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OpenProteinSet

Provided by: OpenFold, part of the AWS Open Data Sponsorship Program

OpenProteinSet

Provided by: OpenFold, part of the AWS Open Data Sponsorship Program

This product is part of the AWS Open Data Sponsorship Program and contains data sets that are publicly available for anyone to access and use. No subscription is required. Unless specifically stated in the applicable data set documentation, data sets available through the AWS Open Data Sponsorship Program are not provided and maintained by AWS.

Description

Multiple sequence alignments (MSAs) for 140,000 unique Protein Data Bank  (PDB) chains and 16,000,000 UniClust30  clusters. Template hits are also provided for the PDB chains and 270,000 UniClust30 clusters chosen for maximal diversity and MSA depth. MSAs were generated with HHBlits (-n3) and JackHMMER against MGnify, BFD, UniRef90, and UniClust30 while templates were identified from PDB70 with HHSearch, all according to procedures outlined in the supplement to the AlphaFold 2 Nature paper, Jumper et al. 2021 . We expect the database to be broadly useful to structural biologists training or validating deep learning models for protein structure prediction and related tasks.

License

CC BY 4.0 

Documentation

https://docs.google.com/document/d/1R90-VJSLQEbot7tgXF3zb068Y1ZJAmsckQ_t2sJTv2c/edit?usp=sharing 

How to cite

OpenProteinSet was accessed on DATE from https://registry.opendata.aws/openfold .

Additionally, please cite our manuscript .

Update frequency
Never
Support information

Managed by: OpenFold

Contact: https://github.com/aqlaboratory/openfold/issues 

General AWS Data Exchange support
Contact Us 

Resources on AWS

Description

A repository of MSAs and template hits.

Resource type
S3 Bucket
Amazon Resource Name (ARN)
arn:aws:s3:::openfold
AWS Region
us-east-1

AWS CLI Access (No AWS account required)

aws s3 ls --no-sign-request s3://openfold/

Usage examples

Publications
Tutorials

Links

View this dataset on Github 

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