bio-structural-biology-alphafold-predictions SKILL.md skillA
bio-structural-biology-alphafold-predictions from fridrichmethod/awesome-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fridrichmethod/awesome-skills/bio-structural-biology-alphafold-predictions@git:20260705.1380472Pins git:20260705.1380472 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fridrichmethod/awesome-skills
- Path
skills/alphafold-predictions/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260705.1380472, committed Jul 5, 2026
- First version recorded
- May 17, 2026
- Size
- 15,839 bytes
- Repository stars
- 15
- License
- a license file GitHub does not identify
Retrieves and interprets AlphaFold Protein Structure Database (AFDB) models by UniProt accession, reading pLDDT and PAE confidence correctly. Use when treating pLDDT as PER-RESIDUE confidence (not global accuracy) and recognizing a long low-pLDDT stretch as an intrinsically disordered region rather than a modeling error; reading PAE to segment confident domains and judge inter-domain/relative-position confidence that high mean pLDDT cannot certify; recognizing a static AFDB model carries NO…
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
## Version Compatibility
Reference examples tested with: biopython 1.83+, numpy 1.26+, requests 2.31+, matplotlib 3.8+
Before using code patterns, verify installed versions match. If versions differ:
- Python: `pip show <package>` then `help(module.function)` to check signatures
If code throws ImportError, AttributeError, or TypeError, introspect the installed
package and adapt the example to match the actual API rather than retrying.
# AlphaFold Predictions
**"Get the AlphaFold model for my protein and tell me which parts to believe"** -> Fetch the precomputed AFDB entry by UniProt accession, then read its confidence files (pLDDT per-residue, PAE per-residue-pair) to decide which regions and which geometry are trustworthy.
- Python: `requests.get(f'https://alphafold.ebi.ac.uk/api/prediction/{accession}')` returns metadata with `cifUrl`/`pdbUrl`/`paeDocUrl` download links.
## Governing Principle
…Read the whole file at its exact version.
How to install
mdr add fridrichmethod/awesome-skills/bio-structural-biology-alphafold-predictions@sha256:106c074dd3374c69The line at the top of this page pins the label git:20260705.1380472, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_2t333gnctvql3swh)
2 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between May 17, 2026 and Jul 5, 2026, about one every 24 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260705.1380472 latest | 2026-07-05 | 1380472 | 15,839 B | A | view · diff |
| git:20260531.6e617c4 | 2026-05-31 | 6e617c4 | 8,543 B | A | view · diff |
| git:20260517.81511a7 | 2026-05-17 | 81511a7 | 8,544 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (15839 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
fridrichmethod/awesome-skills · 15 stars · license a license file GitHub does not identify · pushed 2026-10-18 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_2t333gnctvql3swh GET https://markdownregistry.com/api/v1/resolve?ref=fridrichmethod/awesome-skills/bio-structural-biology-alphafold-predictions GET https://markdownregistry.com/api/v1/blob/106c074dd3374c691d90aa3340e3203d3c0ceefea9b340f4f100fe883400a782
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.