|
PEG2000 collapsing into bilayer core in atomistic simulation (GROMOS 53A6)
|
|
0
|
17
|
March 19, 2026
|
|
Amber FF parameters for metal binding centres
|
|
4
|
1288
|
March 17, 2026
|
|
Newest CHARMM36 port for GROMACS
|
|
39
|
23863
|
March 5, 2026
|
|
Amber19SB and Amber14SB in old versions of Gromacs
|
|
13
|
178
|
February 27, 2026
|
|
Define ATP+mg in Amber forcefield
|
|
0
|
25
|
February 23, 2026
|
|
CGenFF ERROR - attype warning: unknown sulfur type (SD) not supported; skipped molecule
|
|
2
|
282
|
February 16, 2026
|
|
Amber99sb-ildn ff with Hydroxyproline
|
|
1
|
44
|
February 10, 2026
|
|
How to build Ligand topology
|
|
2
|
76
|
February 4, 2026
|
|
Your Review on AMBER19sb MD in GROMACS2026
|
|
1
|
89
|
February 4, 2026
|
|
How to add hydrogen atoms to the complex with correct coordinates?
|
|
2
|
24
|
January 23, 2026
|
|
Tabulated nonbonded potentials in GROMACS 2026
|
|
1
|
38
|
January 21, 2026
|
|
Charge precision in topology files: parsing behaviour and validation tolerance
|
|
5
|
49
|
January 21, 2026
|
|
Gromacs .hdb format RU5 case study
|
|
3
|
29
|
January 14, 2026
|
|
Conducting MD simulation on a zinc metalloprotein with 4 zinc ions
|
|
0
|
34
|
January 7, 2026
|
|
Is it possible to add other form of lennard jones potential form (such as LJ9-3, LJ6-3) in gromacs?
|
|
3
|
55
|
January 7, 2026
|
|
Does GROMACS distinguish Rp/Sp chiral phosphate modifications at O1P vs O2P in DNA?
|
|
0
|
14
|
January 5, 2026
|
|
Best practice for using newer AMBER force fields (ff19SB) in GROMACS?
|
|
3
|
492
|
December 17, 2025
|
|
Adding external gpu force to gromacs result in energy conservation problem
|
|
8
|
106
|
December 10, 2025
|
|
How to add terminal caps in AMBER with GROMACS
|
|
1
|
127
|
December 3, 2025
|
|
INSANE not compatible with martini3 GM3?
|
|
1
|
84
|
December 1, 2025
|
|
Simulating a Reverse Transcriptase complex with RNA, DNA
|
|
1
|
41
|
December 1, 2025
|
|
Query regarding making all .mdp files for ionization, equllibration, energy minimization
|
|
2
|
43
|
November 25, 2025
|
|
Calculation of Coulomb 1-4 energies and Coulomb SR energies
|
|
5
|
108
|
November 24, 2025
|
|
Adding missing dihedral interactions to a Force Field
|
|
1
|
54
|
October 31, 2025
|
|
How to setup protein-ligand simulation using CHARMM-GUI for ligand preparation
|
|
9
|
482
|
October 26, 2025
|
|
A Custom Water Force Field Implementation
|
|
0
|
46
|
October 17, 2025
|
|
Modify residues using CHARMM-GUI pdb reader and manipulator
|
|
0
|
57
|
October 14, 2025
|
|
Using PMX for ΔΔG on a glycosylated Fc (P238D back-mutation; PDB 3WJJ): viable workflows?
|
|
0
|
16
|
October 12, 2025
|
|
How to simulate a cyclic protein with AMBER99SB ff?
|
|
1
|
61
|
October 9, 2025
|
|
Tools for creating initial .gro and combining source files
|
|
0
|
29
|
October 8, 2025
|