Avs I system

traitmech:000534 · CLASS · PROPOSED

An AVAST system in which an organism possesses a genome-encoded subtype I locus represented by DefenseFinder with Avs1A, Avs1B, and Avs1C profiles.

Trait evidence (8)

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 Avs1 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_I__Avs1A | Avs_I__Avs1A | Avs_I | Custom | 20 |

The pinned DefenseFinder HMM inventory records Avs_I__Avs1A under the Avs_I model namespace.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_I__Avs1B | Avs_I__Avs1B | Avs_I | Custom | 100 |

The pinned DefenseFinder HMM inventory records Avs_I__Avs1B under the Avs_I model namespace.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_I__Avs1C | Avs_I__Avs1C | Avs_I | Custom | 20 |

The pinned DefenseFinder HMM inventory records Avs_I__Avs1C under the Avs_I model namespace.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs Avs_I 2 2 Avs_I__Avs1A, Avs_I__Avs1B, Avs_I__Avs1C

The pinned DefenseFinder rules table models Avs_I as an Avs subsystem with Avs1A, Avs1B, and Avs1C profiles.

Avs I loci support phage protein recognition

Conservative system-level sketch linking an Avs_I locus to Avs1-mediated phage protein recognition and Avs I system possession.

NONMECHANISTIC · The graph captures Avs_I at locus and Avs1 phage-protein recognition level without asserting the exact Avs1A, Avs1B, and Avs1C component roles, the direct effector activity, native host breadth, sensitive-phage breadth, or whether every DefenseFinder Avs_I prediction is a complete experimentally active Avs I locus.

Edge evidence

Avs I locus contributes to Avs1 phage protein recognition RO:0002326
Avs I loci encode Avs1 components, and Avs1 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 Avs1 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_I__Avs1A | Avs_I__Avs1A | Avs_I | Custom | 20 | The pinned DefenseFinder HMM inventory records Avs_I__Avs1A under the Avs_I model namespace.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | Avs_I__Avs1B | Avs_I__Avs1B | Avs_I | Custom | 100 | The pinned DefenseFinder HMM inventory records Avs_I__Avs1B under the Avs_I model namespace.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | Avs_I__Avs1C | Avs_I__Avs1C | Avs_I | Custom | 20 | The pinned DefenseFinder HMM inventory records Avs_I__Avs1C under the Avs_I model namespace.
Avs1 phage protein recognition confers Avs I system METPO:2007700
The first-pass Avs I system trait is realized by Avs1 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 Avs1 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_I 2 2 Avs_I__Avs1A, Avs_I__Avs1B, Avs_I__Avs1C The pinned DefenseFinder rules table models Avs_I as an Avs subsystem with Avs1A, Avs1B, and Avs1C profiles.
Avs I system is a AVAST system rdfs:subClassOf
Avs I 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_I 2 2 Avs_I__Avs1A, Avs_I__Avs1B, Avs_I__Avs1C The pinned DefenseFinder rules table models Avs_I as an Avs subsystem with Avs1A, Avs1B, and Avs1C 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 (4)

Avs_I RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs_I__Avs1A RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
Avs_I__Avs1B RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
Avs_I__Avs1C 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 Avs1A, Avs1B, and Avs1C component roles, direct effector chemistry, exact phage-trigger mapping, native host breadth, and sensitive-phage breadth before minting Avs I mechanism or component children.

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

Attached to causal_graphs#avs_i_locus_phage_protein_recognition

Gao et al. support Avs1 phage-protein recognition and Avs activation during antiviral defense, and the pinned DefenseFinder HMM inventory and rules table support Avs_I as a subtype I model with Avs1A, Avs1B, and Avs1C profiles. This first-pass record leaves the exact component functions, 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_I__Avs1A | Avs_I__Avs1A | Avs_I | Custom | 20 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_I__Avs1B | Avs_I__Avs1B | Avs_I | Custom | 100 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| Avs_I__Avs1C | Avs_I__Avs1C | Avs_I | Custom | 20 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
Avs Avs_I 2 2 Avs_I__Avs1A, Avs_I__Avs1B, Avs_I__Avs1C

Curation history

2026-10-02T04:42:00Z · MINTED_TRAITMECH_ID · codex
Minted Avs I 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_v411.
2026-10-02T04:42:01Z · REVIEW_CANONICAL_EXAMPLE_EVIDENCE_GAP · codex
Reviewed Avs I system during initial curation and left canonical_examples empty because Gao et al. and the pinned DefenseFinder tables support the Avs_I model namespace and Avs1 phage-protein-recognition activity but not an accession-backed native microbial taxon exemplar with experimentally verified endogenous Avs I activity. No paid research was used.