Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. [PDF]
, 2006 BackgroundOne of the most powerful methods for the prediction of protein structure from sequence information alone is the iterative construction of profile-type models.
Bourne, Philip E, Scheeff, Eric D
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Collective estimation of multiple bivariate density functions with application to angular-sampling-based protein loop modeling [PDF]
, 2016 This article develops a method for simultaneous estimation of density functions for a collection of populations of protein backbone angle pairs using a data-driven, shared basis that is constructed by bivariate spline functions defined on a triangulation
Gao, Xin +4 more
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Accurate protein structure prediction with hydroxyl radical protein footprinting data
Nature Communications, 2021 Mass spectrometry-based covalent labeling techniques such as hydroxyl radical protein footprinting (HRPF) provide information about protein tertiary structures.
Sarah E. Biehn, Steffen Lindert
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Naive Prediction of Protein Backbone Phi and Psi Dihedral Angles Using Deep Learning
Molecules, 2023 Protein structure prediction represents a significant challenge in the field of bioinformatics, with the prediction of protein structures using backbone dihedral angles recently achieving significant progress due to the rise of deep neural network ...
Matic Broz, Marko Jukič, Urban Bren
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Protein Structure Prediction: The Next Generation
, 2006 Over the last 10-15 years a general understanding of the chemical reaction of protein folding has emerged from statistical mechanics. The lessons learned from protein folding kinetics based on energy landscape ideas have benefited protein structure ...
Eastwood, Michael P. +4 more
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Bayesian models and algorithms for protein beta-sheet prediction [PDF]
, 2011 Prediction of the three-dimensional structure greatly benefits from the information related to secondary structure, solvent accessibility, and non-local contacts that stabilize a protein's structure.
Altunbasak, Yucel +5 more
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Recent Progress of Protein Tertiary Structure Prediction
MoleculesThe prediction of three-dimensional (3D) protein structure from amino acid sequences has stood as a significant challenge in computational and structural bioinformatics for decades.
Qiqige Wuyun +7 more
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The MULTICOM toolbox for protein structure prediction
BMC Bioinformatics, 2012 Background As genome sequencing is becoming routine in biomedical research, the total number of protein sequences is increasing exponentially, recently reaching over 108 million. However, only a tiny portion of these proteins (i.e.
Cheng Jianlin +4 more
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Performance Analysis of Deep Learning Methods for Protein Contact Prediction in CASP13
CLEI Electronic Journal, 2021 Protein structure prediction is one of the most important problems in Computational Biology; and consists of determining the 3D structure of a protein given its amino acid sequence.
Romina Valdez +3 more
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Introduction to Protein Structure Prediction [PDF]
, 2017 This chapter gives a graceful introduction to problem of protein three- dimensional structure prediction, and focuses on how to make structural sense out of a single input sequence with unknown structure, the 'query' or 'target' sequence.
Abeln, Sanne +2 more
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