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1,718 Newest Publications about the topic biochemistry


Using crystallographic water properties for the analysis and prediction of lectin–carbohydrate complex structures

01-Feb-2015 | C Modenutti; D Gauto; L Radusky; J Blanco; A Turjanski; S Hajos; MA Marti, Glycobiology , 2015

Understanding protein–ligand interactions is a fundamental question in basic biochemistry, and the role played by the solvent along this process is not yet fully understood. This fact is particularly relevant in lectins, proteins that mediate a large variety of biological processes through the ...


Dissecting noncoding and pathogen RNA-protein interactomes [ARTICLES]

01-Jan-2015 | Ryan A. Flynn; Lance Martin; Robert C. Spitale; Brian T. Do; Selena M. Sagan; Brian Zarnegar; Kun Qu; Paul A. Khavar ..., RNA, 2015

RNA–protein interactions are central to biological regulation. Cross-linking immunoprecipitation (CLIP)-seq is a powerful tool for genome-wide interrogation of RNA–protein interactomes, but current CLIP methods are limited by challenging biochemical steps and fail to detect many classes of ...


Achievements and challenges in structural bioinformatics and computational biophysics

01-Jan-2015 | Ilan Samish; Philip E. Bourne; Rafael J. Najmanovich, Bioinformatics, 2015

Motivation: The field of structural bioinformatics and computational biophysics has undergone a revolution in the last 10 years. Developments that are captured annually through the 3DSIG meeting, upon which this article reflects. Results: An increase in the accessible data, computational ...


A Novel Sister Clade to the Enterobacteria Microviruses (family Microviridae) Identified in Methane Seep Sediments

30-Dec-2014 | Sam Bryson, Andrew R. Thurber, Adrienne M.S. Correa, Victoria J. Orphan, Rebecca Vega Thurber, Environmental Microbiology, 2014

Abstract Methane seep microbial communities perform a key ecosystem service by consuming the greenhouse gas methane prior to its release into the hydrosphere, minimizing the impact of marine methane sources on our climate. Although previous studies have examined the ecology and biochemistry of ...


Stable, uncleaved HIV-1 envelope glycoprotein gp140 forms a tightly folded trimer with a native-like structure [Biochemistry]

30-Dec-2014 | James M. Kovacs; Erik Noeldeke; Heather Jiwon Ha; Hanqin Peng; Sophia Rits-Volloch; Stephen C. Harrison; Bing Chen, Proceedings of the National Academy of Sciences current issue, 2014

The HIV-1 envelope spike [trimeric (gp160)3, cleaved to (gp120/gp41)3] is the mediator of viral entry and the principal target of humoral immune response to the virus. Production of a recombinant preparation that represents the functional spike poses a challenge for vaccine development, because ...


Regulation of the Rhp26ERCC6/CSB chromatin remodeler by a novel conserved leucine latch motif [Biochemistry]

30-Dec-2014 | Lanfeng Wang; Oliver Limbo; Jia Fei; Lu Chen; Bong Kim; Jie Luo; Jenny Chong; Ronald C. Conaway; Joan W. Conaway; Je ..., Proceedings of the National Academy of Sciences current issue, 2014

CSB/ERCC6 (Cockayne syndrome B protein/excision repair cross-complementation group 6), a member of a subfamily of SWI2/SNF2 (SWItch/sucrose nonfermentable)-related chromatin remodelers, plays crucial roles in gene expression and the maintenance of genome integrity. Here, we report the mechanism ...


A divergent Pumilio repeat protein family for pre-rRNA processing and mRNA localization [Biochemistry]

30-Dec-2014 | Chen Qiu; Kathleen L. McCann; Robert N. Wine; Susan J. Baserga; Traci M. Tanaka Hall, Proceedings of the National Academy of Sciences current issue, 2014

Pumilio/feminization of XX and XO animals (fem)-3 mRNA-binding factor (PUF) proteins bind sequence specifically to mRNA targets using a single-stranded RNA-binding domain comprising eight Pumilio (PUM) repeats. PUM repeats have now been identified in proteins that function in pre-rRNA processing, ...


Allosteric activation of ADAMTS13 by von Willebrand factor [Biochemistry]

30-Dec-2014 | Joshua Muia; Jian Zhu; Garima Gupta; Sandra L. Haberichter; Kenneth D. Friedman; Hendrik B. Feys; Louis Deforche; Ka ..., Proceedings of the National Academy of Sciences current issue, 2014

The metalloprotease ADAMTS13 cleaves von Willebrand factor (VWF) within endovascular platelet aggregates, and ADAMTS13 deficiency causes fatal microvascular thrombosis. The proximal metalloprotease (M), disintegrin-like (D), thrombospondin-1 (T), Cys-rich (C), and spacer (S) domains of ADAMTS13 ...


Identification of S-nitroso-CoA reductases that regulate protein S-nitrosylation [Biochemistry]

30-Dec-2014 | Puneet Anand; Alfred Hausladen; Ya-Juan Wang; Guo-Fang Zhang; Colin Stomberski; Henri Brunengraber; Douglas T. Hess; ..., Proceedings of the National Academy of Sciences current issue, 2014

Coenzyme A (CoA) mediates thiol-based acyl-group transfer (acetylation and palmitoylation). However, a role for CoA in the thiol-based transfer of NO groups (S-nitrosylation) has not been considered. Here we describe protein S-nitrosylation in yeast (heretofore unknown) that is mediated by ...


Conformational activation of ADAMTS13 [Biochemistry]

30-Dec-2014 | Kieron South; Brenda M. Luken; James T. B. Crawley; Rebecca Phillips; Mari Thomas; Richard F. Collins; Louis Deforch ..., Proceedings of the National Academy of Sciences current issue, 2014

A disintegrin and metalloprotease with thrombospondin motifs 13 (ADAMTS13) is a metalloprotease that regulates von Willebrand factor (VWF) function. ADAMTS13-mediated proteolysis is determined by conformational changes in VWF, but also may depend on its own conformational activation. Kinetic ...


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