license: cc0-1.0
pretty_name: Pfam (Current Release)
size_categories:
- 100M<n<1B
task_categories:
- other
language:
- en
tags:
- biology
- proteins
- domains
- pfam
- annotation
- jsonl
Pfam (Current Release)
Pfam-A clans and regions tables (current release), normalized to newline-delimited JSON with row-level provenance.
Processed and uploaded by the MegaData post-download pipeline (internal repo). Original source: http://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/.
Statistics
| Table files | 2 |
| Total rows | 128,220,423 |
| Total bytes | 38.52 GiB (41,355,825,506) |
Tables
| Table | Rows | Bytes |
|---|---|---|
annotation_pfam_current_release_Pfam-A.clans.tsv.gz.jsonl |
27,480 | 7.00 MiB |
annotation_pfam_current_release_Pfam-A.regions.tsv.gz.jsonl |
128,192,943 | 38.51 GiB |
Layout
.
├── _MANIFEST.json # aggregate manifest (per-table counts)
└── tables/<source_slug>.jsonl # normalized rows (one JSON object per line)
Each line in a tables/*.jsonl file is a JSON object with at least
dataset_id, row (the raw upstream row), row_index, and source_file
fields, so every row carries its upstream provenance.
Loading
hf download LiteFold/Pfam --repo-type dataset --local-dir ./pfam
Programmatic streaming:
import json
from pathlib import Path
from huggingface_hub import snapshot_download
local = snapshot_download(repo_id="LiteFold/Pfam", repo_type="dataset")
for jsonl in sorted(Path(local, "tables").glob("*.jsonl")):
with jsonl.open() as f:
for line in f:
row = json.loads(line)
... # row["row"] is the upstream record
License
CC0 1.0 (EMBL-EBI Pfam).
Citation
Mistry J, et al. Pfam: The protein families database in 2021. Nucleic Acids Research, 49(D1):D412-D419, 2021.
Provenance
Built from the local manifest entry pfam of manifests/atlas_download_plan.json.
Pipeline source: megadata-post normalize --dataset pfam --tables-only.