Error in running pdb2gmx for protein with modified residue
|
|
1
|
243
|
September 30, 2023
|
Generating PDB file for custom DNA sequence?
|
|
0
|
191
|
September 27, 2023
|
Error: atom C1 not found in buiding block 1MET while combining tdb and rtp
|
|
2
|
608
|
September 26, 2023
|
Protein-specific termini
|
|
1
|
234
|
September 15, 2023
|
Hybrid molecule topologies for intermolecular distance restraints
|
|
1
|
176
|
August 18, 2023
|
Error in conversion of pdb file to gro file
|
|
0
|
203
|
August 13, 2023
|
Md simulation
|
|
1
|
166
|
August 9, 2023
|
Pdb2gmx does not make disulfide bond between peptide chains
|
|
5
|
710
|
July 31, 2023
|
Fatal Error "Invalid dihedral type 180
|
|
3
|
505
|
July 8, 2023
|
GROMOS54a7 ff leads to missing parameters in topology after S-S-bonds between Cys residues were app
|
|
1
|
419
|
July 5, 2023
|
All lipids defined as part of one molecule in topology
|
|
10
|
455
|
July 4, 2023
|
Interactive protonation assignment for IgG4 with the charmm36 force field
|
|
3
|
308
|
July 3, 2023
|
Missing parameters in cyclic peptide with Gromos FF
|
|
0
|
274
|
July 3, 2023
|
Running pdb2gmx on large water/membrane system
|
|
0
|
316
|
June 22, 2023
|
Combine LigParGen and Packmol to make Gromacs input
|
|
1
|
765
|
June 13, 2023
|
Pdb2gmx Error - molecule in input file was mapped to entry in topology, but atom not found
|
|
0
|
328
|
June 6, 2023
|
Error while running writing the topology
|
|
0
|
231
|
May 18, 2023
|
Protonation states using -inter
|
|
1
|
217
|
May 11, 2023
|
Hydrogen mass repartitioning with 2fs steps
|
|
0
|
232
|
May 4, 2023
|
Gmx make_ndx using em.tpr. Fatal error: No v in input file
|
|
9
|
737
|
April 28, 2023
|
Combine some topologies
|
|
0
|
243
|
April 27, 2023
|
Unknown cmap torsion between atoms near modified residue
|
|
0
|
205
|
April 20, 2023
|
Is it possible to define improper dihedral angles for sidechain-backbone crosslinks
|
|
0
|
210
|
April 12, 2023
|
Capping residue ACE not recognised from the rtp file
|
|
14
|
3380
|
April 12, 2023
|
Generate topolgy file using pdb and itp files
|
|
2
|
883
|
March 16, 2023
|
Fatal errors in .rtp file
|
|
2
|
407
|
March 16, 2023
|
Fatal errors
|
|
0
|
336
|
March 1, 2023
|
Error message
|
|
2
|
250
|
February 26, 2023
|
Error in pdb2gmx command
|
|
2
|
539
|
February 25, 2023
|
PDB2GMX for Modified DNA_CHAIN
|
|
4
|
257
|
February 17, 2023
|