نتایج جستجو برای: conformational distribution

تعداد نتایج: 645101  

Journal: :biomacromolecular journal 0
ali akbar moosavi-movahedi ibb, universiy of teharn ali akbar saboury institute of biochemistry and biophysics, university of tehran, tehran, iran saman hosseinkhani faculty of biological sciences, tarbiat modares university, tehran, iran azadeh lohrasbi-nejad department of biotechnology, faculty of agriculture, shahid bahonar university of kerman, kerman, iran mehran habibi-rezae school of biology, college of science, university of tehran, tehran, iran parvaneh maghami ibb, university of tehran, tehran, iran maliheh atri

estimation of protein stability is important for many reasons: first providing an understanding of the basic thermodynamics of the process of folding, protein engineering, and protein stability plays important role in biotechnology especially in food and protein drug design. today, proteins are used in many branches, including industrial processes, pharmaceutical industry, and medical fields. a...

Journal: :Annual review of biophysics and biomolecular structure 2007
Olaf S Andersen Roger E Koeppe

The lipid bilayer component of biological membranes is important for the distribution, organization, and function of bilayer-spanning proteins. This regulation is due to both specific lipid-protein interactions and general bilayer-protein interactions, which modulate the energetics and kinetics of protein conformational transitions, as well as the protein distribution between different membrane...

2017
Alexander Miguel Monzon Diego J. Zea María Silvina Fornasari Tadeo E. Saldaño Sebastian Fernandez Alberti Silvio C. E. Tosatto Gustavo D. Parisi

Protein motions are a key feature to understand biological function. Recently, a large-scale analysis of protein conformational diversity showed a positively skewed distribution with a peak at 0.5 Å C-alpha root-mean-square-deviation (RMSD). To understand this distribution in terms of structure-function relationships, we studied a well curated and large dataset of ~5,000 proteins with experimen...

2016
Masayuki Oda Takeshi Tsumuraya Ikuo Fujii

We analyzed the correlation between the conformational strain and the binding kinetics in antigen-antibody interactions. The catalytic antibodies 6D9, 9C10, and 7C8 catalyze the hydrolysis of a nonbioactive chloramphenicol monoester derivative to generate a bioactive chloramphenicol. The crystal structure of 6D9 complexed with a transition-state analog (TSA) suggests that 6D9 binds the substrat...

Journal: :International Journal of Molecular Sciences 2008
Peter J. Edmonson William D. Hunt Desmond D. Stubbs Sang-Hun Lee

Acoustic wave biosensors are a real-time, label-free biosensor technology, which have been exploited for the detection of proteins and cells. One of the conventional biosensor approaches involves the immobilization of a monolayer of antibodies onto the surface of the acoustic wave device for the detection of a specific analyte. The method described within includes at least two immobilizations o...

Journal: :Journal of molecular biology 2015
Gabriele Indrisiunaite Michael Y Pavlov Valérie Heurgué-Hamard Måns Ehrenberg

We have studied the pH dependence of the rate of termination of bacterial protein synthesis catalyzed by a class-1 release factor (RF1 or RF2). We used a classical quench-flow technique and a newly developed stopped-flow technique that relies on the use of fluorescently labeled peptides. We found the termination rate to increase with increasing pH and, eventually, to saturate at about 70 s(-1) ...

Journal: :Proceedings of the National Academy of Sciences of the United States of America 2015
Inseong Jo In-Young Chung Hee-Won Bae Jin-Sik Kim Saemee Song You-Hee Cho Nam-Chul Ha

OxyR, a bacterial peroxide sensor, is a LysR-type transcriptional regulator (LTTR) that regulates the transcription of defense genes in response to a low level of cellular H2O2. Consisting of an N-terminal DNA-binding domain (DBD) and a C-terminal regulatory domain (RD), OxyR senses H2O2 with conserved cysteine residues in the RD. However, the precise mechanism of OxyR is not yet known due to t...

Journal: :The Journal of biological chemistry 2015
Kei Hirabayashi Eiki Yuda Naoyuki Tanaka Sumie Katayama Kenji Iwasaki Takashi Matsumoto Genji Kurisu F Wayne Outten Keiichi Fukuyama Yasuhiro Takahashi Kei Wada

ATP-binding cassette (ABC)-type ATPases are chemomechanical engines involved in diverse biological pathways. Recent genomic information reveals that ABC ATPase domains/subunits act not only in ABC transporters and structural maintenance of chromosome proteins, but also in iron-sulfur (Fe-S) cluster biogenesis. A novel type of ABC protein, the SufBCD complex, functions in the biosynthesis of nas...

2010
Michael S. Marlow Jakob Dogan Kendra K. Frederick Kathleen G. Valentine A. Joshua Wand

The physical basis for high-affinity interactions involving proteins is complex and potentially involves a range of energetic contributions. Among these are changes in protein conformational entropy, which cannot yet be reliably computed from molecular structures. We have recently used changes in conformational dynamics as a proxy for changes in conformational entropy of calmodulin upon associa...

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