SNIPE GO Issue: Supporting Bioinformatics Note

This note contains detailed architecture-analysis support for the InterPro2GO section of:

• go-issue-antiviral-nucleic-acid-defense.md

Scope

Question addressed:

IPR025280 + GIY-YIG nuclease + membrane targeting features

for an architecture-aware mapping strategy.

Data source

Analysis outputs are in:

• genes/ECOLX/SNIPE/SNIPE-bioinformatics/results/IPR025280/
• genes/ECOLX/SNIPE/SNIPE-bioinformatics/RESULTS.md

Key observations

• IPR025280 proteins are distributed across 17 architectures (n=1612 proteins total).
• Catalytic co-features are dominated by:
• PF13455 (73.76%)
• IPR018306/PF10544 (17.18%)
• Combined catalytic coverage: 90.94%
• Membrane-targeting evidence:
• N-terminal TM-like heuristic signal in 61.41% of proteins
• Dominant architecture representatives show N-terminal TM/signal features
• Rare but explicit membrane-associated accessory domains include IPR039519 and IPR007829
• IPR018929 can be treated as lower-confidence, optional membrane-linked support

Suggested architecture-aware combination

IPR025280
AND (PF13455 OR IPR018306/PF10544)
AND (
  N-terminal TM/signal-peptide feature
  OR IPR007829
  OR IPR039519
  OR [lower-confidence] IPR018929
)

Intent

This supports a conservative recommendation: avoid mapping IPR025280 alone to catalytic or membrane GO terms; require architecture-level evidence.