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Structure preview of mdCATH 3vk5B00

mdCATH 3vk5B00

Open

Antonio Mirarchi;Toni Giorgino;Gianni De Fabritiis;

MD-A00BWR
Created
7 Jun 2026
License
This trajectory is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. (opens in a new tab)
  • Overview
  • Experiments 25
  • People & affiliations 3

Runs

25
  • 1320_rep1500 nsNVT
  • 2320_rep2500 nsNVT
  • 3320_rep3500 nsNVT
  • 4320_rep4500 nsNVT
  • 5320_rep5500 nsNVT
  • 6348_rep1500 nsNVT
  • 7348_rep2500 nsNVT
  • 8348_rep3130 nsNVT
  • 9348_rep4500 nsNVT
  • 10348_rep5500 nsNVT
  • 11379_rep1500 nsNVT
  • 12379_rep2500 nsNVT
  • 13379_rep3500 nsNVT
  • 14379_rep4500 nsNVT
  • 15379_rep5130 nsNVT
  • 16413_rep1500 nsNVT
  • 17413_rep2500 nsNVT
  • 18413_rep3500 nsNVT
  • 19413_rep4500 nsNVT
  • 20413_rep5500 nsNVT
  • 21450_rep1500 nsNVT
  • 22450_rep2500 nsNVT
  • 23450_rep3500 nsNVT
  • 24450_rep4130 nsNVT
  • 25450_rep5130 nsNVT

413_rep5NVT

Trajectory

3,908 atomsFull system

Length
500 ns @ 4 fs
Frames
500 / 1,000 ps
Temperature
413 K
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Analysis

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Parameters

Length
500 ns@ 4 fs = 125,000,000 steps
Frames
5001 frame every 1,000 ps
Ensemble
NVTconstant number of particles, volume and temperature
Temperature
413 K
Force field
CHARMM22*water model TIP3P
Atoms
3,908
Composition
  • Total system3,908 atoms · 252 residues
  • Protein3,908 atoms · 252 residues
  • Nucleic acids0 atoms · 0 residues
  • Lipids0 atoms · 0 residues
  • Carbohydrates0 atoms · 0 residues
  • Solvent0 atoms · 0 residues
Counter-ions
  • 0Cations (+)
  • 0Anions (-)
  • 0Total ions