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Tracing conformational changes in proteins - PubMed
https://pubmed.ncbi.nlm.nih.gov/20487508/
Background: Many proteins undergo extensive conformational changes as part of their functionality. Tracing these changes is important for understanding the way these proteins function. Traditional biophysics-based conformational search methods require a large number of calculations and are hard to apply to large-scale conformational motions.
Tracing conformational changes in proteins | BMC …
https://bmcstructbiol.biomedcentral.com/articles/10.1186/1472-6807-10-S1-S1
Tracing conformational changes in proteins - Rice University
https://www.cs.rice.edu/~mmoll/publications/haspel2010tracing-conformational-changes-in-proteins.pdf
Background:Many proteins undergo extensive conformational changes as part of their functionality. Tracing these changes is important for understanding the way these proteins function. Traditional biophysics-based conformational search methods require a large number of calculations and are hard to apply to large-scale conformational motions.
Tracing Conformational Changes in Proteins
https://www.cs.umb.edu/~nurith/publications/CSBW09_ConfChange.pdf
Tracing these changes is crucial for understand- ing the way these proteins perform their function. Existing physics-based computational methods that trace and simulate conformational changes in proteins include Molecular Dynam- ics (MD) [2], …
Detecting protein conformational changes in interactions …
https://pubmed.ncbi.nlm.nih.gov/24093228/
Conformational changes frequently occur when proteins interact with other proteins. How to detect such changes in silico is a major problem. Existing methods for docking with conformational changes remain time-consuming, and they solve only a small portion of protein complexes accurately. This work presents a more accurate method (FlexDoBi) for ...
Real-Time Monitoring of Protein Conformational Changes …
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0103674
Proteins can switch between different conformations in response to stimuli, such as pH or temperature variations, or to the binding of ligands. Such plasticity and its kinetics can have a crucial functional role, and their characterization has taken center stage in …
Conformational Changes In Protein Interations - NUS …
https://www.comp.nus.edu.sg/~leowwk/thesis/luhaiyun-proposal.pdf
The molecules that are considered flexible may undergo conformational changes. Protein docking algorithms use search algorithms to find stable configurations between the ligand and the receptor. There are two different searching approaches: (1) full solution space search and (2) gradual guided progression through solution space.
analysis of conformational changes on protein–protein …
https://academic.oup.com/peds/article/12/4/271/1474802
Calculations of conformational change Pairs of proteins were superposed on atoms mentioned above by the least squares fitting algorithm of McLachlan (1979), implemented by Suhail Islam (personal communication) and by the `roughfit' option of the Structural Alignment of Multiple Proteins (STAMP) program of Russell and Barton (1992).
Detecting Protein Conformational Changes in …
https://link.springer.com/chapter/10.1007/978-3-642-37195-0_6
Conformational changes frequently occur when proteins interact with other proteins. How to detect such changes in silico is a major problem. Existing methods for docking with conformational changes remain time-consuming, and they solve the problem only for a small portion of protein-protein complexes accurately.
RESEARCH Open Access Tracing conformational changes in …
https://bmcstructbiol.biomedcentral.com/track/pdf/10.1186/1472-6807-10-S1-S1.pdf
Background: Many proteins undergo extensive conformational changes as part of their functionality. Tracing these changes is important for understanding the way these proteins function. Traditional biophysics-based conformational search methods require a large number of calculations and are hard to apply to large-scale conformational motions.
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