Journal ArticleDOI
Protein disulfide engineering.
TLDR
Progress in disulfide engineering is reviewed, with an emphasis on the issue of stability and computational methods that facilitate engineering efforts.About:
This article is published in FEBS Letters.The article was published on 2014-01-21. It has received 205 citations till now.read more
Citations
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Journal ArticleDOI
Critical effect of proline on thermostability of endoglucanase II from Penicillium verruculosum
Anna S. Dotsenko,Subrata Pramanik,Alexander V. Gusakov,Alexander V. Gusakov,Aleksandra M. Rozhkova,Ivan N. Zorov,Ivan N. Zorov,Arkady P. Sinitsyn,Arkady P. Sinitsyn,Mehdi D. Davari,Ulrich Schwaneberg,Ulrich Schwaneberg +11 more
TL;DR: Proline substitutions that were carried out had a critical effect on thermostability of endoglucanase II from Penicillium verruculosum, and molecular dynamics simulations revealed the observed effects on the protein structure and indicated principal changes in flexibility and hydrogen bonds networks.
Journal ArticleDOI
Yosshi: a web-server for disulfide engineering by bioinformatic analysis of diverse protein families.
TL;DR: The Yosshi+Mustguseal is a new integrated web-tool for a systematic homology-driven analysis and engineering of S–S bonds that facilitates a broader interpretation of disulfides not just as a factor of structural stability, but rather as a mechanism to implement functional diversity within a superfamily.
Journal ArticleDOI
Enhancing the Thermal Resistance of a Novel Acidobacteria-Derived Phytase by Engineering of Disulfide Bridges.
Hao Tan,Renyun Miao,Liu Tianhai,Cao Xuelian,Wu Xiang,Xie Liyuan,Zhongqian Huang,Weihong Peng,Bingcheng Gan +8 more
TL;DR: A novel phytase of Acidobacteria was identified from a soil metagenome, cloned, overexpressed, and purified, and redesigned using Disulfide by Design 2.0, introducing four additional disulfide bridges to improve its thermal resistance.
Journal ArticleDOI
Unexpected functional implication of a stable succinimide in the structural stability of Methanocaldococcus jannaschii glutaminase
Sanjeev Kumar,Sunita Prakash,Kallol Gupta,Aparna Vilas Dongre,Padmanabhan Balaram,Hemalatha Balaram +5 more
TL;DR: It is shown that the presence of succinimide increases the structural stability of the glutaminase subunit of GMP synthetase from the hyperthermophile Methanocaldoccocus jannaschii, and the findings suggest that sequences that stabilize succ inimides from hydrolysis may be evolutionarily selected to confer extreme thermal stability.
Journal ArticleDOI
Disulfide engineering of human Kunitz-type serine protease inhibitors enhances proteolytic stability and target affinity toward mesotrypsin.
Itay Cohen,Matt Coban,Anat Shahar,Banumathi Sankaran,Alexandra Hockla,Shiran Lacham,Thomas R. Caulfield,Evette S. Radisky,Niv Papo +8 more
TL;DR: The findings suggest that the Cys-17–Cys-34 disulfide slows proteolysis by dampening conformational fluctuations in the binding loop and minimizing motion at the enzyme–inhibitor interface.
References
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Atomic-Level Characterization of the Structural Dynamics of Proteins
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TL;DR: Simulation of the folding of a WW domain showed a well-defined folding pathway and simulation of the dynamics of bovine pancreatic trypsin inhibitor showed interconversion between distinct conformational states.
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Molecular dynamics: survey of methods for simulating the activity of proteins.
TL;DR: This review offers an outline of the origin of molecular dynamics simulation for protein systems and how it has developed into a robust and trusted tool, and covers more recent advances in theory and an illustrative selection of practical studies in which it played a central role.
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Molecular dynamics simulations in biology.
Martin Karplus,Gregory A. Petsko +1 more
TL;DR: Molecular dynamics is also being used to determine protein structures from NMR, to refine protein X-ray crystal structures faster from poorer starting models, and to calculate the free energy changes resulting from mutations in proteins.
Journal ArticleDOI
Disulphide bridges in globular proteins
TL;DR: There is a strong preference for shorter connections, with half-cystines separated by less than 24 residues in 49% of all disulphides.