Results 71 to 80 of about 1,704,223 (314)

SPIDER2: A Package to Predict Secondary Structure, Accessible Surface Area, and Main-Chain Torsional Angles by Deep Neural Networks

, 2016
Predicting one-dimensional structure properties has played an important role to improve prediction of protein three-dimensional structures and functions.
Wang, Jihua, Lyons, James, Zhou, Yaoqi, Yaoqi Zhou, Paliwal, Kuldip, Kuldip Paliwal, Yuedong Yang, Rhys Heffernan, Dehzangi, Abdollah, Sattar, Abdul, Abdollah Dehzangi, Abdul Sattar, Heffernan, Rhys, James Lyons, Sharma, Alok, Alok Sharma, Yang, Yuedong, Jihua Wang   +17 more
core   +1 more source

Improving the accuracy of protein secondary structure prediction using structural alignment

, 2006
Background: The accuracy of protein secondary structure prediction has steadily improved over the past 30 years. Now many secondary structure prediction methods routinely achieve an accuracy (Q3) of about 75%.
Wishart, D.S., Montgomerie, S., Sundararaj, S., Gallin, W.J.   +3 more
core   +1 more source

Degradation mechanism of the von Willebrand factor A2 domain by nattokinase

FEBS Letters, EarlyView.
Nattokinase, a natto‐derived protease, exhibits potent antithrombotic effects. This study demonstrates that nattokinase directly cleaves the von Willebrand factor (vWF) A2 domain in vitro. Unlike the native regulator ADAMTS13, nattokinase degrades folded vWF independently of shear stress.
Ryuichi Hyakumoto, Masatomo So, Ayako Furukawa, Kenji Sugase   +3 more
wiley   +1 more source

Modulation of Homer1 EVH1 domain internal dynamics by putative autism‐associated mutations

FEBS Letters, EarlyView.
The putative autism‐associated M65I and S97L variants of the EVH1 domain of the postsynaptic scaffold protein Homer1 do not exhibit substantial changes in their overall structure or partner binding. Both of them, but especially the M65I variant, show altered internal dynamics relative to the wild‐type domain on the μs‐ms timescale, indicated by the ...
Fanni Farkas, Brigitta Maruzs, Zsófia E. Kálmán, Tomas Klumpler, Gyula Batta, Bálint Péterfia, Zoltán Gáspári   +6 more
wiley   +1 more source

An unexpected alternative viologen electron mediator site in tungsten‐containing formate dehydrogenase

FEBS Letters, EarlyView.
An unexpected alternative interaction site for ethyl viologen was identified in formate dehydrogenase 1 from Methylorubrum extorquens. Combined mutagenesis, kinetic analysis, and docking revealed that aromatic residues near an iron–sulfur cluster enable flavin mononucleotide‐independent electron transfer, offering a framework for engineering improved ...
Eleni G. Poloniataki, Yong Hwan Kim
wiley   +1 more source

Impact of high-pressure treatments on physicochemical and structural changes of reconstituted micellar casein concentrates from bovine and caprine milk: A comparative study

Journal of Dairy Science
: This study investigated the effect of high-pressure processing (HPP) on the physicochemical and structural changes in reconstituted micellar CN concentrates (MCC) sourced from bovine (BMCC) and caprine (CMCC) milk.
Khaled S. Nassar, Hala M. Bayomy, Eman S. Alamri, Nawal A. Ozaybi, Sameh A. Korma, Jiaping Lv, Eman S. Ragab   +6 more
doaj   +1 more source

PARK(ing) time–How park deficiency affects the biological clock in a Drosophila model of Parkinson's disease

FEBS Letters, EarlyView.
Drosophila park mutants serve as a model for Parkinson's disease. We used this strain to investigate the connection between oxidative stress and the circadian clock mechanism. We showed that increased oxidative stress affects the physiology of pacemaker cells, disrupting their daily structural plasticity. Lack of rhythmic signaling from pacemaker cells
Kamila Zientara, Kinga Skoczek, Elzbieta Pyza, Milena Damulewicz   +3 more
wiley   +1 more source

Accurate prediction of genome-wide RNA secondary structure profile based on extreme gradient boosting

, 2020
For permissions, please e-mail: journals.permissions@oup.com Motivation: RNA secondary structure plays a vital role in fundamental cellular processes, and identification of RNA secondary structure is a key step to understand RNA functions.
Xiao, N, Rao, J, Ke, Y, Jiahua Rao, Yutong Lu, Lu, Y, Yuedong Yang, Huiying Zhao, Zhao, H, Yang, Y, Nong Xiao, Yaobin Ke   +11 more
core   +1 more source

Secondary structure specific simpler prediction models for protein backbone angles

, 2022
MOTIVATION: Protein backbone angle prediction has achieved significant accuracy improvement with the development of deep learning methods. Usually the same deep learning model is used in making prediction for all residues regardless of the categories of ...
Newton, MA Hakim, Sattar, Abdul, Zaman, Rianon, Mataeimoghadam, Fereshteh   +3 more
core   +1 more source

Relevance of G-quadruplex structures to pharmacogenetics

Frontiers in Pharmacology, 2014
G-quadruplexes are non-canonical secondary structures formed within nucleic acids that are involved in modulating cellular processes such as replication, gene regulation, recombination and epigenetics.
Martin A Kennedy, Simone Lynette Cree
doaj   +1 more source