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README.md
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- split: test
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path: data/test-*
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- split: test
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path: data/test-*
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---
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# Residue identity prediction
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## Overview
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Understanding the structural role of individual amino acids is important for engineering new proteins.
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We can understand this role by predicting the substitutabilities of different amino acids at a given protein site based on the surrounding structural environment.
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We generate a novel dataset consisting of atomic environments extracted from nonredundant structures in the PDB.
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We formulate this as a classification task where we predict the identity of the amino acid in the center of the environment based on all other atoms.
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## Datasets
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- splits:
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- split-by-cath-topology: split by CATH 4.2 topology class at the domain level (NOTE: only indices available for download currently due to size of dataset)
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## Citation Information
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@article{townshend2020atom3d,
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title={Atom3d: Tasks on molecules in three dimensions},
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author={Townshend, Raphael JL and V{\"o}gele, Martin and Suriana, Patricia and Derry, Alexander and Powers, Alexander and Laloudakis, Yianni and Balachandar, Sidhika and Jing, Bowen and Anderson, Brandon and Eismann, Stephan and others},
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journal={arXiv preprint arXiv:2012.04035},
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year={2020}
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}
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