Analysis Tools · MVA · BUB1B · structure
BUBR1 AlphaFold model: residues 1002, 1012 and the L737* transcript context
- Archived result
- Executed reanalysis
- Exploration
What it is not. Predicted-model geometry. pLDDT is model confidence, not evidence of function; nothing here is a pathogenicity call or a drug-binding result.
Dates, kept apart
- Archived result recorded
- Versioned in the research repository; see the execution record
- Executions
- 2026-09-10 11:15:52 UTC · research repository
- Repository commit
a434af9- This page rendered
- · a view date, not an execution or publication date
Values read from the files
Read from the versioned result files of the research repository at commit a434af9, verified by SHA-256.
| Quantity | Value | Unit | Source file |
|---|---|---|---|
| Model | AF-O60566-F1-model_v6 | AlphaFold DB (predicted) | metrics.json (research repository) |
| Sequence length | 1,050 | residues | metrics.json (research repository) |
| pLDDT, residue 1002 (Asn) | 91.06 | model confidence | metrics.json (research repository) |
| SASA, residue 1002 | 27.04 | Ų | metrics.json (research repository) |
| Relative SASA, residue 1002 (Tien 2013) | 13.87 | % | metrics.json (research repository) |
| Backbone description, residue 1002 | non-alpha/turn-or-loop; no DSSP assignment | Phi/Psi proxy, not DSSP | metrics.json (research repository) |
| pLDDT, residue 1012 (Leu) | 95.31 | model confidence | metrics.json (research repository) |
| SASA, residue 1012 | 0.00086 | Ų | metrics.json (research repository) |
| Cα distance 1002–1012 | 12.32 | Å | metrics.json (research repository) |
| Mean pLDDT, residues 985–1020 | 89.79 | model confidence | metrics.json (research repository) |
| L737*: codon change and exon | TTA → TGA, exon 17, +4 base A, 73 nt to the next junction | NM_001211.6 | metrics.json (research repository) |
| N1002K: codon change and exon | AAT → AAG, exon 23 (last exon), +4 base G | NM_001211.6 | metrics.json (research repository) |
Execution records
Each row is a run with a record. “Match” means the output bytes hash to the archived value: deterministic computation reproduced, nothing more.
| Execution / record time | What ran | Environment | Inputs | Artifacts versus archive | Record |
|---|---|---|---|---|---|
| Research repository | Structure analysis reproduction by the research repository (September 10, 2026)Initial native runtime exited 135. Installed pinned dependencies in a clean directory using GCC; downloaded truncated public PAE reference again and verified its original hash. Final execution succeeded. | Not recorded | 4 / 4 verified by SHA-256Public reference files (AlphaFold model, PAE, UniProt entry, RefSeq transcript) verified against audited SHA-256 values. |
|
Record (JSON) At the commit |
Traceability
- Primary source
- See the dataset and the research repository documents below.
- Dataset
- AlphaFold DB model AF-O60566-F1 (v6) and its PAE file, UniProt O60566, RefSeq NM_001211.6; SHA-256 of each recorded in metrics.json.
- Biological model
- A predicted model (AlphaFold), not an experimental structure. The two experimental structures checked (5KHU chain Q, 6TLJ chain S) do not cover residues 1002 or 1012.
- Samples
- Not applicable: one predicted model of one sequence.
- Parameters
- SASA: Lee–Richards, probe 1.4 Å, 100 slices; cross-checked with Shrake–Rupley (960 points)
- Relative SASA with Tien 2013, Miller 1987 and FreeSASA references
- Rotamer grid: geometric clash search, no energies
- Script
- Not vendored here; the command below names it in the research repository.
- Command
python track2/structure/analyze_bubr1.py --cache data/reference/track2 --out track2/structure/results
Downloads
Provenance manifest (JSON)
Analysis (JSON)
The manifest lists sources, model, samples, parameters, script, commit, inputs, execution records and every file below with its SHA-256. Its generatedAt is when it was written, not an execution date.