Results 1 to 10 of about 1,817,592 (311)

Protein secondary structure in spider silk nanofibrils

Nature Communications, 2022
Secondary fibril structure is a key component of the mechanical properties of protein materials like silk, yet, limited information is known about the internal structure of these protein fibrils. Here, the authors report on the use of polarised Raman and
Qijue Wang, Patrick McArdle, Stephanie L. Wang, Ryan L. Wilmington, Zhen Xing, Alexander Greenwood, Myriam L. Cotten, M. Mumtaz Qazilbash, Hannes C. Schniepp   +8 more
doaj   +2 more sources

Mathematical and Machine Learning Approaches for Classification of Protein Secondary Structure Elements from Cα Coordinates

Biomolecules, 2023
Determining Secondary Structure Elements (SSEs) for any protein is crucial as an intermediate step for experimental tertiary structure determination. SSEs are identified using popular tools such as DSSP and STRIDE.
Ali Sekmen, Kamal Al Nasr, Bahadir Bilgin, Ahmet Bugra Koku, Christopher Jones   +4 more
doaj   +1 more source

BeStSel: webserver for secondary structure and fold prediction for protein CD spectroscopy

Nucleic Acids Res., 2022
Circular dichroism (CD) spectroscopy is widely used to characterize the secondary structure composition of proteins. To derive accurate and detailed structural information from the CD spectra, we have developed the Beta Structure Selection (BeStSel ...
András Micsonai, Éva Moussong, F. Wien, E. Boros, Henrietta Vadászi, Nikoletta Murvai, Young-Ho Lee, T. Molnár, M. Réfrégiers, Y. Goto, Á. Tantos, J. Kardos   +11 more
semanticscholar   +1 more source

DichroWeb, a website for calculating protein secondary structure from circular dichroism spectroscopic data

Protein Science, 2021
Circular dichroism (CD) spectroscopy is a widely‐used method for characterizing the secondary structures of proteins. The well‐established and highly used analysis website, DichroWeb (located at: http://dichroweb.cryst.bbk.ac.uk/html/home.shtml) enables ...
A. Miles, S. G. Ramalli, B. Wallace
semanticscholar   +1 more source

PredictProtein - Predicting Protein Structure and Function for 29 Years

bioRxiv, 2021
Since 1992 PredictProtein (https://predictprotein.org) is a one-stop online resource for protein sequence analysis with its main site hosted at the Luxembourg Centre for Systems Biomedicine (LCSB) and queried monthly by over 3,000 users in 2020 ...
Michael Bernhofer, Christian Dallago, Tim Karl, Venkata P. Satagopam, M. Heinzinger, Maria Littmann, Tobias Olenyi, Jiajun Qiu, Konstantin Schütze, Guy Yachdav, Haim Ashkenazy, N. Ben-Tal, Y. Bromberg, Tatyana Goldberg, L. Kaján, S. O’Donoghue, C. Sander, Andrea Schafferhans, A. Schlessinger, G. Vriend, M. Mirdita, P. Gawron, Wei Gu, Y. Jarosz, C. Trefois, Martin Steinegger, R. Schneider, B. Rost   +27 more
semanticscholar   +1 more source

Evaluation of protein secondary structure from FTIR spectra improved after partial deuteration

European Biophysics Journal, 2021
FTIR spectroscopy has become a major tool to determine protein secondary structure. One of the identified obstacle for reaching better predictions is the strong overlap of bands assigned to different secondary structures.
J. De Meutter, E. Goormaghtigh
semanticscholar   +1 more source

Enhancing fragment-based protein structure prediction by customising fragment cardinality according to local secondary structure

BMC Bioinformatics, 2020
Background Whenever suitable template structures are not available, usage of fragment-based protein structure prediction becomes the only practical alternative as pure ab initio techniques require massive computational resources even for very small ...
Jad Abbass, Jean-Christophe Nebel
doaj   +1 more source

Exploring Protein Fold Space

Biomolecules, 2020
The model of protein folding proposed by Ptitsyn and colleagues involves the accretion of secondary structures around a nucleus. As developed by Efimov, this model also provides a useful way to view the relationships among structures.
William R. Taylor
doaj   +1 more source

Protein Backbone Torsion Angle-Based Structure Comparison and Secondary Structure Database Web Server [PDF]

Genomics & Informatics, 2013
Structural information has been a major concern for biological and pharmaceutical studies for its intimate relationship to the function of a protein. Three-dimensional representation of the positions of protein atoms is utilized among many structural ...
Sunghoon Jung, Se-Eun Bae, Insung Ahn, Hyeon S. Son   +3 more
doaj   +1 more source

Development of a TSR-Based Method for Protein 3-D Structural Comparison With Its Applications to Protein Classification and Motif Discovery

Frontiers in Chemistry, 2021
Development of protein 3-D structural comparison methods is important in understanding protein functions. At the same time, developing such a method is very challenging.
Sarika Kondra, Titli Sarkar, Vijay Raghavan, Wu Xu   +3 more
doaj   +1 more source