V
Vivek Modi
Researcher at Fox Chase Cancer Center
Publications - 16
Citations - 574
Vivek Modi is an academic researcher from Fox Chase Cancer Center. The author has contributed to research in topics: Sequence alignment & Multiple sequence alignment. The author has an hindex of 8, co-authored 16 publications receiving 348 citations. Previous affiliations of Vivek Modi include Indian Institute of Technology Kanpur.
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Defining a new nomenclature for the structures of active and inactive kinases.
Vivek Modi,Roland L. Dunbrack +1 more
TL;DR: This work has developed a clustering scheme and nomenclature to categorize and label all the observed conformations in human protein kinases, enabling it to clearly define the geometry of the active state and to distinguish closely related inactive states which were previously not characterized.
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Conformational analysis of the DFG-out kinase motif and biochemical profiling of structurally validated type II inhibitors.
R. S. K. Vijayan,Peng He,Vivek Modi,Krisna C. Duong-Ly,Haiching Ma,Jeffrey R. Peterson,Roland L. Dunbrack,Ronald M. Levy +7 more
TL;DR: It is discovered that the number of structurally validated type II inhibitors that can be found in the PDB and that are also represented in publicly available biochemical profiling studies of kinase inhibitors is very small.
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A Structurally-Validated Multiple Sequence Alignment of 497 Human Protein Kinase Domains
Vivek Modi,Roland L. Dunbrack +1 more
TL;DR: A parsimonious, structure-based multiple sequence alignment of 497 human protein kinase domains excluding atypical kinases is presented and indicates that ten kinases previously labeled as “OTHER” can be confidently placed into the CAMK group.
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Assessment of refinement of template-based models in CASP11.
Vivek Modi,Roland L. Dunbrack +1 more
TL;DR: A blind experiment in the refinement of protein structure predictions, the fourth such experiment since CASP8, where the best groups were able to improve more than 70% of the targets from the starting models, and by an average of 3–5% in the standard CASP measures.
Journal ArticleDOI
Assessment of template-based modeling of protein structure in CASP11.
TL;DR: The results argue for a density‐driven approach in future CASP TBM assessments that accounts for the bimodal nature of these distributions instead of Z scores, which assume a unimodal, Gaussian distribution.