identifier: traitmech:000562
label: Lamassu-Lipase system
definition: A Lamassu system in which an organism possesses a genome-encoded DefenseFinder
  Lamassu-Lipase subtype locus represented by the Lamassu-Lipase rule row requiring
  the Lamassu-Fam__LmuA_effector_Lipase 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-Lipase
  synonym_type: RELATED_SYNONYM
  source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
- synonym_text: Lamassu-Fam__LmuA_effector_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_Lipase                | Lamassu-Fam__LmuA_effector_Lipase                |
    Lamassu-Fam            | Custom                  | 20     |'
  notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuA_effector_Lipase
    custom profile listed as mandatory by the Lamassu-Lipase 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, which the Lamassu-Lipase rule row lists as mandatory despite the
    HMM inventory also carrying a Lipase-scoped LmuB SMC profile.
- reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
  snippet: '| Lamassu-Fam__LmuB_SMC_Lipase                     | Lamassu-Fam__LmuB_SMC_Lipase                     |
    Lamassu-Fam            | Custom                  | 20     |'
  notes: The pinned DefenseFinder HMM inventory records a Lamassu-Fam__LmuB_SMC_Lipase
    custom profile that is not the LmuB SMC profile named by the pinned Lamassu-Lipase
    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-Lipase rule row.
- reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
  snippet: "Lamassu-Fam\tLamassu-Lipase\t2\t2\tLamassu-Fam__LmuA_effector_Lipase,\
    \ Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\tLamassu-Fam__LmuC_acc_Lipase\tLamassu-Fam__LmuA_effector_Amidase,\
    \ Lamassu-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_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-Lipase as a Lamassu-Fam
    subsystem requiring Lamassu-Fam__LmuA_effector_Lipase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II,
    with Lamassu-Fam__LmuC_acc_Lipase as an accessory profile.
causal_graphs:
- graph_id: lamassu_lipase_locus_subtype_defense
  title: Lamassu-Lipase is a DefenseFinder Lamassu subtype
  description: Conservative subtype-level classification linking the DefenseFinder
    Lamassu-Lipase rule-row definition to Lamassu-Lipase system possession and its
    Lamassu parent.
  scope_status: NONMECHANISTIC
  scope_notes: The graph captures Lamassu-Lipase as a DefenseFinder rule-row subtype
    of Lamassu system possession without asserting a Lamassu-Lipase-specific antiphage
    process, selecting between the rule-row LmuB profile and the Lipase-scoped LmuB
    HMM row, or resolving exact phage-triggered substrate chemistry, viral-DNA trigger,
    LmuC requirement, native host breadth, cell-death output, or whether every DefenseFinder
    Lamassu-Lipase prediction is a complete experimentally active locus.
  nodes:
  - node_id: lamassu_lipase_system_trait
    label: Lamassu-Lipase system
    node_type: TRAIT
    grounding: traitmech:000562
    description: Possession of a genome-encoded Lamassu-Lipase 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_lipase_system_trait
    predicate: is a
    predicate_id: rdfs:subClassOf
    object: lamassu_system_trait
    description: Lamassu-Lipase 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-Lipase\t2\t2"
      notes: The pinned DefenseFinder rules table places the Lamassu-Lipase subsystem
        under the Lamassu-Fam system key with 2 mandatory matches and 2 genes required.
discussions:
- discussion_id: lamassu-lipase-activity-gap
  prompt: Resolve Lamassu-Lipase phage triggers, native hosts, lipase effector substrates,
    LmuB/LmuC model rows, 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-Lipase as a Lamassu-Fam subtype whose rule row requires
    Lamassu-Fam__LmuA_effector_Lipase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II.
    This first-pass record follows the rule row but leaves the relationship between
    its LmuB Cap4-nuclease profile name and the Lipase-scoped Lamassu-Fam__LmuB_SMC_Lipase
    HMM row unresolved, along with exact lipase substrates, LmuC requirement, native
    hosts, phage triggers, cell-death output, and profile-to-activity criteria.
  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_Lipase                | Lamassu-Fam__LmuA_effector_Lipase                |
      Lamassu-Fam            | Custom                  | 20     |'
    notes: The pinned DefenseFinder HMM inventory records the Lamassu-Fam__LmuA_effector_Lipase
      custom profile listed as mandatory by the Lamassu-Lipase rule row.
  - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
    snippet: '| Lamassu-Fam__LmuB_SMC_Lipase                     | Lamassu-Fam__LmuB_SMC_Lipase                     |
      Lamassu-Fam            | Custom                  | 20     |'
    notes: The pinned DefenseFinder HMM inventory records a Lamassu-Fam__LmuB_SMC_Lipase
      custom profile that is not the LmuB SMC profile named by the pinned Lamassu-Lipase
      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-Lipase rule row.
  - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv
    snippet: "Lamassu-Fam\tLamassu-Lipase\t2\t2\tLamassu-Fam__LmuA_effector_Lipase,\
      \ Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\tLamassu-Fam__LmuC_acc_Lipase\tLamassu-Fam__LmuA_effector_Amidase,\
      \ Lamassu-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_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-Lipase as a Lamassu-Fam
      subsystem requiring Lamassu-Fam__LmuA_effector_Lipase and Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II,
      with Lamassu-Fam__LmuC_acc_Lipase as an accessory profile.
  attaches_to:
  - causal_graphs#lamassu_lipase_locus_subtype_defense
  posed_by: codex
  posed_date: '2026-10-03'
curation_history:
- timestamp: '2026-10-03T03:48:00Z'
  curator: codex
  action: MINTED_TRAITMECH_ID
  changes: Minted Lamassu-Lipase 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, or
    DefenseFinder subsystem; existing Lamassu-Fam__LmuA_effector_Lipase mentions were
    limited to forbidden-profile evidence on neighboring Lamassu-Fam subtypes, and
    the replacement placeholder is reserved in proposals/metpo_traitmech_v439.
  llm_assisted: true
- timestamp: '2026-10-03T03:48:02Z'
  curator: codex
  action: REVIEW_CANONICAL_EXAMPLE_EVIDENCE_GAP
  changes: Reviewed Lamassu-Lipase 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-Lipase
    profiles and experimentally verified endogenous activity. No paid research was
    used.
  llm_assisted: true