| --- |
| license: mit |
| language: en |
| --- |
| # FPbase: The Fluorescent Protein Database |
| More than 1000 experimental fluorescent proteins with structured and searchable fluorescence polarization (FP) data |
| https://www.fpbase.org. |
|
|
| ## Quickstart Usage |
|
|
| ### installation |
|
|
| $ pip install fpbase |
| |
| ### fetch database information |
| Run the [pull_fpbase.py](https://huggingface.co/datasets/Kaleychinoy/FPbase_databazaar_2026/blob/main/src/pull_fpbase.py) |
| |
| $python /src/pull_fpbase.py |
| |
| ## Output description |
| Check the [fpbase_raw.csv](https://huggingface.co/datasets/Kaleychinoy/FPbase_databazaar_2026/tree/main/data) |
| - **name: protein name** |
| - **fpbase_id: ID in FPbase** |
| - **ex_max: excitation maximum** |
| - **em_max: emission maximum** |
| - **emhex: emission color** |
| - **exhex: emission color** |
| - **ext_coeff: extinction coefficient** |
| - **qy: quantum yield** |
| - **lifetime_ns: lifetime(ns)** |
| - **pdb: PDB ID**: |
| - **genbank: genbank ID** |
| - **uniprot: Uniprot ID** |
| - **aggregation: oligomeric state** |
| - **switch_type: photo-switching types** |
| |
| ### Dataset Description |
| (https://github.com/tlambert03/FPbase) |
| FPbase is a free and open-source, community-editable database for fluorescent proteins (FPs) and their properties. |
| The primary objective is to aggregate structured and searchable FP data that is of interest to the imaging community and FP developers. |
| Each protein in the database has a dedicated page showing amino acid sequence, accession IDs (e.g. GenBank, UniProt), evolution lineages and mutations, fluorescence attributes, structural data, references that introduced or characterized the protein, |
| and more. Excerpts from primary literature can be entered to store key information about a protein that is otherwise difficult to capture within the current database schema. |
