Profiling Protein Structures from Protein Data Bank and integrate various resources.🏄♂️
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Profiling Protein Structures from Protein Data Bank and integrate various resources.
Collection: Implement various API to collect the well-organized metadata of PDB in real time.Integration: Provide a unified call for API-interface and return-data-form as well as subsequent data processing.Detection: Reorganize metadata to evaluate a PDB structure in Entry-Assembly/Model-Entity-Chain-Residue level and integrated with UniProt-KB.Interaction: Include UniProt Isoform Interaction in Asymmetric unit plus Biological Assembly level.Selection: Define the representative set of PDB structures in Monomeric|Homomeric|Heteromeric states.Mapping: Provide interface for both entry-identifier/accession-level and residue-level bidirectional mapping.Notice: require Python Environment >= 3.7, Platform Independent
Install by pip command.
pip beforehand:python -m pip install --upgrade pip
python -m pip install pdb-profiling
If you have already installed an older version of pdb-profiling, use the following command to install the latest version:
python -m pip install --upgrade pdb-profiling
python -m pip install cython
python -m pip install numpy
git clone https://github.com/NatureGeorge/pdb-profiling.git
python setup.py build_ext --inplace # Need GCC or Other Compiler For C
python setup.py install # or "sudo python setup.py install" or "python setup.py install --user"
https://pdb-profiling.netlify.app/
click here for more details
Using similar data resources but meant to achieve different goals.
This project is developed by Zefeng Zhu and hold by Minghui Group.
The pdb_profiling.cython.py_qcprot module is derived from the cython wrapper contributed by Bernhard Thiel and is distributed under the terms of a BSD-3-Clause License. And it also contains the dependent C-code from http://theobald.brandeis.edu/QCP/ written by Pu Liu and Douglas Theobald (with slight modification by Bernhard Thiel) and is licensed under a BSD-3-Clause License.
The pdb_profiling is distributed under the terms of the MIT License.
FAQs
Profiling Protein Structures from Protein Data Bank and integrate various resources.🏄♂️
We found that pdb-profiling demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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