Results 21 to 30 of about 1,631,952 (291)

ISSEC: inferring contacts among protein secondary structure elements using deep object detection

BMC Bioinformatics, 2020
Background The formation of contacts among protein secondary structure elements (SSEs) is an important step in protein folding as it determines topology of protein tertiary structure; hence, inferring inter-SSE contacts is crucial to protein structure ...
Qi Zhang, Jianwei Zhu, Fusong Ju, Lupeng Kong, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu   +6 more
doaj   +1 more source

Pervasive, conserved secondary structure in highly charged protein regions.

PLoS Computational Biology, 2023
Understanding how protein sequences confer function remains a defining challenge in molecular biology. Two approaches have yielded enormous insight yet are often pursued separately: structure-based, where sequence-encoded structures mediate function, and
Catherine G Triandafillou, Rosalind Wenshan Pan, Aaron R Dinner, D Allan Drummond   +3 more
doaj   +1 more source

The Carboxyl-Terminal Segment of Apolipoprotein A-V Undergoes a Lipid-Induced Conformational Change [PDF]

, 2010
Apolipoprotein (apo) A-V is a 343-residue, multidomain protein that plays an important role in regulation of plasma triglyceride homeostasis. Primary sequence analysis revealed a unique tetraproline sequence (Pro293-Pro296) near the carboxyl terminus of ...
Lee, B. L., Mauldin, Kasuen, Oleszczuk, M., Ryan, R. O., Sykes, B. D.   +4 more
core   +2 more sources

Cryo-EM map interpretation and protein model-building using iterative map segmentation. [PDF]

, 2020
A procedure for building protein chains into maps produced by single-particle electron cryo-microscopy (cryo-EM) is described. The procedure is similar to the way an experienced structural biologist might analyze a map, focusing first on secondary ...
Afonine PV, Kleywegt GJ, Liebschner D, Terwilliger TC, Terwilliger TC, Terwilliger TC, Terwilliger TC, Terwilliger TC, Terwilliger TC, Terwilliger TC   +9 more
core   +2 more sources

Bayesian Segmentation of Protein Secondary Structure [PDF]

Journal of Computational Biology, 2000
We present a novel method for predicting the secondary structure of a protein from its amino acid sequence. Most existing methods predict each position in turn based on a local window of residues, sliding this window along the length of the sequence. In contrast, we develop a probabilistic model of protein sequence/structure relationships in terms of ...
S C, Schmidler, J S, Liu, D L, Brutlag
openaire   +2 more sources

PCI-SS: MISO dynamic nonlinear protein secondary structure prediction

BMC Bioinformatics, 2009
Background Since the function of a protein is largely dictated by its three dimensional configuration, determining a protein's structure is of fundamental importance to biology.
Aboul-Magd Mohammed O, Korenberg Michael J, Green James R   +2 more
doaj   +1 more source

3-State Protein Secondary Structure Prediction based on SCOPe Classes

Brazilian Archives of Biology and Technology, 2021
Improving the accuracy of protein secondary structure prediction has been an important task in bioinformatics since it is not only the starting point in obtaining tertiary structure in hierarchical modeling but also enhances sequence analysis and ...
Sema Atasever, Nuh Azgınoglu, Hasan Erbay, Zafer Aydın   +3 more
doaj   +1 more source

Site-specific perturbations of alpha-synuclein fibril structure by the Parkinson's disease associated mutations A53T and E46K. [PDF]

, 2013
PMCID: PMC3591419This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited ...
A Loquet, BI Giasson, BM Fung, C Wasmer, Chad M. Rienstra, CP Jaroniec, CR Bodner, CR Morcombe, D Eliezer, DS Wishart, DS Wishart, DS Wishart, E Oldfield, EA Greenbaum, Elisa Greggio, F Delaglio, G Comellas, G Comellas, G Comellas, G Cornilescu, Gemma Comellas, H Heise, H Heise, H van Melckebeke, J Li, JJ Zarranz, Julia M. George, K Iwata, K Takegoshi, KA Conway, KD Kloepper, L Narhi, Lars K. Rikardsen, LC Serpell, LR Lemkau, Luisel R. Lemkau, M Baldus, ME van Raaij, MG Spillantini, MH Polymeropoulos, MS Celej, N Ferguson, R Bussell, R Kruger, RA Fredenburg, S Hediger, Shin W. Lee, W Choi, Wendy S. Woods, WG Hoyer, Y Shen   +50 more
core   +3 more sources

Prediction of protein secondary structure content [PDF]

Protein Engineering, Design and Selection, 1999
All existing algorithms for predicting the content of protein secondary structure elements have been based on the conventional amino-acid-composition, where no sequence coupling effects are taken into account. In this article, an algorithm was developed for predicting the content of protein secondary structure elements that was based on a new amino ...
W, Liu, K C, Chou
openaire   +2 more sources

Convolution-Bidirectional Temporal Convolutional Network for Protein Secondary Structure Prediction

IEEE Access, 2022
As a basic feature extraction method, convolutional neural networks have some information loss problems when dealing with sequence problems, and a temporal convolutional network can compensate for this problem.
Yunqing Zhang, Yuming Ma, Yihui Liu
doaj   +1 more source