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DeepMSA
Deep Multiple Sequence Alignment Generation

DeepMSA is a composite approach to generate high quality multiple sequence alignment with large alignment depth and diverse sequence sources by merging sequences from whole-genome sequence databases (Uniclust30 and UniRef90) and from metagenome database (Metaclust). Large-scale benchmark data show that DeepMSA profiles consistently improves contact prediction, secondary structure prediction, and threading over default HHblits or PSI-BLAST profiles.


Online server (view example output)

From May. 10 to Jul. 30, 2020 (CASP14 season), the DeepMSA server will be closed to external users. Please use the standalone package during this period. We apologize for any inconvenience this may cause.

    Cut and paste your sequence (in FASTA format) below: Example input

    Or upload the sequence from your local computer:

    Email: (mandatory, where results will be sent to)

    ID: (optional, your given name of the protein)


Package download:


References:
  • Chengxin Zhang, Wei Zheng, S M Mortuza, Yang Li, Yang Zhang (2019) DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins. Bioinformatics. [PDF] [Supporting Information]

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