NMR structure refinement data | Protein structure analysis - OMICtools

Unlock your biological data

Try: RNA sequencing CRISPR Genomic databases DESeq

Software Databases User

1 - 4 of 4 results

STAP / Statistical Torsion Angle Potentials

A public database of 2405 refined NMR solution structures from the Protein Data Bank (PDB). A simulated annealing protocol was employed to obtain refined structures with target potentials, including the newly developed STAP. The refined database was extensively analysed using various quality indicators from several assessment programs to determine the nuclear Overhauser effect (NOE) completeness, Ramachandran appearance, chi(1)-chi(2) rotamer normality, various parameters for protein stability and other indicators.

A database that contains recalculated structures for 500+ protein entries from the Protein Data Bank (PDB). RECOORD can be used by the structural biology community for further development of calculation protocols, validation tools, structure-based statistical approaches and modeling.

DRESS / Database of REfined Solution NMR Structures

A repository for solution NMR structures refined in explicit solvent. DRESS presents a uniformly refined and validated set of structural models that hopefully improves the value of these NMR structures as input for experimental and theoretical studies in many fields of research. Currently there are 100 refined PDB files in the database.

CheZOD database

Contains detailed information about the extent of disorder in more than 100 curated protein data entries. CheZOD database is a repository of experimentally validated disordered proteins. The inspection and systematic analysis of the entries highlighted several trends and variations. This repository can contribute to a more detailed understanding of the relationship between primary sequence and disorder/structure and function.

1 - 1 of 1 result

Yashwanth Subbannayya

Metabolomics YU-IOB Center for Systems Biology and Molecular Medicine, Mangalore, India

Dr. Yashwanth Subbannayya obtained his M.Sc. degree in Medical Biochemistry from Manipal University. He qualified the competitive CSIR-UGC National Eligibility Test and joined the Institute of Bioinformatics, Bangalore as a UGC Junior Research Fellow. As part of his Ph.D. work, he studied the molecular mechanisms of gastric cancer in clinical specimens using quantitative proteomic technologies. This study, the results of which were published in Cancer Biology and Therapy, yielded a novel therapeutic target for gastric cancer- CAMKK2. Further, he also studied the serum proteome of gastric cancer patients and developed assays for potential markers using the revolutionary multiple reaction monitoring approach. The results of this study were published in Journal of Proteomics. In addition to his research work, he also trained extensively in sample preparation for mass spectrometry, fractionation techniques and gained expertise in quantitative proteomic techniques and data analysis. In addition, he also trained extensively in various validation platforms including immunohistochemsitry, multiple reaction monitoring and Western blot. He has also worked as a curator for several biological databases including NetPath, Human Protein Reference Database (HPRD) and Breast cancer database. His work in various research projects have yielded him 23 publications either as lead author or co-author in peer reviewed journals. He is a reviewer for the journal Proteomics. Dr. Yashwanth Subbannayya joined the YU-IOB Center for Systems Biology and Molecular Medicine in June, 2015. During the initial period, his job consisted of assisting other personnel of the university in the establishment of YU-IOB Center for Systems Biology and Molecular Medicine. He was also involved in training of Ph.D. students in biological aspects. After the establishment of the center, he trained in cell culture techniques and metabolomics analysis. At YU-IOB CSBMM, he is studying the molecular mechanisms in various cancers including oral cancer. In addition, he is studying the molecular mechanisms as well as the metabolic constituents of traditional medicine formulations using mass spectrometry technologies. In June 2016, he convened the national symposium “Genomics in clinical practice: Future of precision medicine” held at Yenepoya University on June 1 and 2, 2016. The resource persons included 16 individuals from various academic organizations as well as industry. The symposium was attended by 218 participants from 24 institutions around India. He is a member of the Scientific Review Board of Yenepoya Research Centre where he facilitates timely scientific review of research projects.

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.