---
license: other
pretty_name: CycPepMPDB
size_categories:
  - 10K<n<100K
task_categories:
  - other
language:
  - en
tags:
  - chemistry
  - peptides
  - cyclic-peptides
  - membrane-permeability
  - jsonl
---

# CycPepMPDB

CycPepMPDB cyclic peptide membrane-permeability dataset (monomers and analogs), normalized to newline-delimited JSON with row-level provenance.

Processed and uploaded by the [MegaData](https://github.com/) post-download pipeline
(internal repo). Original source: <http://cycpeptmpdb.com/>.

## Statistics

| | |
|---|---|
| Table files | 99 |
| Total rows | 43,514 |
| Total bytes | 259.87 MiB (272,498,665) |

## Tables

| Table | Rows | Bytes |
|---|---:|---:|
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_All.csv.jsonl` | 385 | 2.23 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_A.csv.jsonl` | 34 | 216.30 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_C.csv.jsonl` | 4 | 22.01 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_D.csv.jsonl` | 6 | 39.63 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_E.csv.jsonl` | 5 | 25.48 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_F.csv.jsonl` | 63 | 364.35 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_G.csv.jsonl` | 47 | 265.58 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_H.csv.jsonl` | 3 | 15.38 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_I.csv.jsonl` | 8 | 46.23 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_K.csv.jsonl` | 13 | 66.15 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_L.csv.jsonl` | 19 | 191.37 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_M.csv.jsonl` | 3 | 15.24 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_N.csv.jsonl` | 7 | 35.72 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_P.csv.jsonl` | 12 | 110.07 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_Q.csv.jsonl` | 10 | 51.57 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_R.csv.jsonl` | 4 | 20.67 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_S.csv.jsonl` | 29 | 151.32 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_T.csv.jsonl` | 6 | 48.74 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_V.csv.jsonl` | 15 | 84.60 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_W.csv.jsonl` | 8 | 41.30 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_X.csv.jsonl` | 78 | 417.57 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Monomer_Analog_Y.csv.jsonl` | 11 | 58.28 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_All.csv.jsonl` | 8,466 | 50.54 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Assay_Caco2.csv.jsonl` | 1,332 | 8.23 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Assay_MDCK.csv.jsonl` | 64 | 396.71 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Assay_PAMPA.csv.jsonl` | 7,298 | 43.31 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Assay_RRCK.csv.jsonl` | 186 | 1.09 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_10.csv.jsonl` | 1,777 | 10.82 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_11.csv.jsonl` | 675 | 4.23 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_12.csv.jsonl` | 632 | 3.98 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_13.csv.jsonl` | 234 | 1.49 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_14.csv.jsonl` | 125 | 825.96 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_15.csv.jsonl` | 26 | 174.11 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_2.csv.jsonl` | 4 | 22.71 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_3.csv.jsonl` | 69 | 387.80 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_4.csv.jsonl` | 55 | 313.75 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_5.csv.jsonl` | 88 | 512.88 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_6.csv.jsonl` | 2,167 | 12.50 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_7.csv.jsonl` | 2,071 | 12.09 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_8.csv.jsonl` | 120 | 730.00 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Length_9.csv.jsonl` | 423 | 2.57 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Shape_Circle.csv.jsonl` | 5,530 | 32.46 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Shape_Lariat.csv.jsonl` | 2,936 | 18.15 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2006_Rezai_1.csv.jsonl` | 10 | 60.53 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2006_Rezai_2.csv.jsonl` | 11 | 65.58 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2011_White.csv.jsonl` | 10 | 60.81 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2012_Rand.csv.jsonl` | 16 | 95.80 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2013_CHUGAI.csv.jsonl` | 878 | 5.51 MiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2013_Zaretsky.csv.jsonl` | 2 | 11.60 KiB |
| `peptide_cycpeptmpdb_CycPeptMPDB_Peptide_Source_2014_Nielsen.csv.jsonl` | 4 | 23.96 KiB |
| _… 49 more table file(s) …_ | | |

## 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

```bash
hf download LiteFold/CycPepMPDB --repo-type dataset --local-dir ./cycpeptmpdb
```

Programmatic streaming:

```python
import json
from pathlib import Path
from huggingface_hub import snapshot_download

local = snapshot_download(repo_id="LiteFold/CycPepMPDB", 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

See upstream license at CycPepMPDB.

## Citation

> Li J, et al. CycPeptMPDB: A Comprehensive Database of Membrane Permeability of Cyclic Peptides. J. Chem. Inf. Model., 2023.

## Provenance

Built from the local manifest entry `cycpeptmpdb` of `manifests/atlas_download_plan.json`.
Pipeline source: `megadata-post normalize --dataset cycpeptmpdb --tables-only`.