LiPP benchmark set
Benchmark of lipid-protein complex structure prediction: 331 experimental lipid-protein complexes curated from BioDolphin v1.1, with a 36-complex test subset released after every tool's training cutoff.
Results are recorded on the linked protocols, tasks or configurations listed below. Their settings and evaluations are kept separate.
Overview
An explanatory profile has not yet been reviewed for this record.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Results on linked records
This benchmark has no results of its own in this release. 7 linked records have results. They are not assigned to the underlying benchmark: each record keeps its own settings and evaluations, and its scores are on its own page.
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, Full LiPP set Protocol · part of this benchmark · 5 evaluations · 5 results
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, LiPP test set Protocol · part of this benchmark · 5 evaluations · 5 results
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, PoseBusters v2 Protocol · part of this benchmark · 1 evaluation · 1 result
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, Full LiPP set Protocol · part of this benchmark · 5 evaluations · 5 results
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, LiPP test set Protocol · part of this benchmark · 5 evaluations · 5 results
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v1 Protocol · part of this benchmark · 3 evaluations · 3 results
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v2 Protocol · part of this benchmark · 3 evaluations · 3 results
Methods and evaluation design
Procedure, tasks and evaluated configurations
Baseline coverage
Reference methods help show what a model adds beyond simple controls. We track a null control and a conventional method for each protocol.
0 of 14 active baseline roles have published Rewire measurements in this release. Measurements on a selected protocol do not establish coverage of an entire suite.
Baseline status by linked protocol
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, Full LiPP set · 0/2 roles measured
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, LiPP test set · 0/2 roles measured
- LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, PoseBusters v2 · 0/2 roles measured
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, Full LiPP set · 0/2 roles measured
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, LiPP test set · 0/2 roles measured
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v1 · 0/2 roles measured
- LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v2 · 0/2 roles measured
Protocol coverage CSV (gzip) · Model evaluation matrix (gzip) · Source table (gzip) · Release and checksums (gzip)
Coverage is derived from release 2026-10-22-1b7cf027e4f6. Source citations describe the original records; they do not validate an unreviewed baseline proposal. No results have been generated by this audit.
Run instructions
No runnable recipe has been reviewed for this benchmark. Dataset access, model requirements, licences and compute requirements must be checked against its sources before execution.
Strengths, limitations and unresolved questions
Evidence
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Evidence table
Inspect claims, sources and review details
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Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- The LiPP Benchmark Set for Modeling Lipid–Protein Complexes: Comparison of Co-Folding and Docking Methods · Original source · PMC13292216.1
Technical metadata and extraction receipts
Stable ID: lit-structure-20261011-lipp-benchmark-lipp
- areas
- protein-structure; molecular-interactions
- contexts
- research
- entity level
- suite
- version
- LiPP as published 2026 (BioDolphin v1.1)
- task
- Predict the pose of a lipid bound to a protein
- scope note
- Success is a lipid pose with all-atom RMSD below 2 Angstrom; a second criterion also requires the pose to be PoseBusters valid.
- source locator
- Results and Discussion, 'LiPP Benchmark Set'; Tables 2 and 3
- limitations
- Lipid poses only; the protein fold accuracy is assessed elsewhere in the paper.
Related records
- part of: LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, Full LiPP set
- part of: LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, LiPP test set
- part of: LiPP Table 3: RMSD below 2 Angstrom and PoseBusters valid, PoseBusters v2
- part of: LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, Full LiPP set
- part of: LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, LiPP test set
- part of: LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v1
- part of: LiPP Table 2: lipid pose all-atom RMSD below 2 Angstrom, PoseBusters v2