DefenseFinder rules table models Avs_III as an Avs subsystem with Avs3A and Avs3B profiles.
Avs III system is a AVAST system rdfs:subClassOf
Avs III system possession is an AVAST-system trait.
- DOI:10.1126/science.aba0372 AVAST, antiviral ATPase/NTPase of the STAND superfamily Gao et al. coined AVAST as an antiviral STAND ATPase/NTPase defense-system family.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md | Avs | 10\.1126/science\.aba0372 | Diverse enzymatic activities mediate antiviral immunity in prokaryotes | The pinned DefenseFinder article registry maps the Avs source key to the Gao et al. pangenome-scale antiviral-immunity paper.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv Avs Avs_III 2 2 Avs_III__Avs3A, Avs_III__Avs3B The pinned DefenseFinder rules table models Avs_III as an Avs subsystem with Avs3A and Avs3B profiles.

Provenance

Identifier source: TraitMech local identifier
Definition source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv

Parent traits (1)

AVAST system traitmech:000239

Synonyms (3)

Avs_III RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs_III__Avs3A RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
Avs_III__Avs3B RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md

kg-microbe context

No kg-microbe node embedding matched this record in the 2026-04-25 deepwalk.

Discussions and Knowledge Gaps (1)

Open questions attached to this trait. Seeded by just knowledge-gap-scan and curated; see the corpus-wide index.

Resolve the Avs3A and Avs3B component roles, direct effector chemistry, exact phage-trigger mapping, native host breadth, and sensitive-phage breadth before minting Avs III mechanism or component children.

KNOWLEDGE GAP OPEN avs-iii-component-and-effector-gap · raised by codex · 2026-10-02

Attached to causal_graphs#avs_iii_locus_phage_protein_recognition

Gao et al. support Avs3 phage-protein recognition and Avs activation during antiviral defense, and the pinned DefenseFinder HMM inventory and rules table support Avs_III as a subtype III model with Avs3A and Avs3B profiles. This first-pass record leaves the exact component roles, downstream effector chemistry, native host breadth, sensitive-phage breadth, and profile-to-activity requirements unresolved.

Evidence

DOI:10.1126/science.abm4096
Avs1 to Avs3 recognize the large terminase subunit, and Avs4 recognizes the portal
DOI:10.1126/science.abm4096
In all four cases, target recognition led to Avs protein activation and antiviral activity
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_III__Avs3A | Avs_III__Avs3A | Avs_III | Custom | 20 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_III__Avs3B | Avs_III__Avs3B | Avs_III | Custom | 34 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs Avs_III 2 2 Avs_III__Avs3A, Avs_III__Avs3B

Curation history

2026-10-02T05:44:32Z · MINTED_TRAITMECH_ID · codex
Minted Avs III system as a DOI- and DefenseFinder-backed GENOMICS TraitRecord under the AVAST system parent after an ignored-and-hidden duplicate review found no exact live TraitMech, METPO, history, or prior proposal record; the replacement placeholder is reserved in proposals/metpo_traitmech_v413.
2026-10-02T05:44:33Z · REVIEW_CANONICAL_EXAMPLE_EVIDENCE_GAP · codex
Reviewed Avs III system during initial curation and left canonical_examples empty because Gao et al. and the pinned DefenseFinder tables support the Avs_III model namespace and Avs3 phage-protein-recognition activity but not an accession-backed native microbial taxon exemplar with experimentally verified endogenous Avs III activity. No paid research was used.