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

https://doi.org/10.1093/nar/gkab314

UT WoS

000672775800055

EID Scopus

2-s2.0-85108991908

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://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 = {https://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://doi.org/10.1093/nar/gkab314.

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