identifier: traitmech:000556 label: Lamassu-Amidase system definition: A Lamassu system in which an organism possesses a genome-encoded DefenseFinder Lamassu-Amidase subtype locus represented by the Lamassu-Amidase rule row requiring the Lamassu-Fam__LmuA_effector_Amidase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II profiles. definition_source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv trait_category: GENOMICS term_kind: CLASS mapping_status: PROPOSED parent_traits: - traitmech:000232 synonyms: - synonym_text: Lamassu-Amidase synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv - synonym_text: Lamassu-Fam__LmuA_effector_Amidase synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md - synonym_text: Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md - synonym_text: Lamassu-Fam__LmuC_acc_Lipase synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md evidence: - reference: DOI:10.1073/pnas.2519643122 snippet: a bacterial immune system family featuring diverse effectors but a core conserved SMC-like sensor notes: Haudiquet et al. support placing Lamassu subtypes under a Lamassu family with diverse LmuA effectors and a conserved SMC-like sensor. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md snippet: '| Lamassu-Fam | 10\.1101/2022\.05\.11\.491447 | An expanding arsenal of immune systems that protect bacteria from phages | ' notes: The pinned DefenseFinder article registry maps the Lamassu-Fam model namespace to a bacterial immune-systems preprint. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuA_effector_Amidase custom profile listed as mandatory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II | Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II custom profile listed as mandatory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuC_acc_Lipase | Lamassu-Fam__LmuC_acc_Lipase | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuC_acc_Lipase custom profile listed as accessory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "Lamassu-Fam\tLamassu-Amidase\t2\t2\tLamassu-Fam__LmuA_effector_Amidase,\ \ Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\tLamassu-Fam__LmuC_acc_Lipase\tLamassu-Fam__LmuA_effector_Cap4_nuclease,\ \ Lamassu-Fam__LmuA_effector_Cap4_nuclease_II, Lamassu-Fam__LmuA_effector_FMO,\ \ Lamassu-Fam__LmuA_effector_Hydrolase, Lamassu-Fam__LmuA_effector_Lipase, Lamassu-Fam__LmuA_effector_Mrr,\ \ Lamassu-Fam__LmuA_effector_PDDEXK, Lamassu-Fam__LmuA_effector_Protease, Lamassu-Fam__LmuA_effector_Sir2,\ \ Lamassu-Fam__LmuA_effector_hypothetical\t" notes: The pinned DefenseFinder rules table models Lamassu-Amidase as a Lamassu-Fam subsystem requiring Lamassu-Fam__LmuA_effector_Amidase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II, with Lamassu-Fam__LmuC_acc_Lipase as an accessory profile. causal_graphs: - graph_id: lamassu_amidase_locus_subtype_defense title: Lamassu-Amidase loci mark a Lamassu antiphage subtype description: Conservative subtype-level sketch linking a DefenseFinder Lamassu-Amidase locus to Lamassu antiphage activity and Lamassu-Amidase system possession. scope_status: NONMECHANISTIC scope_notes: The graph captures the Lamassu-Amidase subtype at DefenseFinder rule-row level without asserting the exact amidase substrate, viral-DNA trigger, LmuC requirement, native host breadth, cell-death output, or whether every DefenseFinder Lamassu-Amidase prediction is a complete experimentally active locus. nodes: - node_id: lamassu_amidase_locus label: Lamassu-Amidase locus node_type: GENETIC_ELEMENT description: A DefenseFinder Lamassu-Amidase subtype locus represented by LmuA amidase and LmuB SMC mandatory profiles. - node_id: lamassu_subtype_antiphage_activity label: Lamassu subtype antiphage activity node_type: BIOLOGICAL_PROCESS description: Antiphage activity of a Lamassu-Fam subtype locus with a specific LmuA effector profile. - node_id: lamassu_amidase_system_trait label: Lamassu-Amidase system node_type: TRAIT grounding: traitmech:000556 description: Possession of a genome-encoded Lamassu-Amidase phage-defense system. - node_id: lamassu_system_trait label: Lamassu system node_type: TRAIT grounding: traitmech:000232 description: Possession of a genome-encoded Lamassu phage-defense system. edges: - subject: lamassu_amidase_locus predicate: contributes to predicate_id: RO:0002326 object: lamassu_subtype_antiphage_activity description: Lamassu-Amidase loci are modeled in DefenseFinder by LmuA amidase and LmuB SMC mandatory profiles plus an LmuC accessory profile. evidence: - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuA_effector_Amidase custom profile listed as mandatory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II | Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II custom profile listed as mandatory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuC_acc_Lipase | Lamassu-Fam__LmuC_acc_Lipase | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuC_acc_Lipase custom profile listed as accessory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "Lamassu-Fam\tLamassu-Amidase\t2\t2\tLamassu-Fam__LmuA_effector_Amidase,\ \ Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\tLamassu-Fam__LmuC_acc_Lipase\tLamassu-Fam__LmuA_effector_Cap4_nuclease,\ \ Lamassu-Fam__LmuA_effector_Cap4_nuclease_II, Lamassu-Fam__LmuA_effector_FMO,\ \ Lamassu-Fam__LmuA_effector_Hydrolase, Lamassu-Fam__LmuA_effector_Lipase,\ \ Lamassu-Fam__LmuA_effector_Mrr, Lamassu-Fam__LmuA_effector_PDDEXK, Lamassu-Fam__LmuA_effector_Protease,\ \ Lamassu-Fam__LmuA_effector_Sir2, Lamassu-Fam__LmuA_effector_hypothetical\t" notes: The pinned DefenseFinder rules table models Lamassu-Amidase as a Lamassu-Fam subsystem requiring Lamassu-Fam__LmuA_effector_Amidase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II, with Lamassu-Fam__LmuC_acc_Lipase as an accessory profile. - subject: lamassu_subtype_antiphage_activity predicate: confers predicate_id: METPO:2007700 object: lamassu_amidase_system_trait description: The first-pass Lamassu-Amidase system trait is realized by a DefenseFinder Lamassu-Amidase subtype locus. evidence: - reference: DOI:10.1073/pnas.2519643122 snippet: a bacterial immune system family featuring diverse effectors but a core conserved SMC-like sensor notes: Haudiquet et al. support placing Lamassu subtypes under a Lamassu family with diverse LmuA effectors and a conserved SMC-like sensor. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "Lamassu-Amidase\t2\t2\tLamassu-Fam__LmuA_effector_Amidase, Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\t\ Lamassu-Fam__LmuC_acc_Lipase" notes: The pinned DefenseFinder rules table models Lamassu-Amidase as requiring LmuA amidase and LmuB SMC profiles with LmuC as an accessory profile. - subject: lamassu_amidase_system_trait predicate: is a predicate_id: rdfs:subClassOf object: lamassu_system_trait description: Lamassu-Amidase system possession is a Lamassu-system trait. evidence: - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md snippet: '| Lamassu-Fam | 10\.1101/2022\.05\.11\.491447 | An expanding arsenal of immune systems that protect bacteria from phages | ' notes: The pinned DefenseFinder article registry maps the Lamassu-Fam model namespace to a bacterial immune-systems preprint. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "Lamassu-Fam\tLamassu-Amidase\t2\t2" notes: The pinned DefenseFinder rules table places the Lamassu-Amidase subsystem under the Lamassu-Fam system key with 2 mandatory matches and 2 genes required. discussions: - discussion_id: lamassu-amidase-activity-gap prompt: Resolve Lamassu-Amidase phage triggers, native hosts, amidase effector substrates, LmuC usage, and profile-to-activity criteria before minting enzyme, trigger, or component children. kind: KNOWLEDGE_GAP status: OPEN rationale: Haudiquet et al. support a Lamassu family with diverse LmuA effectors and a conserved SMC-like sensor, and the pinned DefenseFinder HMM inventory and rules table support Lamassu-Amidase as a Lamassu-Fam subtype whose rule row requires Lamassu-Fam__LmuA_effector_Amidase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II. This first-pass record leaves exact amidase substrate, LmuC requirement, native hosts, phage triggers, cell-death output, and profile-to-activity criteria unresolved. evidence: - reference: DOI:10.1073/pnas.2519643122 snippet: a bacterial immune system family featuring diverse effectors but a core conserved SMC-like sensor notes: Haudiquet et al. support placing Lamassu subtypes under a Lamassu family with diverse LmuA effectors and a conserved SMC-like sensor. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam__LmuA_effector_Amidase | Lamassu-Fam | Custom | 20 |' notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuA_effector_Amidase custom profile listed as mandatory by the Lamassu-Amidase rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "Lamassu-Fam\tLamassu-Amidase\t2\t2\tLamassu-Fam__LmuA_effector_Amidase,\ \ Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\tLamassu-Fam__LmuC_acc_Lipase\tLamassu-Fam__LmuA_effector_Cap4_nuclease,\ \ Lamassu-Fam__LmuA_effector_Cap4_nuclease_II, Lamassu-Fam__LmuA_effector_FMO,\ \ Lamassu-Fam__LmuA_effector_Hydrolase, Lamassu-Fam__LmuA_effector_Lipase, Lamassu-Fam__LmuA_effector_Mrr,\ \ Lamassu-Fam__LmuA_effector_PDDEXK, Lamassu-Fam__LmuA_effector_Protease, Lamassu-Fam__LmuA_effector_Sir2,\ \ Lamassu-Fam__LmuA_effector_hypothetical\t" notes: The pinned DefenseFinder rules table models Lamassu-Amidase as a Lamassu-Fam subsystem requiring Lamassu-Fam__LmuA_effector_Amidase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II, with Lamassu-Fam__LmuC_acc_Lipase as an accessory profile. attaches_to: - causal_graphs#lamassu_amidase_locus_subtype_defense posed_by: codex posed_date: '2026-10-02' curation_history: - timestamp: '2026-10-02T21:43:24Z' curator: codex action: MINTED_TRAITMECH_ID changes: Minted Lamassu-Amidase system as a DefenseFinder-backed GENOMICS TraitRecord under the Lamassu system parent after an ignored-and-hidden duplicate review found no exact live TraitMech, METPO, history, or prior proposal record for the target local ID, placeholder METPO ID, proposal cohort, record slug, human label, DefenseFinder subsystem, or LmuA amidase profile string; the replacement placeholder is reserved in proposals/metpo_traitmech_v433. llm_assisted: true - timestamp: '2026-10-02T21:43:26Z' curator: codex action: REVIEW_CANONICAL_EXAMPLE_EVIDENCE_GAP changes: Reviewed Lamassu-Amidase system during initial curation and left canonical_examples empty because the pinned DefenseFinder tables support a rule-row subtype but not an accession-backed native microbial taxon exemplar tied to the Lamassu-Amidase profiles and experimentally verified endogenous activity. No paid research was used. llm_assisted: true