Enhancing coevolution-based contact prediction by imposing structural self-consistency of the contacts
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DOI: 10.1038/s41598-018-29357-y
Abstract: Based on the development of new algorithms and growth of sequence databases, it has recently become possible to build robust higher-order sequence models based on sets of aligned protein sequences. Such models have proven useful… read more here.
Keywords: coevolution; structural self; contact prediction; self consistency ... See more keywords
Protein contact prediction using metagenome sequence data and residual neural networks
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DOI: 10.1093/bioinformatics/btz477
Abstract: MOTIVATION Almost all protein residue contact prediction methods rely on the availability of deep multiple sequence alignments (MSAs). However, many proteins from the poorly populated families do not have sufficient number of homologs in the… read more here.
Keywords: metagenome sequence; neural networks; sequence data; contact prediction ... See more keywords
IMPContact: An Interhelical Residue Contact Prediction Method
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DOI: 10.1155/2020/4569037
Abstract: As an important category of proteins, alpha-helix transmembrane proteins (αTMPs) play an important role in various biological activities. Because the solved αTMP structures are inadequate, predicting the residue contacts among the transmembrane segments of an… read more here.
Keywords: interhelical residue; residue contact; contact prediction; method ... See more keywords
On the effect of phylogenetic correlations in coevolution-based contact prediction in proteins
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DOI: 10.1371/journal.pcbi.1008957
Abstract: Coevolution-based contact prediction, either directly by coevolutionary couplings resulting from global statistical sequence models or using structural supervision and deep learning, has found widespread application in protein-structure prediction from sequence. However, one of the basic… read more here.
Keywords: contact prediction; coevolution based; based contact; phylogenetic correlations ... See more keywords