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RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences

Stephen K Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Li Chen, Gregg V Crichlow, Cole H Christie, Kenneth Dalenberg, Luigi Di Costanzo, Jose M Duarte, Shuchismita Dutta, Zukang Feng (+26 others)
2020 Nucleic Acids Research  
PDB data consumers accessing our web portals include researchers, educators and students studying fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences.  ...  The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), the US data center for the global PDB archive and a founding member of the Worldwide Protein Data Bank partnership  ...  ACKNOWLEDGEMENTS RCSB PDB is a member of the Worldwide Protein Data Bank (wwPDB.org).  ... 
doi:10.1093/nar/gkaa1038 pmid:33211854 pmcid:PMC7779003 fatcat:dkqo54quqjgovp7y4v67b635zu

Multimodal Pre-Training Model for Sequence-based Prediction of Protein-Protein Interaction [article]

Yang Xue, Zijing Liu, Xiaomin Fang, Fan Wang
2021 arXiv   pre-print
Protein-protein interactions (PPIs) are essentials for many biological processes where two or more proteins physically bind together to achieve their functions.  ...  However, neither sequences nor contact maps can fully characterize structures and functions of the proteins, which are closely related to the PPI problem.  ...  Rcsb protein data bank: powerful new tools for exploring 3d structures of biological macromolecules for basic and applied research and education in  ... 
arXiv:2112.04814v1 fatcat:areao63ioncdrf46jr5ty6kdb4

Invited Speaker Abstracts

2019 Turk biyokimya dergisi = Turkish journal of biochemistry  
Protein Data Base (RCSB PDB) is one of the most important databases for achieving the 3D version of the cancer target which contain more than 1 TB of Structure Data for Proteins, DNA, and RNA.  ...  Karaca will briefly introduce the basic Structural Biology techniques and the data types acquired with them.  ...  According to the World Health Organization data, about 2 million new lung cancer cases are diagnosed each year [1] . In our country, the incidence of lung cancer is 29,314.  ... 
doi:10.1515/tjb-2019-44s205 fatcat:ylzu5whwindujpg47qcrcgfr4a

Mitochondrial energy dysfunction induces remodeling of the cardiac mitochondrial protein acylome [article]

Jessica N. Peoples, Nasab Ghazal, Duc M. Duong, Katherine R. Hardin, Nicholas T. Seyfried, Victor Faundez, Jennifer Q. Kwong
2021 bioRxiv   pre-print
The specific pathway(s) engaged by mitochondria in response to defects in mitochondrial energy production in vivo and in high-energy tissues like the heart are not fully understood.  ...  Mass spectrometry-based proteomics further revealed that energy dysfunction-induced remodeling of the acetylome and malonylome preferentially impacts mitochondrial proteins.  ...  ., and Zhuravleva, M. (2021) RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine  ... 
doi:10.1101/2021.01.31.429057 fatcat:tnkgowmf7jbobhywla5hi7uinm

Cytomegalovirus immediate-early 1 proteins form a structurally distinct protein class with adaptations determining cross-species barriers

Johannes Schweininger, Myriam Scherer, Franziska Rothemund, Eva-Maria Schilling, Sonja Wörz, Thomas Stamminger, Yves A. Muller, Eain A. Murphy
2021 PLoS Pathogens  
Furthermore, our data show that the IE1 fold has been adapted to maximize the efficacy of PML targeting in a species-specific manner and support the concept that the PML-NBs-based intrinsic defense constitutes  ...  We conclude that cytomegaloviruses have evolved a distinct protein tertiary structure of IE1 to effectively bind and inactivate an important cellular restriction factor.  ...  Acknowledgments We would like to thank Manfred Weiss and Uwe Müller and their team for help with data collection at beamline 14.2 at BESSY synchrotron and Max Kraner from the Biochemistry Division of the  ... 
doi:10.1371/journal.ppat.1009863 pmid:34370791 pmcid:PMC8376021 fatcat:ccwb6a4vafborcbnhvoxrxcxyq

Cytomegalovirus immediate-early 1 proteins form a structurally distinct protein class with adaptations determining cross-species barriers

Johannes Schweininger, Myriam Scherer, Franziska Rothemund, Eva-Maria Schilling, Sonja Wörz, Thomas Stamminger, Yves Muller
2021
Furthermore, our data show that the IE1 fold has been adapted to maximize the efficacy of PML targeting in a species-specific manner and support the concept that the PML-NBs-based intrinsic defense constitutes  ...  We conclude that cytomegaloviruses have evolved a distinct protein tertiary structure of IE1 to effectively bind and inactivate an important cellular restriction factor.  ...  Acknowledgments We would like to thank Manfred Weiss and Uwe Müller and their team for help with data collection at beamline 14.2 at BESSY synchrotron and Max Kraner from the Biochemistry Division of the  ... 
doi:10.3204/pubdb-2021-03854 fatcat:sc2ajloli5fsxkfc4v5virbaom

COLECISTITE ASSOCIADA A ÍLEO BILIAR: UM RELATO DE CASO [chapter]

Marina Gomes Silva Martins, Luiza Pires Miranda, Romullo V. Dutra Menezes, Lays Viana Freitas, Tassiana Soares Silva, Lucianno Viana Ribeiro, Vitor Hugo Neves Santos
2021 AMPLAMENTE: DESAFIOS EM SAÚDE  
It was concluded that there was a considerable reduction in fat mass and an increase in lean mass.  ...  The body composition was described by the 2component model, and the anthropometric measurements through the references of the International Society for the Advancement of Cineanthropometry (ISAK).  ...  RCSB Protein Data Bank: Powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering  ... 
doi:10.47538/ac-2021.02-04 fatcat:zrma4o77rrcshffmq2k7dbrwxe