Mol* Viewer: modern web app for 3D visualization and analysis
of large biomolecular structures

J 2021

Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures

SEHNAL, David, S. BITTRICH, M. DESHPANDE, Radka SVOBODOVÁ, K. BERKA et. al.

Základní údaje

Originální název

Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures

Autoři

SEHNAL, David (203 Česká republika, domácí), S. BITTRICH, M. DESHPANDE, Radka SVOBODOVÁ (203 Česká republika, garant, domácí), K. BERKA, V. BAZGIER, S. VELANKAR, S.K. BURLEY, Jaroslav KOČA (203 Česká republika, domácí) a A.S. ROSE

Vydání

Nucleic acids research, Oxford, Oxford University Press, 2021, 0305-1048

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10608 Biochemistry and molecular biology

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 19.160

Kód RIV

RIV/00216224:14740/21:00122430

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1093/nar/gkab314

UT WoS

000672775800055

Klíčová slova anglicky

MOLECULAR-DYNAMICSDATABASE

Štítky

CF BioData, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 31. 10. 2024 08:40, Ing. Monika Szurmanová, Ph.D.

Anotace

V originále

Large biomolecular structures are being determined experimentally on a daily basis using established techniques such as crystallography and electron microscopy. In addition, emerging integrative or hybrid methods (I/HM) are producing structural models of huge macromolecular machines and assemblies, sometimes containing 100s of millions of non-hydrogen atoms. The performance requirements for visualization and analysis tools delivering these data are increasing rapidly. Significant progress in developing online, web-native three-dimensional (3D) visualization tools was previously accomplished with the introduction of the LiteMol suite and NGL Viewers. Thereafter, Mol* development was jointly initiated by PDBe and RCSB PDB to combine and build on the strengths of LiteMol (developed by PDBe) and NGL (developed by RCSB PDB). The web-native Mol* Viewer enables 3D visualization and streaming of macromolecular coordinate and experimental data, together with capabilities for displaying structure quality, functional, or biological context annotations. High-performance graphics and data management allows users to simultaneously visualise up to hundreds of (superimposed) protein structures, stream molecular dynamics simulation trajectories, render cell-level models, or display huge I/HM structures. It is the primary 3D structure viewer used by PDBe and RCSB PDB. It can be easily integrated into third-party services. Mol* Viewer is open source and freely available at https://molstar.org/.

Návaznosti

EF16_013/0001777, projekt VaV

Název: ELIXIR-CZ: Budování kapacit

90131, velká výzkumná infrastruktura

Název: ELIXIR-CZ II

Citovat

SEHNAL, David, S. BITTRICH, M. DESHPANDE, Radka SVOBODOVÁ, K. BERKA, V. BAZGIER, S. VELANKAR, S.K. BURLEY, Jaroslav KOČA a A.S. ROSE. Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures. Nucleic acids research. Oxford: Oxford University Press, 2021, roč. 49, W1, s. "W431"-"W437", 7 s. ISSN 0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gkab314.

@article{1793640,
   author = {Sehnal, David and Bittrich, S. and Deshpande, M. and Svobodová, Radka and Berka, K. and Bazgier, V. and Velankar, S. and Burley, S.K. and Koča, Jaroslav and Rose, A.S.},
   article_location = {Oxford},
   article_number = {W1},
   doi = {http://dx.doi.org/10.1093/nar/gkab314},
   keywords = {MOLECULAR-DYNAMICSDATABASE},
   language = {eng},
   issn = {0305-1048},
   journal = {Nucleic acids research},
   title = {Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures},
   url = {https://academic.oup.com/nar/article/49/W1/W431/6270780#267023333},
   volume = {49},
   year = {2021}
}

TY  - JOUR
ID  - 1793640
AU  - Sehnal, David - Bittrich, S. - Deshpande, M. - Svobodová, Radka - Berka, K. - Bazgier, V. - Velankar, S. - Burley, S.K. - Koča, Jaroslav - Rose, A.S.
PY  - 2021
TI  - Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures
JF  - Nucleic acids research
VL  - 49
IS  - W1
SP  - "W431"-"W437"
EP  - "W431"-"W437"
PB  - Oxford University Press
SN  - 03051048
KW  - MOLECULAR-DYNAMICSDATABASE
UR  - https://academic.oup.com/nar/article/49/W1/W431/6270780#267023333
N2  - Large biomolecular structures are being determined experimentally on a daily basis using established techniques such as crystallography and electron microscopy. In addition, emerging integrative or hybrid methods (I/HM) are producing structural models of huge macromolecular machines and assemblies, sometimes containing 100s of millions of non-hydrogen atoms. The performance requirements for visualization and analysis tools delivering these data are increasing rapidly. Significant progress in developing online, web-native three-dimensional (3D) visualization tools was previously accomplished with the introduction of the LiteMol suite and NGL Viewers. Thereafter, Mol* development was jointly initiated by PDBe and RCSB PDB to combine and build on the strengths of LiteMol (developed by PDBe) and NGL (developed by RCSB PDB). The web-native Mol* Viewer enables 3D visualization and streaming of macromolecular coordinate and experimental data, together with capabilities for displaying structure quality, functional, or biological context annotations. High-performance graphics and data management allows users to simultaneously visualise up to hundreds of (superimposed) protein structures, stream molecular dynamics simulation trajectories, render cell-level models, or display huge I/HM structures. It is the primary 3D structure viewer used by PDBe and RCSB PDB. It can be easily integrated into third-party services. Mol* Viewer is open source and freely available at https://molstar.org/.
ER  -

SEHNAL, David, S. BITTRICH, M. DESHPANDE, Radka SVOBODOVÁ, K. BERKA, V. BAZGIER, S. VELANKAR, S.K. BURLEY, Jaroslav KOČA a A.S. ROSE. Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures. \textit{Nucleic acids research}. Oxford: Oxford University Press, 2021, roč.~49, W1, s.~''W431''-''W437'', 7 s. ISSN~0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gkab314.

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