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613aae0000000011 SP ANN SEC14L1

Let me analyze the GO-CAM model with the information I've gathered:

Based on my review of GO-CAM model 613aae0000000011 (titled "SP-ANN-SEC14L1"), I can now provide a comprehensive assessment of the model. This model involves four molecular activities from three different proteins:

  1. RIG-I (UniProtKB:O95786) with activity:
  2. Pattern recognition receptor activity (GO:0038187)

  3. Located in cytoplasm (GO:0005737)

  4. MAVS (UniProtKB:Q7Z434) with two activities:

  5. RIG-I binding (GO:0039552) - located in mitochondrial membrane (GO:0031966)

  6. Molecular adaptor activity (GO:0060090) - located in mitochondrial membrane (GO:0031966)

  7. SEC14L1 (UniProtKB:Q92503) with activity:

  8. Protein sequestering activity (GO:0140311)
  9. Located in cytoplasm (GO:0005737)

The model represents antiviral innate immune response signaling through the RIG-I/MAVS pathway, with SEC14L1 acting as a negative regulator.

Assessment of the Model:

  1. Overall Structure: The model correctly depicts the RIG-I → MAVS signaling pathway with appropriate causal relationships:
  2. RIG-I pattern recognition receptor activity directly positively regulates MAVS RIG-I binding
  3. MAVS RIG-I binding directly positively regulates MAVS molecular adaptor activity

  4. SEC14L1 protein sequestering activity directly negatively regulates MAVS RIG-I binding

  5. Molecular Functions:

  6. The molecular functions are appropriately assigned to each protein based on their known biological roles
  7. RIG-I's pattern recognition receptor activity correctly represents its role in viral RNA detection
  8. MAVS's dual role as both binding RIG-I and acting as a molecular adaptor is properly represented

  9. SEC14L1's protein sequestering activity accurately reflects its negative regulatory role in RIG-I signaling

  10. Cellular Components:

  11. The cellular localization of each activity is appropriate:
  12. RIG-I in cytoplasm
  13. MAVS on mitochondrial membrane

  14. SEC14L1 in cytoplasm

  15. Causal Relationships:

  16. The causal relationships use appropriate predicates:
  17. "RO:0002629" (directly positively regulates) for activation steps

  18. "RO:0002630" (directly negatively regulates) for inhibition by SEC14L1

  19. Annotation Evidence:

  20. Each activity is supported by appropriate evidence codes (ECO:0000314 - direct assay evidence)
  21. Each activity references relevant literature (PMIDs)
  22. All activities have appropriate contributor information and dates

Compliance with GO-CAM Guidelines:

  1. Molecular Adaptor Activity Guidelines:
  2. MAVS is correctly represented as an adaptor protein
  3. The relationship between its RIG-I binding and adaptor activity follows guidelines

  4. The "directly positively regulates" relationship is appropriate for this regulatory interaction

  5. Protein Sequestering Activity Guidelines:

  6. SEC14L1's protein sequestering activity correctly uses the "directly negatively regulates" relationship

  7. This follows the guidelines for representing a sequestering activity that prevents an interaction

  8. Complex Annotation Guidelines:

  9. The model doesn't explicitly represent complexes, which is appropriate since the individual molecular activities of each protein are known and represented
  10. The activities are connected through causal relationships rather than complex formation

Biological Accuracy:

The model accurately captures the established biology of the RIG-I/MAVS antiviral signaling pathway: - RIG-I functions as a cytoplasmic sensor for viral RNA - Upon activation, RIG-I interacts with MAVS at the mitochondrial membrane - MAVS acts as an adaptor to propagate the signal - SEC14L1 negatively regulates this pathway by sequestering MAVS, preventing its interaction with RIG-I

The causal flow of the model is consistent with the direction of signal transduction in the actual biological pathway.

Conclusion:

The GO-CAM model 613aae0000000011 is well-constructed, biologically accurate, and follows GO-CAM best practices. It correctly represents the molecular activities, cellular locations, and causal relationships between the proteins involved in the RIG-I/MAVS signaling pathway and its negative regulation by SEC14L1.

The evidence and references provided for each activity are appropriate, and the model effectively communicates the biological knowledge about this pathway in a clear and standardized way.