mdCATH 3vnyA02

mdCATH: A Large-Scale MD Dataset for Data-Driven Computational Biophysics

Molecular system

Starting structure: 3VNYPDB 3VNY(opens in a new tab)
Force field: CHARMM22*TIP3P
Engine: ACEMD
Method: Classical MD
Ensemble: NVT
Temperature: 320 K
Timestep: 4 fs
Frames: 11,760
Composition: Molecules of interest
ProteinProtein · 1 chain4,919 atoms325 residues
Total4,919 atoms325 residues
Box dimensions: Cubic

Sequences

Sequence 1Protein · 325 residues

PDYTGLSYEQ AQMANPNYFS GANTQLAGFL RTLGRQGVLR IGGNTSEYTF WNRHAKPTAA DEXLAAGPDK GHHAAAREVI TPEAVNNLSE FLDKTGWKLI YGLNLGKGTP ENAADEAAYV METIGADRLL AFQLGNEPDL FYRNGIRPAS YDFAAYAGDW QRFFTAIRKR VPNAPFAGPD TAYNTKWLVP FADKFKHDVK FISSXYYAEG PPTDPSMTIE RLMKPNPRLL GETAGLKQVE ADTGLPFRLT ETNSCYQGGK QGVSDTFAAA LWAGDLMYQQ AAAGSTGINF XGGGYGWYTP VAGTPEDGFI ARPEYYGMLL FAQAG

Run	Outputs
320_rep1	Trajectory Analyses
320_rep2	Trajectory Analyses
320_rep3	Trajectory Analyses
320_rep4	Trajectory Analyses
320_rep5	Trajectory Analyses
348_rep1	Trajectory Analyses
348_rep2	Trajectory Analyses
348_rep3	Trajectory Analyses
348_rep4	Trajectory Analyses
348_rep5	Trajectory Analyses
379_rep1	Trajectory Analyses
379_rep2	Trajectory Analyses
379_rep3	Trajectory Analyses
379_rep4	Trajectory Analyses
379_rep5	Trajectory Analyses
413_rep1	Trajectory Analyses
413_rep2	Trajectory Analyses
413_rep3	Trajectory Analyses
413_rep4	Trajectory Analyses
413_rep5	Trajectory Analyses
450_rep1	Trajectory Analyses
450_rep2	Trajectory Analyses
450_rep3	Trajectory Analyses
450_rep4	Trajectory Analyses
450_rep5	Trajectory Analyses

Files

43 files · 967 MB

All files967 MB

trajectory.binBIN
pca_trajectory_01.binBIN
pca_trajectory_02.binBIN
pca_trajectory_03.binBIN
pca_trajectory_04.binBIN
pca_trajectory_05.binBIN
pca_trajectory_06.binBIN
pca_trajectory_07.binBIN
pca_trajectory_08.binBIN
pca_trajectory_09.binBIN

Contributors

Research groups: Computational Science Laboratory, Universitat Pompeu Fabra, Barcelona Biomedical Research Park (PRBB)Institució Catalana de Recerca i Estudis Avançats (ICREA)Acellera LabsBiophysics Institute, National Research Council (CNR-IBF)
Contact: g.defabritiis@gmail.com

mdCATH 3vnyA02

Description

Molecular system

Sequences

Experiments

Files

Contributors