Amber Archive Sep 2010 by author
859 messages
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Starting
Tue Aug 31 2010 - 23:00:03 PDT,
Ending
Thu Sep 30 2010 - 18:00:03 PDT
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Abhishek Singh
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sun Sep 19 2010 - 11:50:01 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:52:52 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:34:56 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:28:53 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:08:47 PDT)
[AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Fri Sep 17 2010 - 14:54:20 PDT)
[AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Thu Sep 16 2010 - 09:28:53 PDT)
[AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Thu Sep 16 2010 - 09:21:17 PDT)
Aditya Padhi
Re: [AMBER] Disulphide Bond Cleavage
(Fri Sep 24 2010 - 03:55:47 PDT)
Adrian Roitberg
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 04:13:24 PDT)
Re: [AMBER] eV to kcal/mol conversion factor
(Thu Sep 02 2010 - 10:50:54 PDT)
Alan
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Thu Sep 30 2010 - 05:34:38 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Thu Sep 30 2010 - 03:11:26 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Wed Sep 29 2010 - 04:50:15 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Sat Sep 25 2010 - 05:30:35 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Fri Sep 24 2010 - 08:45:28 PDT)
[AMBER] missing parameters (dihe) in parm10.dat?
(Fri Sep 24 2010 - 07:42:29 PDT)
Re: [AMBER] mixing GAFF with CHARMM
(Wed Sep 08 2010 - 14:19:59 PDT)
[AMBER] mixing GAFF with CHARMM
(Wed Sep 08 2010 - 10:35:32 PDT)
Re: [AMBER] $AMBERHOME/test/LES_noPME/Run.LESmd
(Tue Sep 07 2010 - 11:09:09 PDT)
[AMBER] $AMBERHOME/test/LES_noPME/Run.LESmd
(Tue Sep 07 2010 - 10:33:15 PDT)
albert
[AMBER] Is there any Amber training programm in Europe?
(Thu Sep 02 2010 - 09:39:45 PDT)
Alessandro Nascimento
Re: [AMBER] Regarding atomic charges in parmtop file
(Sat Sep 18 2010 - 05:35:18 PDT)
Alexander Metz
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Wed Sep 22 2010 - 08:23:07 PDT)
Re: [AMBER] Residues with multiple conformations
(Tue Sep 14 2010 - 07:55:40 PDT)
Re: [AMBER] ptraj hbond analysis
(Mon Sep 13 2010 - 07:38:12 PDT)
Re: [AMBER] Complex distorts during pressure adjustment in equilibration
(Fri Sep 10 2010 - 11:28:46 PDT)
[AMBER] Complex distorts during pressure adjustment in equilibration
(Fri Sep 10 2010 - 03:40:47 PDT)
Amor San Juan
Re: [AMBER] AMBER 11: Line minimizer aborted: step at lower bound
(Sun Sep 26 2010 - 19:25:59 PDT)
Re: [AMBER] AMBER 11: Line minimizer aborted: step at lower bound
(Fri Sep 24 2010 - 02:03:43 PDT)
[AMBER] AMBER 11: Line minimizer aborted: step at lower bound
(Thu Sep 23 2010 - 23:40:23 PDT)
Re: [AMBER] Cut-off distance "in Closest" command of ptraj
(Wed Sep 01 2010 - 19:41:07 PDT)
Anbang Li
Re: [AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 19:24:23 PDT)
[AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 16:14:27 PDT)
Andreas Goetz
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Wed Sep 22 2010 - 09:47:15 PDT)
Andrei Neamtu
Re: [AMBER] prep file
(Thu Sep 30 2010 - 04:26:29 PDT)
[AMBER] prep file
(Tue Sep 28 2010 - 23:33:35 PDT)
Andrew Jewett
Re: [AMBER] cubic box
(Wed Sep 29 2010 - 17:06:00 PDT)
Andrew Voronkov
Re: [AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Sat Sep 18 2010 - 04:24:03 PDT)
Re: [AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Thu Sep 16 2010 - 03:25:57 PDT)
Re: [AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Wed Sep 15 2010 - 23:10:55 PDT)
[AMBER] Fwd: comparison of PDBs from clustering - representative, average and from rst file
(Wed Sep 15 2010 - 13:37:44 PDT)
[AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Wed Sep 15 2010 - 11:57:19 PDT)
[AMBER] question on diffusion comand in ptraj
(Sun Sep 12 2010 - 13:54:10 PDT)
[AMBER] contacts command
(Sun Sep 12 2010 - 13:41:01 PDT)
aneesh cna
Re: [AMBER] Regarding atomic charges in parmtop file
(Sun Sep 19 2010 - 21:11:59 PDT)
[AMBER] Regarding atomic charges in parmtop file
(Sat Sep 18 2010 - 03:26:37 PDT)
Anselm Horn
Re: [AMBER] parameters of SEP and TPO can't match SEP TPO
(Wed Sep 29 2010 - 01:08:01 PDT)
Re: [AMBER] parameters of SEP and TPO can't match SEP TPO
(Tue Sep 28 2010 - 00:41:53 PDT)
Anthony Costa
Re: [AMBER] Water pdb parameterization
(Wed Sep 22 2010 - 13:18:43 PDT)
Re: [AMBER] Water pdb parameterization
(Wed Sep 22 2010 - 11:58:15 PDT)
Re: [AMBER] Water pdb parameterization
(Tue Sep 21 2010 - 08:46:10 PDT)
Re: [AMBER] Water pdb parameterization
(Sat Sep 18 2010 - 09:58:15 PDT)
[AMBER] Water pdb parameterization
(Fri Sep 17 2010 - 13:29:01 PDT)
Anuradha Mittal
Re: [AMBER] mmpbsa.py.mpi error
(Mon Sep 27 2010 - 11:00:52 PDT)
[AMBER] mmpbsa.py.mpi error
(Mon Sep 27 2010 - 10:05:08 PDT)
Re: [AMBER] Amber11 compile issue
(Sun Sep 19 2010 - 08:27:27 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 22:11:54 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 20:15:58 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 19:10:51 PDT)
[AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 19:00:48 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 08:17:08 PDT)
Re: [AMBER] ambertools1.4 install problem
(Thu Sep 16 2010 - 20:20:54 PDT)
Re: [AMBER] ambertools1.4 install problem
(Thu Sep 16 2010 - 19:15:47 PDT)
[AMBER] ambertools1.4 install problem
(Thu Sep 16 2010 - 15:36:52 PDT)
Arun Gupta
Re: [AMBER] Installing Amber9 on Ubuntu platform
(Wed Sep 01 2010 - 05:19:54 PDT)
Arvind
Re: [AMBER] Error due to ***s in restart file
(Wed Sep 22 2010 - 11:32:44 PDT)
Re: [AMBER] Error due to ***s in restart file
(Mon Sep 20 2010 - 03:51:10 PDT)
[AMBER] Error due to ***s in restart file
(Sun Sep 19 2010 - 14:07:22 PDT)
Re: [AMBER] 'cluster' option of ptraj: Is it possible to directly feed a file with rmsd values as input?
(Sun Sep 12 2010 - 22:59:36 PDT)
[AMBER] 'cluster' option of ptraj: Is it possible to directly feed a file with rmsd values as input?
(Thu Sep 02 2010 - 07:52:14 PDT)
asaki asaki
[AMBER] which conformation to choose
(Mon Sep 06 2010 - 03:18:34 PDT)
Ashutosh Shandilya
[AMBER] calculation of inter atomic distances
(Tue Sep 28 2010 - 00:16:55 PDT)
Re: [AMBER] Analysis of MD simulation
(Fri Sep 24 2010 - 21:50:49 PDT)
[AMBER] Analysis of MD simulation
(Fri Sep 24 2010 - 21:15:27 PDT)
[AMBER] Analysis of MD simulation
(Thu Sep 23 2010 - 23:48:00 PDT)
[AMBER] unit of Bfactor
(Mon Sep 13 2010 - 22:52:30 PDT)
babak minoofar
[AMBER] Cu2+ parameters
(Thu Sep 30 2010 - 02:36:34 PDT)
Baptiste Legrand
Re: [AMBER] NMR refinement in explicite water
(Thu Sep 30 2010 - 04:55:33 PDT)
[AMBER] NMR refinement in explicite water
(Wed Sep 29 2010 - 06:15:03 PDT)
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Wed Sep 22 2010 - 07:55:54 PDT)
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Tue Sep 21 2010 - 06:12:06 PDT)
[AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Tue Sep 21 2010 - 02:45:08 PDT)
Re: [AMBER] NMR multiple structures
(Thu Sep 16 2010 - 10:23:04 PDT)
Re: [AMBER] NMR multiple structures
(Thu Sep 16 2010 - 07:27:46 PDT)
Re: [AMBER] NMR multiple structures
(Wed Sep 15 2010 - 06:36:48 PDT)
Re: [AMBER] NMR multiple structures
(Wed Sep 15 2010 - 05:33:45 PDT)
Re: [AMBER] NMR multiple structures
(Wed Sep 08 2010 - 09:55:37 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 09:45:36 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 07:09:48 PDT)
[AMBER] NMR multiple structures
(Tue Sep 07 2010 - 02:30:05 PDT)
Ben Roberts
Re: [AMBER] ptraj, unit cell wrapping and velocities
(Wed Sep 29 2010 - 10:59:42 PDT)
[AMBER] ptraj, unit cell wrapping and velocities
(Tue Sep 28 2010 - 13:23:36 PDT)
Re: [AMBER] Pressure in bar or atm?
(Fri Sep 17 2010 - 14:19:27 PDT)
Re: [AMBER] pmemd.MPI problem
(Fri Sep 17 2010 - 05:23:43 PDT)
Re: [AMBER] list of atoms with associated total forces ?
(Tue Sep 14 2010 - 13:45:39 PDT)
[AMBER] Pressure in bar or atm?
(Mon Sep 13 2010 - 13:01:46 PDT)
Re: [AMBER] eV to kcal/mol conversion factor
(Fri Sep 03 2010 - 06:34:08 PDT)
[AMBER] eV to kcal/mol conversion factor
(Thu Sep 02 2010 - 10:33:32 PDT)
Bill Miller III
Re: [AMBER] mmpbsa.py.mpi error
(Mon Sep 27 2010 - 10:42:46 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:53:08 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 03:48:00 PDT)
Re: [AMBER] error in MMPBSA calculation
(Thu Sep 23 2010 - 15:00:56 PDT)
Re: [AMBER] error in MMPBSA calculation
(Tue Sep 21 2010 - 09:44:24 PDT)
Re: [AMBER] MM_PBSA fillratio error/ compiling mm_pbsa.pl
(Tue Sep 21 2010 - 03:53:56 PDT)
Re: [AMBER] mm_pbsa fails
(Fri Sep 17 2010 - 13:19:13 PDT)
Re: [AMBER] installation of python script for mm_pbsa
(Thu Sep 09 2010 - 09:22:11 PDT)
Re: [AMBER] mm_pbsa nmode error
(Sat Sep 04 2010 - 04:47:35 PDT)
Re: [AMBER] PB warning in pb_miccg
(Wed Sep 01 2010 - 05:20:10 PDT)
Bill Ross
Re: [AMBER] tLeap memory leak
(Thu Sep 30 2010 - 09:49:41 PDT)
Re: [AMBER] cubic box
(Wed Sep 29 2010 - 17:22:33 PDT)
Re: [AMBER] Question on simulation
(Wed Sep 29 2010 - 09:32:40 PDT)
Re: [AMBER] tLeap memory leak
(Wed Sep 29 2010 - 09:26:46 PDT)
Re: [AMBER] prep file
(Wed Sep 29 2010 - 09:14:37 PDT)
Re: [AMBER] Question on simulation
(Tue Sep 28 2010 - 20:01:56 PDT)
Re: [AMBER] can't save the PDB file to produce topology and coordinates file
(Sun Sep 26 2010 - 14:39:02 PDT)
Re: [AMBER] Problems with Amber 8 PMEMD
(Sat Sep 25 2010 - 11:48:34 PDT)
Re: [AMBER] Shake errors
(Thu Sep 23 2010 - 12:14:16 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 10:42:43 PDT)
Re: [AMBER] making bond to water molecule
(Sun Sep 19 2010 - 13:45:16 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 10:16:18 PDT)
Re: [AMBER] Question about Heating and equilibration protocol?
(Mon Sep 13 2010 - 11:23:02 PDT)
Re: [AMBER] PTRAJ residue naming problem.
(Fri Sep 10 2010 - 11:46:07 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 15:02:23 PDT)
Re: [AMBER] NMR multiple structures
(Wed Sep 08 2010 - 10:06:27 PDT)
Re: [AMBER] GLYCAM residue naming
(Tue Sep 07 2010 - 14:01:03 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 10:49:35 PDT)
Re: [AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 20:06:16 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Fri Sep 03 2010 - 17:14:26 PDT)
Re: [AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 16:49:02 PDT)
Re: [AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 16:38:27 PDT)
Re: [AMBER] 'cluster' option of ptraj: Is it possible to directly feed a file with rmsd values as input?
(Fri Sep 03 2010 - 10:58:31 PDT)
bin wang
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Mon Sep 27 2010 - 10:25:14 PDT)
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Wed Sep 22 2010 - 06:42:16 PDT)
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Mon Sep 20 2010 - 12:37:09 PDT)
[AMBER] A question regarding mm_pbsa_statistics.pl
(Fri Sep 17 2010 - 15:39:25 PDT)
bingbing zhang
Re: [AMBER] a pdb-trajout problems
(Sat Sep 25 2010 - 03:54:14 PDT)
Re: [AMBER] a pdb-trajout problems
(Tue Sep 21 2010 - 19:44:32 PDT)
Re: [AMBER] a pdb-trajout problems
(Sun Sep 19 2010 - 18:40:24 PDT)
[AMBER] a pdb-trajout problems
(Sun Sep 19 2010 - 07:57:39 PDT)
Bongkeun Kim
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Sat Sep 25 2010 - 10:01:18 PDT)
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Fri Sep 24 2010 - 11:43:31 PDT)
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Fri Sep 24 2010 - 08:50:04 PDT)
[AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Thu Sep 23 2010 - 23:30:06 PDT)
Bozell, Joseph John
Re: [AMBER] FW: MD on an array of small molecules
(Fri Sep 24 2010 - 13:55:54 PDT)
Re: [AMBER] FW: MD on an array of small molecules
(Fri Sep 24 2010 - 06:02:08 PDT)
[AMBER] FW: MD on an array of small molecules
(Thu Sep 23 2010 - 06:46:02 PDT)
Carlos Simmerling
Re: [AMBER] GBOBC cutoff distances
(Thu Sep 30 2010 - 11:05:23 PDT)
Re: [AMBER] loop relaxation with les
(Wed Sep 29 2010 - 12:38:07 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 03:59:06 PDT)
Re: [AMBER] Neutralization of the system by Na+ or Cl- ions are needed or not for constant pH MD simulation
(Fri Sep 24 2010 - 05:38:04 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 18:16:24 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:37:40 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 17:24:47 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Sat Sep 18 2010 - 15:18:39 PDT)
Re: [AMBER] Nudge elastic band, DNA Replica temperature does not go to zero.
(Thu Sep 16 2010 - 09:42:22 PDT)
Re: [AMBER] LD and SGLD runs (Simulations)
(Tue Sep 14 2010 - 03:36:38 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 05:45:50 PDT)
Re: [AMBER] regarding wham analysis
(Mon Sep 13 2010 - 05:40:57 PDT)
Re: [AMBER] regarding wham analysis
(Mon Sep 13 2010 - 04:46:58 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 04:09:42 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 03:41:30 PDT)
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 04:01:51 PDT)
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 03:40:30 PDT)
Re: [AMBER] Gamma_ln in REMD
(Tue Sep 07 2010 - 03:36:56 PDT)
Re: [AMBER] cis/trans transition
(Fri Sep 03 2010 - 08:58:51 PDT)
Re: [AMBER] about the tutorials
(Fri Sep 03 2010 - 05:08:44 PDT)
Re: [AMBER] Cut-off distance "in Closest" command of ptraj
(Thu Sep 02 2010 - 04:20:46 PDT)
Re: [AMBER] MD and LES
(Wed Sep 01 2010 - 07:04:37 PDT)
Carter M.K.
[AMBER] FW: Atom type assignment for formyl group
(Wed Sep 29 2010 - 04:59:48 PDT)
case
Re: [AMBER] Incorrect handling of phenylalanine amide by antechamber
(Thu Sep 30 2010 - 07:24:36 PDT)
Re: [AMBER] TI-Problems
(Thu Sep 30 2010 - 06:35:46 PDT)
Re: [AMBER] Incorrect handling of phenylalanine amide by antechamber
(Thu Sep 30 2010 - 04:28:53 PDT)
Re: [AMBER] Missing atom types between leaprc.ff99SB and parm99.dat
(Wed Sep 29 2010 - 12:24:03 PDT)
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 12:18:00 PDT)
Re: [AMBER] vlimit exceeds
(Wed Sep 29 2010 - 11:55:34 PDT)
Re: [AMBER] Question on simulation
(Wed Sep 29 2010 - 07:53:18 PDT)
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 07:43:11 PDT)
Re: [AMBER] prep file
(Wed Sep 29 2010 - 05:16:15 PDT)
Re: [AMBER] implicit solvent model and charged chain
(Wed Sep 29 2010 - 05:15:02 PDT)
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 05:01:56 PDT)
Re: [AMBER] running pmemd fails
(Wed Sep 29 2010 - 04:39:55 PDT)
Re: [AMBER] ptraj, unit cell wrapping and velocities
(Wed Sep 29 2010 - 04:32:22 PDT)
Re: [AMBER] cubic box
(Tue Sep 28 2010 - 08:40:48 PDT)
Re: [AMBER] running pmemd fails
(Tue Sep 28 2010 - 04:55:47 PDT)
Re: [AMBER] cubic box
(Tue Sep 28 2010 - 04:52:13 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 04:49:10 PDT)
Re: [AMBER] AMBER RESTART QUESTIONS
(Mon Sep 27 2010 - 11:14:00 PDT)
Re: [AMBER] integer divide by zero
(Mon Sep 27 2010 - 08:27:30 PDT)
Re: [AMBER] integer divide by zero
(Mon Sep 27 2010 - 06:43:25 PDT)
Re: [AMBER] cubic box
(Mon Sep 27 2010 - 04:43:17 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Sun Sep 26 2010 - 06:56:21 PDT)
[AMBER] disulfide bonds in amoeba
(Sun Sep 26 2010 - 06:55:34 PDT)
Re: [AMBER] Phosphate group treatment
(Sun Sep 26 2010 - 06:49:43 PDT)
Re: [AMBER] Problems with Amber 8 PMEMD
(Sat Sep 25 2010 - 06:10:27 PDT)
Re: [AMBER] Query about restraint minimization
(Sat Sep 25 2010 - 06:02:02 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Fri Sep 24 2010 - 09:05:50 PDT)
Re: [AMBER] 10-12 hbond terms
(Fri Sep 24 2010 - 06:04:56 PDT)
Re: [AMBER] Neutralization of the system by Na+ or Cl- ions are needed or not for constant pH MD simulation
(Fri Sep 24 2010 - 05:41:14 PDT)
Re: [AMBER] AMBER 11: Line minimizer aborted: step at lower bound
(Fri Sep 24 2010 - 05:15:09 PDT)
Re: [AMBER] amber11 installation error
(Fri Sep 24 2010 - 05:08:26 PDT)
Re: [AMBER] Disulphide Bond Cleavage
(Fri Sep 24 2010 - 04:56:25 PDT)
Re: [AMBER] MD for large proteins
(Thu Sep 23 2010 - 13:04:01 PDT)
Re: [AMBER] Shake errors
(Thu Sep 23 2010 - 13:02:20 PDT)
Re: [AMBER] problem with AMOEBA force field
(Thu Sep 23 2010 - 12:59:42 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 09:21:55 PDT)
Re: [AMBER] PMEMD 10 on OpenMPI with Intel compiler issues
(Thu Sep 23 2010 - 08:26:00 PDT)
Re: [AMBER] AmberTools 1.4 installation problem
(Thu Sep 23 2010 - 06:33:22 PDT)
Re: [AMBER] Water pdb parameterization
(Wed Sep 22 2010 - 13:11:47 PDT)
Re: [AMBER] MD on an array of small molecules
(Wed Sep 22 2010 - 13:07:43 PDT)
Re: [AMBER] pmemd performance
(Wed Sep 22 2010 - 05:09:01 PDT)
Re: [AMBER] hydrogen-deuterium exchange: iso program or papers that outline methods
(Tue Sep 21 2010 - 12:39:26 PDT)
Re: [AMBER] Water pdb parameterization
(Tue Sep 21 2010 - 12:36:31 PDT)
Re: [AMBER] problems compiling amber10
(Tue Sep 21 2010 - 09:55:43 PDT)
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Tue Sep 21 2010 - 08:58:12 PDT)
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Tue Sep 21 2010 - 04:37:14 PDT)
Re: [AMBER] problems with xleap
(Tue Sep 21 2010 - 04:28:23 PDT)
Re: [AMBER] Problems with Amber 8 PMEMD
(Tue Sep 21 2010 - 04:23:18 PDT)
Re: [AMBER] Minimization terminated without any output
(Mon Sep 20 2010 - 18:17:05 PDT)
Re: [AMBER] constraint of bond
(Mon Sep 20 2010 - 18:09:12 PDT)
Re: [AMBER] Blowing array
(Sun Sep 19 2010 - 18:23:24 PDT)
Re: [AMBER] Pressure in bar or atm?
(Sun Sep 19 2010 - 14:52:14 PDT)
Re: [AMBER] Error due to ***s in restart file
(Sun Sep 19 2010 - 14:14:46 PDT)
Re: [AMBER] Minimization terminated without any output
(Sun Sep 19 2010 - 14:07:26 PDT)
Re: [AMBER] Blowing array
(Sun Sep 19 2010 - 11:28:41 PDT)
Re: [AMBER] Water pdb parameterization
(Sun Sep 19 2010 - 11:26:11 PDT)
Re: [AMBER] Water pdb parameterization
(Sat Sep 18 2010 - 05:49:48 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 09:01:35 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 09:06:36 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 05:09:45 PDT)
Re: [AMBER] NMR multiple structures
(Thu Sep 16 2010 - 09:19:06 PDT)
Re: [AMBER] Pressure in bar or atm?
(Wed Sep 15 2010 - 05:19:50 PDT)
Re: [AMBER] units of eigenvalues from pca
(Wed Sep 15 2010 - 05:07:14 PDT)
Re: [AMBER] Question about Heating and equilibration protocol?
(Mon Sep 13 2010 - 11:04:09 PDT)
Re: [AMBER] MD based on 3D-RISM can be really used in AMBER11?
(Mon Sep 13 2010 - 06:12:33 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Mon Sep 13 2010 - 04:40:33 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Sun Sep 12 2010 - 06:44:43 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Fri Sep 10 2010 - 04:42:12 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 13:31:57 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 08:04:04 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 05:07:54 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 09:54:33 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 05:03:14 PDT)
Re: [AMBER] Quasiharmonic Analysis
(Tue Sep 07 2010 - 05:01:52 PDT)
Re: [AMBER] printing rdc violations
(Sat Sep 04 2010 - 08:01:26 PDT)
Re: [AMBER] how to add Zn into a protein structure.
(Sat Sep 04 2010 - 07:54:26 PDT)
Re: [AMBER] eV to kcal/mol conversion factor
(Sat Sep 04 2010 - 06:18:02 PDT)
CHAMI F.
[AMBER] PMEMD 10 on OpenMPI with Intel compiler issues
(Thu Sep 23 2010 - 07:28:01 PDT)
[AMBER] AMBER 10 on OPENMPI
(Tue Sep 14 2010 - 03:19:55 PDT)
Chanchal
Re: [AMBER] error in MMPBSA calculation
(Fri Sep 24 2010 - 00:49:29 PDT)
Re: [AMBER] error in MMPBSA calculation
(Thu Sep 23 2010 - 14:51:37 PDT)
Re: [AMBER] error in MMPBSA calculation
(Thu Sep 23 2010 - 08:10:43 PDT)
Re: [AMBER] error in MMPBSA calculation
(Wed Sep 22 2010 - 13:21:54 PDT)
Re: [AMBER] error in MMPBSA calculation
(Wed Sep 22 2010 - 10:41:41 PDT)
Re: [AMBER] error in MMPBSA calculation
(Tue Sep 21 2010 - 13:13:01 PDT)
[AMBER] error in MMPBSA calculation
(Tue Sep 21 2010 - 07:57:10 PDT)
Chinh Su Tran To
[AMBER] how to add Zn into a protein structure.
(Thu Sep 02 2010 - 05:35:04 PDT)
Christophe Deprez
Re: [AMBER] pmemd.cuda errors on GTX400 series cards - USER POLL
(Thu Sep 09 2010 - 09:11:45 PDT)
Christopher Roberts
[AMBER] Missing atom types between leaprc.ff99SB and parm99.dat
(Mon Sep 27 2010 - 12:29:01 PDT)
cieplak.cgl.ucsf.edu
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 22:53:56 PDT)
colvin
[AMBER] pmemd performance
(Wed Sep 22 2010 - 01:02:13 PDT)
Re: [AMBER] pmemd installation
(Mon Sep 13 2010 - 05:01:33 PDT)
Re: [AMBER] pmemd installation
(Sun Sep 12 2010 - 18:56:36 PDT)
Re: [AMBER] pmemd installation
(Sun Sep 12 2010 - 18:36:02 PDT)
Re: [AMBER] pmemd installation
(Thu Sep 09 2010 - 02:36:10 PDT)
[AMBER] pmemd installation
(Thu Sep 09 2010 - 02:04:17 PDT)
[AMBER] explicitly set the ig variable for ntt=3
(Fri Sep 03 2010 - 00:49:40 PDT)
Computational Chemist
[AMBER] Trivial VMD question
(Wed Sep 01 2010 - 09:30:34 PDT)
Daniel Roe
Re: [AMBER] NMR refinement in explicite water
(Thu Sep 30 2010 - 10:57:03 PDT)
Re: [AMBER] running pmemd fails
(Thu Sep 30 2010 - 06:04:33 PDT)
Re: [AMBER] NMR refinement in explicite water
(Wed Sep 29 2010 - 07:54:09 PDT)
Re: [AMBER] Solvent accessible surface of certain residues
(Tue Sep 28 2010 - 09:03:45 PDT)
Re: [AMBER] cubic box
(Tue Sep 28 2010 - 08:54:47 PDT)
Re: [AMBER] parameters of SEP and TPO can't match SEP TPO
(Tue Sep 28 2010 - 08:42:37 PDT)
Re: [AMBER] calculation of inter atomic distances
(Tue Sep 28 2010 - 08:37:25 PDT)
Re: [AMBER] a pdb-trajout problems
(Tue Sep 21 2010 - 07:42:53 PDT)
Re: [AMBER] Blowing array
(Tue Sep 21 2010 - 07:31:23 PDT)
Re: [AMBER] Blowing array
(Sat Sep 18 2010 - 15:25:32 PDT)
Re: [AMBER] Domainwise rmsd using ptraj rms
(Wed Sep 15 2010 - 14:40:56 PDT)
Re: [AMBER] memory allocation problem?
(Sun Sep 12 2010 - 12:31:02 PDT)
Re: [AMBER] read the traj file to analyzing hbonds
(Tue Sep 07 2010 - 05:52:50 PDT)
Re: [AMBER] read the traj file to analyzing hbonds
(Mon Sep 06 2010 - 06:06:33 PDT)
Re: [AMBER] Hbond Analysis
(Fri Sep 03 2010 - 04:55:27 PDT)
Re: [AMBER] hydrogen bond analysis
(Wed Sep 01 2010 - 05:18:03 PDT)
Daniel Sindhikara
Re: [AMBER] 2D radial distribution function
(Tue Sep 21 2010 - 04:40:24 PDT)
Re: [AMBER] 2D radial distribution function
(Tue Sep 21 2010 - 03:40:14 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Mon Sep 13 2010 - 22:58:02 PDT)
Re: [AMBER] regarding wham analysis
(Mon Sep 13 2010 - 21:24:53 PDT)
Re: [AMBER] LD and SGLD runs (Simulations)
(Mon Sep 13 2010 - 19:46:37 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Sun Sep 12 2010 - 23:52:03 PDT)
Re: [AMBER] compilation fails ALL make.parallel tests
(Sun Sep 12 2010 - 03:07:54 PDT)
Re: [AMBER] ig value
(Sat Sep 11 2010 - 15:00:40 PDT)
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 02:12:21 PDT)
[AMBER] compilation fails ALL make.parallel tests
(Fri Sep 10 2010 - 02:56:09 PDT)
David A. Case
Re: [AMBER] Antechamber issue
(Wed Sep 01 2010 - 14:24:28 PDT)
David Tanner
[AMBER] GBOBC cutoff distances
(Thu Sep 30 2010 - 09:42:36 PDT)
David Watson
Re: [AMBER] ibelly doesn't work
(Mon Sep 27 2010 - 23:04:34 PDT)
dhacademic
Re: [AMBER] can't save the PDB file to produce topology and coordinates file
(Sun Sep 26 2010 - 06:25:10 PDT)
Don.Bashford.stjude.org
Re: [AMBER] Complex distorts during pressure adjustment in equilibr ation. .
(Fri Sep 10 2010 - 16:44:31 PDT)
Dwight McGee
Re: [AMBER] MM-PBSA analysis on a protein ligand complex with 32000 atoms
(Tue Sep 21 2010 - 09:24:07 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 01 2010 - 08:31:49 PDT)
eduardo.troche.uvigo.es
[AMBER] set coordinate axis
(Tue Sep 14 2010 - 07:09:27 PDT)
Edward M.
[AMBER] Average distance between two hydrogens over a 1 ns simulation
(Mon Sep 13 2010 - 04:39:17 PDT)
Ehsan Habibi
Re: [AMBER] read the traj file to analyzing hbonds
(Mon Sep 06 2010 - 07:15:35 PDT)
[AMBER] read the traj file to analyzing hbonds
(Sun Sep 05 2010 - 10:47:47 PDT)
[AMBER] ERROR in safe_malloc: Error in alloc of -2030981184 bytes
(Sat Sep 04 2010 - 09:23:15 PDT)
[AMBER] hydrogen bond analysis
(Wed Sep 01 2010 - 02:05:53 PDT)
Eliana Asciutto
[AMBER] printing rdc violations
(Fri Sep 03 2010 - 09:40:54 PDT)
fancy2012
Re: [AMBER] parameters of SEP and TPO can't match SEP TPO
(Tue Sep 28 2010 - 06:36:10 PDT)
Re: [AMBER] parameters of SEP and TPO can't match SEP TPO
(Tue Sep 28 2010 - 01:46:00 PDT)
[AMBER] parameters of SEP and TPO can't match SEP TPO
(Mon Sep 27 2010 - 20:14:23 PDT)
[AMBER] problem of nmode calculation
(Fri Sep 17 2010 - 19:01:21 PDT)
Francesco Pietra
Re: [AMBER] Incorrect handling of phenylalanine amide by antechamber
(Thu Sep 30 2010 - 09:35:35 PDT)
Re: [AMBER] Incorrect handling of phenylalanine amide by antechamber
(Thu Sep 30 2010 - 06:41:25 PDT)
[AMBER] Incorrect handling of phenylalanine amide by antechamber
(Thu Sep 30 2010 - 02:25:58 PDT)
[AMBER] leap for peptide with new residue
(Wed Sep 29 2010 - 09:48:14 PDT)
Re: [AMBER] phenylalanine amide
(Fri Sep 03 2010 - 03:01:34 PDT)
Frank Thommen
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 07:12:15 PDT)
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 07:00:25 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 06:45:58 PDT)
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 06:32:14 PDT)
[AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 05:37:37 PDT)
Fredrick Devadoss
Re: [AMBER] Residue name problem in PTRAJ
(Tue Aug 31 2010 - 23:47:25 PDT)
FyD
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Sat Sep 25 2010 - 03:27:44 PDT)
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Fri Sep 24 2010 - 07:30:04 PDT)
Re: [AMBER] RESP calculation using non-Gaussian software?
(Fri Sep 10 2010 - 23:14:05 PDT)
Re: [AMBER] Building a sequence using a new molecular fragment
(Thu Sep 09 2010 - 23:45:58 PDT)
Re: [AMBER] which conformation to choose
(Wed Sep 08 2010 - 04:49:43 PDT)
Re: [AMBER] phenylalanine amide
(Fri Sep 03 2010 - 11:12:31 PDT)
Re: [AMBER] phenylalanine amide
(Thu Sep 02 2010 - 11:43:07 PDT)
Gabriel Rocklin
Re: [AMBER] Aromatic C and N atom type problems in Antechamber
(Mon Sep 27 2010 - 21:29:38 PDT)
[AMBER] Aromatic C and N atom type problems in Antechamber
(Mon Sep 20 2010 - 13:20:45 PDT)
George Tzotzos
[AMBER] PTRAJ Hbond analysis
(Mon Sep 20 2010 - 02:56:18 PDT)
Re: [AMBER] pmemd.MPI problem
(Fri Sep 17 2010 - 04:45:06 PDT)
Re: [AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 11:27:40 PDT)
[AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 10:46:23 PDT)
[AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 10:35:10 PDT)
[AMBER] Residues with multiple conformations
(Tue Sep 14 2010 - 06:54:15 PDT)
[AMBER] ptraj hbond analysis
(Mon Sep 13 2010 - 06:55:13 PDT)
geyan
Re: [AMBER] can't save the PDB file to produce topology andcoordinates file
(Mon Sep 27 2010 - 03:21:50 PDT)
Re: [AMBER] can't save the PDB file to produce topology andcoordinates file
(Mon Sep 27 2010 - 03:14:14 PDT)
[AMBER] can't save the PDB file to produce topology and coordinates file
(Sun Sep 26 2010 - 00:20:57 PDT)
[AMBER] can't save the PDB file to produce topology and coordinates file
(Sat Sep 25 2010 - 21:43:53 PDT)
Guoxiong Su
Re: [AMBER] Question on simulation
(Wed Sep 29 2010 - 07:16:42 PDT)
Gustavo Seabra
Re: [AMBER] pmemd performance
(Wed Sep 22 2010 - 06:03:25 PDT)
Re: [AMBER] eV to kcal/mol conversion factor
(Fri Sep 03 2010 - 06:51:41 PDT)
Hannes Loeffler
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 02:51:10 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 01:05:44 PDT)
[AMBER] extended conjugated systems - possible?
(Fri Sep 03 2010 - 06:32:59 PDT)
Harald Lanig
[AMBER] Extracting backbone dihedral angles
(Fri Sep 24 2010 - 04:07:58 PDT)
Hemant Kumar
[AMBER] Compaliation of sander.APBS
(Wed Sep 15 2010 - 17:11:33 PDT)
hirdesh kumar
Re: [AMBER] Solvent accessible surface of certain residues
(Tue Sep 28 2010 - 21:46:35 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 04:37:24 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 04:00:08 PDT)
[AMBER] Solvent accessible surface of certain residues
(Tue Sep 28 2010 - 02:52:58 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 02:36:44 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 00:51:45 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Mon Sep 27 2010 - 23:08:56 PDT)
[AMBER] Disulphide bond breakage during minimization
(Mon Sep 27 2010 - 22:48:25 PDT)
Re: [AMBER] Histamine Hydrogen
(Sat Sep 25 2010 - 10:38:07 PDT)
[AMBER] Query about restraint minimization
(Sat Sep 25 2010 - 00:53:57 PDT)
[AMBER] Histamine Hydrogen
(Fri Sep 24 2010 - 23:42:02 PDT)
Re: [AMBER] AMBER 11: Line minimizer aborted: step at lower bound
(Thu Sep 23 2010 - 23:51:28 PDT)
Re: [AMBER] Disulphide Bond Cleavage
(Thu Sep 23 2010 - 23:31:17 PDT)
[AMBER] Disulphide Bond Cleavage
(Thu Sep 23 2010 - 21:01:31 PDT)
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Wed Sep 22 2010 - 02:59:39 PDT)
[AMBER] Query regarding Hydrogen Bond Duration map
(Wed Sep 22 2010 - 02:53:04 PDT)
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Tue Sep 21 2010 - 22:33:49 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 21:30:43 PDT)
Re: [AMBER] unit of Bfactor
(Mon Sep 13 2010 - 23:13:01 PDT)
Re: [AMBER] unit of Bfactor
(Mon Sep 13 2010 - 23:02:44 PDT)
Re: [AMBER] Query regarding the Hydrogen Bond duration analysis
(Wed Sep 08 2010 - 03:37:14 PDT)
Re: [AMBER] Confirmation of System equilibration ?
(Tue Sep 07 2010 - 21:15:18 PDT)
[AMBER] Confirmation of System equilibration ?
(Tue Sep 07 2010 - 20:38:41 PDT)
[AMBER] Query regarding the Hydrogen Bond duration analysis
(Tue Sep 07 2010 - 07:17:02 PDT)
Re: [AMBER] Water Box Shape
(Mon Sep 06 2010 - 02:35:24 PDT)
[AMBER] Water Box Shape
(Sun Sep 05 2010 - 23:17:06 PDT)
[AMBER] Heating up the sytem
(Fri Sep 03 2010 - 01:51:49 PDT)
Re: [AMBER] explicitly set the ig variable for ntt=3
(Fri Sep 03 2010 - 01:16:25 PDT)
hong-bin Xie
Re: [AMBER] changing mdcrd file to XYZ
(Mon Sep 20 2010 - 10:48:27 PDT)
[AMBER] changing mdcrd file to XYZ
(Mon Sep 20 2010 - 10:01:44 PDT)
Re: [AMBER] About dipoles
(Tue Sep 07 2010 - 10:22:46 PDT)
Hoshin Kim
[AMBER] PTRAJ residue naming problem.
(Fri Sep 10 2010 - 11:26:31 PDT)
Hugh Cheng
[AMBER] How to disable the function to look for N terminal in leap?
(Sun Sep 26 2010 - 21:51:19 PDT)
Igor Sizov
[AMBER] problem with AMOEBA force field
(Thu Sep 23 2010 - 12:16:05 PDT)
Ilyas Yildirim
[AMBER] RESP calculation using non-Gaussian software?
(Fri Sep 10 2010 - 17:51:11 PDT)
Indrajit Deb
[AMBER] QUESTION ON AMBER WORKSHOP or SYMPOSIUM
(Thu Sep 02 2010 - 23:47:37 PDT)
Re: [AMBER] Symposium on Accelerating Biology
(Thu Sep 02 2010 - 23:44:55 PDT)
James Maier
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Fri Sep 24 2010 - 10:46:37 PDT)
Re: [AMBER] ERROR: The unperturbed charge of the unit: 0.010000 is not integral
(Fri Sep 24 2010 - 05:31:18 PDT)
jani vinod
Re: [AMBER] regarding wham analysis
(Mon Sep 13 2010 - 20:11:11 PDT)
Re: [AMBER] regarding wham analysis
(Mon Sep 13 2010 - 05:37:25 PDT)
[AMBER] regarding wham analysis
(Mon Sep 13 2010 - 04:45:13 PDT)
[AMBER] Symposium on Accelerating Biology
(Thu Sep 02 2010 - 22:10:37 PDT)
Jason Swails
Re: [AMBER] MMPBSA.py.MPI with MVAPICH2
(Thu Sep 30 2010 - 08:04:48 PDT)
Re: [AMBER] tLeap memory leak
(Thu Sep 30 2010 - 06:00:42 PDT)
Re: [AMBER] vlimit exceeds
(Wed Sep 29 2010 - 09:57:47 PDT)
Re: [AMBER] MMPBSA.py.MPI with MVAPICH2
(Wed Sep 29 2010 - 09:37:42 PDT)
Re: [AMBER] MMPBSA.py.MPI with MVAPICH2
(Wed Sep 29 2010 - 09:13:48 PDT)
Re: [AMBER] tLeap memory leak
(Wed Sep 29 2010 - 06:46:30 PDT)
Re: [AMBER] tLeap memory leak
(Wed Sep 29 2010 - 06:44:18 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Wed Sep 29 2010 - 05:52:06 PDT)
Re: [AMBER] Question on simulation
(Tue Sep 28 2010 - 17:53:59 PDT)
Re: [AMBER] H-bonb calculation
(Tue Sep 28 2010 - 07:17:26 PDT)
Re: [AMBER] problem with MMPBSA
(Tue Sep 28 2010 - 07:07:43 PDT)
Re: [AMBER] mmpbsa.py.mpi error
(Mon Sep 27 2010 - 12:05:11 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:36:27 PDT)
Re: [AMBER] How to disable the function to look for N terminal in leap?
(Mon Sep 27 2010 - 04:22:11 PDT)
Re: [AMBER] can't save the PDB file to produce topology andcoordinates file
(Mon Sep 27 2010 - 04:14:06 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:11:42 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Sat Sep 25 2010 - 10:21:21 PDT)
Re: [AMBER] Histamine Hydrogen
(Sat Sep 25 2010 - 09:56:33 PDT)
Re: [AMBER] FW: MD on an array of small molecules
(Fri Sep 24 2010 - 14:22:47 PDT)
Re: [AMBER] missing parameters (dihe) in parm10.dat?
(Fri Sep 24 2010 - 07:58:30 PDT)
Re: [AMBER] FW: MD on an array of small molecules
(Fri Sep 24 2010 - 06:13:35 PDT)
Re: [AMBER] Extracting backbone dihedral angles
(Fri Sep 24 2010 - 06:01:46 PDT)
Re: [AMBER] Disulphide Bond Cleavage
(Thu Sep 23 2010 - 22:55:58 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 22:52:36 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Thu Sep 23 2010 - 16:47:56 PDT)
Re: [AMBER] MD for large proteins
(Thu Sep 23 2010 - 09:24:03 PDT)
Re: [AMBER] error in MMPBSA calculation
(Thu Sep 23 2010 - 08:15:57 PDT)
Re: [AMBER] PMEMD 10 on OpenMPI with Intel compiler issues
(Thu Sep 23 2010 - 08:07:57 PDT)
Re: [AMBER] AmberTools 1.4 installation problem
(Thu Sep 23 2010 - 06:53:07 PDT)
Re: [AMBER] AmberTools 1.4 installation problem
(Thu Sep 23 2010 - 05:12:46 PDT)
Re: [AMBER] error in MMPBSA calculation
(Wed Sep 22 2010 - 10:51:44 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 21:45:14 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Tue Sep 21 2010 - 07:59:35 PDT)
Re: [AMBER] changing mdcrd file to XYZ
(Mon Sep 20 2010 - 10:43:53 PDT)
Re: [AMBER] problems with xleap
(Mon Sep 20 2010 - 03:39:54 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 20:14:15 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 19:05:57 PDT)
Re: [AMBER] inconsistency between steered Md and GBSA
(Sat Sep 18 2010 - 14:42:39 PDT)
Re: [AMBER] Regarding atomic charges in parmtop file
(Sat Sep 18 2010 - 07:32:55 PDT)
Re: [AMBER] Restrainmask problem
(Fri Sep 17 2010 - 20:49:14 PDT)
Re: [AMBER] problem of nmode calculation
(Fri Sep 17 2010 - 19:09:32 PDT)
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Fri Sep 17 2010 - 15:49:38 PDT)
Re: [AMBER] Restraint of atom distance during minimization
(Fri Sep 17 2010 - 04:17:17 PDT)
Re: [AMBER] ambertools1.4 install problem
(Thu Sep 16 2010 - 20:09:23 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Thu Sep 16 2010 - 16:49:42 PDT)
Re: [AMBER] ambertools1.4 install problem
(Thu Sep 16 2010 - 16:42:26 PDT)
Re: [AMBER] netCDF support for mmpbsa.py + general question
(Thu Sep 16 2010 - 13:53:48 PDT)
Re: [AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 13:36:27 PDT)
Re: [AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 12:23:34 PDT)
Re: [AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 11:45:52 PDT)
Re: [AMBER] netCDF support for mmpbsa.py + general question
(Thu Sep 16 2010 - 11:39:14 PDT)
Re: [AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 10:50:28 PDT)
Re: [AMBER] pmemd.MPI problem
(Thu Sep 16 2010 - 10:47:15 PDT)
Re: [AMBER] NMR multiple structures
(Wed Sep 15 2010 - 05:55:19 PDT)
Re: [AMBER] mm_pbsa.pl error for per residue decomposition.
(Tue Sep 14 2010 - 20:06:28 PDT)
Re: [AMBER] mm_pbsa.pl error for per residue decomposition.
(Tue Sep 14 2010 - 19:52:05 PDT)
Re: [AMBER] set coordinate axis
(Tue Sep 14 2010 - 10:43:24 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Tue Sep 14 2010 - 09:49:07 PDT)
Re: [AMBER] pmemd installation
(Sun Sep 12 2010 - 19:18:26 PDT)
Re: [AMBER] pmemd installation
(Sun Sep 12 2010 - 18:50:51 PDT)
Re: [AMBER] MMPBSA.py installation error
(Sun Sep 12 2010 - 07:02:39 PDT)
Re: [AMBER] MMPBSA.py installation error
(Sun Sep 12 2010 - 05:21:45 PDT)
Re: [AMBER] RESP calculation using non-Gaussian software?
(Fri Sep 10 2010 - 18:12:40 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Fri Sep 10 2010 - 17:03:41 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 14:50:51 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 14:14:23 PDT)
Re: [AMBER] sleap error
(Fri Sep 10 2010 - 12:56:38 PDT)
Re: [AMBER] sleap error
(Fri Sep 10 2010 - 12:51:12 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 12:32:04 PDT)
Re: [AMBER] debug run
(Fri Sep 10 2010 - 12:26:29 PDT)
Re: [AMBER] PTRAJ residue naming problem.
(Fri Sep 10 2010 - 11:32:03 PDT)
Re: [AMBER] pmemd installation
(Thu Sep 09 2010 - 06:10:55 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 08 2010 - 20:11:05 PDT)
Re: [AMBER] JAC test on GTX 470 error produced
(Wed Sep 08 2010 - 19:26:20 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 09:53:33 PDT)
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 07:04:10 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 07:00:23 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 06:24:47 PDT)
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 05:49:46 PDT)
Re: [AMBER] Confirmation of System equilibration ?
(Wed Sep 08 2010 - 04:53:50 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 04:51:59 PDT)
Re: [AMBER] $AMBERHOME/test/LES_noPME/Run.LESmd
(Tue Sep 07 2010 - 10:54:40 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 08:31:41 PDT)
Re: [AMBER] NMR multiple structures
(Tue Sep 07 2010 - 04:38:37 PDT)
Re: [AMBER] significance of time-average or representative structures from MD
(Sun Sep 05 2010 - 19:28:49 PDT)
Re: [AMBER] ERROR in safe_malloc: Error in alloc of -2030981184 bytes
(Sat Sep 04 2010 - 13:03:00 PDT)
Re: [AMBER] ptraj-problem
(Sat Sep 04 2010 - 05:44:28 PDT)
Re: [AMBER] how to set charge and radius of my own custom ion
(Fri Sep 03 2010 - 20:47:32 PDT)
Re: [AMBER] explicitly set the ig variable for ntt=3
(Fri Sep 03 2010 - 05:01:53 PDT)
Re: [AMBER] Amber10 tests and benchmark verification failures across compilers
(Thu Sep 02 2010 - 05:57:55 PDT)
Re: [AMBER] installation of Ambertools
(Thu Sep 02 2010 - 05:49:57 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 01 2010 - 18:30:42 PDT)
Re: [AMBER] Trivial VMD question
(Wed Sep 01 2010 - 16:33:22 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 01 2010 - 16:29:41 PDT)
Re: [AMBER] Installing Amber9 on Ubuntu platform
(Wed Sep 01 2010 - 05:34:23 PDT)
Jeffrey Sanders
Re: [AMBER] problems compiling amber10
(Tue Sep 21 2010 - 11:57:58 PDT)
[AMBER] problems compiling amber10
(Tue Sep 21 2010 - 09:28:29 PDT)
Jiang Yusheng
Re: [AMBER] Question on simulation
(Wed Sep 29 2010 - 09:43:43 PDT)
Re: [AMBER] Question on simulation
(Wed Sep 29 2010 - 07:07:58 PDT)
[AMBER] Question on simulation
(Tue Sep 28 2010 - 15:14:16 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 14:19:20 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 14:10:27 PDT)
[AMBER] Questions on Minimization
(Fri Sep 10 2010 - 12:21:20 PDT)
Jianyin Shao
Re: [AMBER] 'cluster' option of ptraj: Is it possible to directly feed a file with rmsd values as input?
(Fri Sep 03 2010 - 12:14:22 PDT)
Re: [AMBER] 'cluster' option of ptraj: Is it possible to directly feed a file with rmsd values as input?
(Fri Sep 03 2010 - 10:39:27 PDT)
Re: [AMBER] visualizing the output from PTRAJ -Cluster
(Thu Sep 02 2010 - 16:28:37 PDT)
Re: [AMBER] visualizing the output from PTRAJ -Cluster
(Wed Sep 01 2010 - 15:21:24 PDT)
Joe Bozell
[AMBER] MD on an array of small molecules
(Wed Sep 22 2010 - 11:20:36 PDT)
Jorgen Simonsen
[AMBER] implicit solvent model and charged chain
(Tue Sep 28 2010 - 22:07:12 PDT)
[AMBER] chamber At line 2692 of file _psfprm.f
(Fri Sep 24 2010 - 07:05:57 PDT)
Re: [AMBER] chamber At line 2692 of file _psfprm.f
(Wed Sep 22 2010 - 04:30:40 PDT)
[AMBER] constraint of bond
(Mon Sep 20 2010 - 13:28:28 PDT)
[AMBER] making bond to water molecule
(Sun Sep 19 2010 - 12:20:03 PDT)
[AMBER] chamber At line 2692 of file _psfprm.f
(Mon Sep 13 2010 - 08:00:30 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 07:06:09 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 04:35:26 PDT)
Re: [AMBER] remd coordinate output
(Mon Sep 13 2010 - 04:04:23 PDT)
[AMBER] remd coordinate output
(Mon Sep 13 2010 - 03:19:43 PDT)
[AMBER] cis/trans transition
(Fri Sep 03 2010 - 08:25:50 PDT)
Josmar R. da Rocha
[AMBER] Cieplak work on RESP charges derivation
(Sat Sep 25 2010 - 14:25:56 PDT)
Justine Shaw
[AMBER] Shake errors
(Thu Sep 23 2010 - 09:01:47 PDT)
juzer stationwala
Re: [AMBER] problem with MMPBSA
(Wed Sep 29 2010 - 03:54:00 PDT)
Re: [AMBER] problem with MMPBSA
(Tue Sep 28 2010 - 05:13:53 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:48:54 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:25:31 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 03:55:54 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 03:42:31 PDT)
[AMBER] problem with MMPBSA
(Sun Sep 26 2010 - 07:45:55 PDT)
Kazuo Ohta
[AMBER] AMBER 11 with OpenMPI and Intel Compiler on MacOSX
(Thu Sep 09 2010 - 23:01:21 PDT)
Kevin Hauser
Re: [AMBER] running pmemd fails
(Tue Sep 28 2010 - 09:38:14 PDT)
Re: [AMBER] Cieplak work on RESP charges derivation
(Sat Sep 25 2010 - 15:35:26 PDT)
Re: [AMBER] Questions on Minimization
(Fri Sep 10 2010 - 14:13:03 PDT)
Re: [AMBER] PTRAJ residue naming problem.
(Fri Sep 10 2010 - 11:42:16 PDT)
Khaled Barakat
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 21:41:48 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 20:19:11 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 18:44:08 PDT)
[AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 17:39:53 PDT)
Kirsten Heitmann
Re: [AMBER] TI-Problems
(Thu Sep 30 2010 - 09:52:47 PDT)
[AMBER] TI-Problems
(Thu Sep 30 2010 - 00:14:20 PDT)
Kshatresh Dutta Dubey
Re: [AMBER] unit of Bfactor
(Mon Sep 13 2010 - 23:11:04 PDT)
Re: [AMBER] Symposium on Accelerating Biology
(Thu Sep 02 2010 - 23:50:48 PDT)
kurisaki ikuo
[AMBER] Addition of extra-interaction term to LJ-potential: modification of souce code
(Mon Sep 27 2010 - 00:12:51 PDT)
kyousuke_tsumura.fujifilm.co.jp
[AMBER] MD based on 3D-RISM can be really used in AMBER11?
(Mon Sep 13 2010 - 04:44:46 PDT)
Lachele Foley (Lists)
Re: [AMBER] Minimum Energy Conformational Structures of Saccharides in Solution
(Thu Sep 23 2010 - 15:10:00 PDT)
Re: [AMBER] Restraints for Glycan in REMD
(Thu Sep 09 2010 - 09:09:19 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 16:14:11 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:22:31 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:12:48 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 13:46:49 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 06:35:36 PDT)
Re: [AMBER] GLYCAM residue naming
(Tue Sep 07 2010 - 07:05:59 PDT)
Re: [AMBER] GLYCAM residue naming
(Mon Sep 06 2010 - 09:24:39 PDT)
Re: [AMBER] how we increase the number of sugar molecule in a system
(Thu Sep 02 2010 - 09:27:22 PDT)
Laura Perissinotti
[AMBER] MD for large proteins
(Thu Sep 23 2010 - 08:46:58 PDT)
Lekpa Duukori
Re: [AMBER] 2D radial distribution function
(Tue Sep 21 2010 - 07:39:00 PDT)
Re: [AMBER] 2D radial distribution function
(Tue Sep 21 2010 - 04:08:38 PDT)
[AMBER] 2D radial distribution function
(Tue Sep 21 2010 - 02:36:45 PDT)
Re: [AMBER] changing mdcrd file to XYZ
(Mon Sep 20 2010 - 10:44:03 PDT)
Re: [AMBER] Restraints for Glycan in REMD
(Thu Sep 09 2010 - 09:43:10 PDT)
[AMBER] Restraints for Glycan in REMD
(Thu Sep 09 2010 - 08:24:06 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:22:52 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:14:32 PDT)
Re: [AMBER] Gamma_ln in REMD
(Tue Sep 07 2010 - 07:03:54 PDT)
[AMBER] Gamma_ln in REMD
(Mon Sep 06 2010 - 16:37:19 PDT)
Lidong Wang
[AMBER] mmpbsa problem
(Thu Sep 09 2010 - 09:43:24 PDT)
Liu, Jingyuan
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Wed Sep 22 2010 - 06:56:30 PDT)
[AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 08:39:25 PDT)
[AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 08:34:34 PDT)
[AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 06:42:40 PDT)
Lucio Ferella
[AMBER] GRID-enabled web portal for the use of the AMBER
(Mon Sep 20 2010 - 05:11:27 PDT)
M. L. Dodson
Re: [AMBER] FW: MD on an array of small molecules
(Thu Sep 23 2010 - 07:13:06 PDT)
M. Reza Ganjalikhany
[AMBER] Question about Heating and equilibration protocol?
(Mon Sep 13 2010 - 10:25:36 PDT)
[AMBER] ig value
(Sat Sep 11 2010 - 14:44:32 PDT)
manikanthan bhavaraju
Re: [AMBER] Question about Heating and equilibration protocol?
(Mon Sep 13 2010 - 11:05:48 PDT)
Re: [AMBER] Confirmation of System equilibration ?
(Tue Sep 07 2010 - 21:11:53 PDT)
Mannan
Re: [AMBER] Hbond Analysis
(Fri Sep 03 2010 - 05:20:52 PDT)
[AMBER] Hbond Analysis
(Fri Sep 03 2010 - 02:03:02 PDT)
manoj singh
Re: [AMBER] implicit solvent model and charged chain
(Tue Sep 28 2010 - 22:23:22 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 21:37:01 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 21:32:31 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 19:22:58 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 18:52:59 PDT)
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 18:29:25 PDT)
Re: [AMBER] A question regarding mm_pbsa_statistics.pl
(Mon Sep 20 2010 - 17:42:23 PDT)
Re: [AMBER] mm_pbsa.pl error for per residue decomposition.
(Mon Sep 20 2010 - 11:32:53 PDT)
Re: [AMBER] ambertools1.4 install problem
(Fri Sep 17 2010 - 08:35:49 PDT)
Re: [AMBER] mm_pbsa.pl error for per residue decomposition.
(Tue Sep 14 2010 - 20:12:19 PDT)
Re: [AMBER] mm_pbsa.pl error for per residue decomposition.
(Tue Sep 14 2010 - 19:55:57 PDT)
[AMBER] mm_pbsa.pl error for per residue decomposition.
(Tue Sep 14 2010 - 18:59:28 PDT)
Re: [AMBER] sleap error
(Fri Sep 10 2010 - 13:07:43 PDT)
Re: [AMBER] sleap error
(Fri Sep 10 2010 - 12:55:27 PDT)
[AMBER] sleap error
(Fri Sep 10 2010 - 12:47:57 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 22:19:50 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 15:31:37 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:28:41 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 14:16:56 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 13:51:06 PDT)
Re: [AMBER] GLYCAM residue naming
(Wed Sep 08 2010 - 13:30:50 PDT)
Re: [AMBER] GLYCAM residue naming
(Tue Sep 07 2010 - 15:02:54 PDT)
Re: [AMBER] GLYCAM residue naming
(Tue Sep 07 2010 - 13:51:39 PDT)
Re: [AMBER] GLYCAM residue naming
(Mon Sep 06 2010 - 18:56:00 PDT)
[AMBER] GLYCAM residue naming
(Mon Sep 06 2010 - 09:05:28 PDT)
Marek Maly
Re: [AMBER] list of atomsG4 with amber with associated total forces ?
(Thu Sep 16 2010 - 09:51:34 PDT)
Re: [AMBER] list of atoms with associated total forces ?
(Tue Sep 14 2010 - 14:09:54 PDT)
[AMBER] list of atoms with associated total forces ?
(Tue Sep 14 2010 - 08:32:43 PDT)
Mark Williamson
Re: [AMBER] chamber At line 2692 of file _psfprm.f
(Fri Sep 24 2010 - 07:33:02 PDT)
Re: [AMBER] chamber At line 2692 of file _psfprm.f
(Mon Sep 13 2010 - 08:10:30 PDT)
Re: [AMBER] JAC error reproduced 3 times on GTX 470
(Fri Sep 10 2010 - 08:15:11 PDT)
marta.gomes.fc.up.pt
[AMBER] MM-PBSA analysis on a protein ligand complex with 32000 atoms
(Tue Sep 21 2010 - 08:38:20 PDT)
Martin Brieg
Re: [AMBER] tLeap memory leak
(Thu Sep 30 2010 - 04:48:00 PDT)
[AMBER] tLeap memory leak
(Wed Sep 29 2010 - 06:34:07 PDT)
Matthew Tessier
[AMBER] Varying restraint values on subsets of a restraint mask in sander/pmemd
(Thu Sep 09 2010 - 07:02:48 PDT)
mdkvia.yahoo.com
[AMBER] Clarification: nscm and iwrap
(Sat Sep 18 2010 - 04:36:11 PDT)
Re: [AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 14:01:36 PDT)
Re: [AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 13:05:35 PDT)
[AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 12:10:39 PDT)
MEHMET ALI OZTURK
[AMBER] inconsistency between steered Md and GBSA
(Sat Sep 18 2010 - 12:57:37 PDT)
michael bane
Re: [AMBER] pmemd performance
(Wed Sep 22 2010 - 06:28:30 PDT)
Millen, Andrea
Re: [AMBER] Building a sequence using a new molecular fragment
(Mon Sep 20 2010 - 10:59:17 PDT)
[AMBER] Building a sequence using a new molecular fragment
(Thu Sep 09 2010 - 17:04:06 PDT)
moacyr comar
[AMBER] Create a carbon nanotube.
(Wed Sep 08 2010 - 11:28:18 PDT)
moitrayee.mbu.iisc.ernet.in
[AMBER] rmsd of a subunit I w.r.t subunit II
(Mon Sep 27 2010 - 03:04:54 PDT)
Re: [AMBER] Domainwise rmsd using ptraj rms
(Sun Sep 26 2010 - 04:35:35 PDT)
Re: [AMBER] Domainwise rmsd using ptraj rms
(Wed Sep 15 2010 - 23:20:52 PDT)
[AMBER] Domainwise rmsd using ptraj rms
(Wed Sep 15 2010 - 13:25:54 PDT)
[AMBER] units of eigenvalues from pca
(Tue Sep 14 2010 - 11:43:50 PDT)
monica.imtech.res.in
Re: [AMBER] Query regarding the Hydrogen Bond duration analysis
(Wed Sep 08 2010 - 03:16:35 PDT)
Nadine Utz
[AMBER] ptraj image, overlap of molecules
(Mon Sep 13 2010 - 07:22:57 PDT)
nicholus bhattacharjee
[AMBER] vlimit exceeds
(Wed Sep 29 2010 - 09:48:32 PDT)
[AMBER] Neutralization of the system by Na+ or Cl- ions are needed or not for constant pH MD simulation
(Fri Sep 24 2010 - 05:33:54 PDT)
Nicolas SAPAY
Re: [AMBER] MMPBSA.py: minimization issue with nmode
(Thu Sep 02 2010 - 03:07:30 PDT)
Niel Henriksen
Re: [AMBER] Cluster analysis
(Wed Sep 29 2010 - 18:07:44 PDT)
Oliver Grant
Re: [AMBER] problem with MMPBSA
(Sun Sep 26 2010 - 08:29:01 PDT)
Re: [AMBER] mm_pbsa.pl frozen, hanging, stopped at end.
(Sat Sep 25 2010 - 05:15:51 PDT)
[AMBER] mm_pbsa.pl frozen, hanging, stopped at end.
(Thu Sep 23 2010 - 12:12:05 PDT)
Re: [AMBER] MM_PBSA stopped at the last step
(Thu Sep 23 2010 - 03:30:15 PDT)
Re: [AMBER] MM_PBSA fillratio error/ compiling mm_pbsa.pl
(Tue Sep 21 2010 - 04:39:35 PDT)
[AMBER] MM_PBSA fillratio error/ compiling mm_pbsa.pl
(Tue Sep 21 2010 - 03:07:28 PDT)
P Bhattacharya
Re: [AMBER] Antechamber issue
(Wed Sep 01 2010 - 13:10:09 PDT)
Paul S. Nerenberg
Re: [AMBER] running pmemd fails
(Tue Sep 28 2010 - 10:39:32 PDT)
Re: [AMBER] AMBER RESTART QUESTIONS
(Mon Sep 27 2010 - 11:03:53 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 21:46:02 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 10:54:58 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 09:56:53 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Sat Sep 11 2010 - 16:04:48 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Fri Sep 10 2010 - 17:21:54 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Fri Sep 10 2010 - 17:03:45 PDT)
[AMBER] pmemd 11 (parallel) compilation error
(Fri Sep 10 2010 - 16:27:25 PDT)
Per Jr. Greisen
Re: [AMBER] pmemd installation
(Thu Sep 09 2010 - 02:19:13 PDT)
Pete Kekenes-Huskey
Re: [AMBER] integer divide by zero
(Mon Sep 27 2010 - 07:26:06 PDT)
[AMBER] integer divide by zero
(Sat Sep 25 2010 - 10:24:11 PDT)
Peter Charles Kahuna
Re: [AMBER] Analysis of MD simulation
(Sat Sep 25 2010 - 11:20:37 PDT)
Peter Schmidtke
Re: [AMBER] Average distance between two hydrogens over a 1 ns simulation
(Mon Sep 13 2010 - 04:50:06 PDT)
peter.stauffert.boehringer-ingelheim.com
Re: [AMBER] Compilation problems for amber9/parallel (aka: How to use g77?)
(Wed Sep 08 2010 - 06:52:45 PDT)
Philippe Pinard
[AMBER] 10-12 hbond terms
(Thu Sep 23 2010 - 14:36:35 PDT)
Re: [AMBER] list of atomsG4 with amber with associated total forces ?
(Thu Sep 16 2010 - 08:53:06 PDT)
Preshit Dandekar
Re: [AMBER] Using AMBER force field for ionic compounds
(Fri Sep 17 2010 - 06:45:41 PDT)
Re: [AMBER] Using AMBER force field for ionic compounds
(Thu Sep 16 2010 - 12:07:36 PDT)
pxq
[AMBER] how to calculate the interaction energies
(Mon Sep 20 2010 - 19:30:07 PDT)
[AMBER] on gas phase energies calculation
(Mon Sep 20 2010 - 07:55:38 PDT)
qiaoyan
[AMBER] ibelly doesn't work
(Mon Sep 27 2010 - 19:01:55 PDT)
Rahul Banerjee
[AMBER] Atom selection
(Wed Sep 08 2010 - 19:27:42 PDT)
Raman Parkesh
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 13:57:55 PDT)
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 11:38:14 PDT)
Re: [AMBER] Xplor_to_Amber
(Wed Sep 29 2010 - 06:18:07 PDT)
Re: [AMBER] Xplor_to_Amber
(Fri Sep 24 2010 - 14:56:15 PDT)
rameshwar prajapati
Re: [AMBER] MM_PBSA stopped at the last step
(Sun Sep 26 2010 - 02:24:07 PDT)
Re: [AMBER] ptraj hbond analysis
(Sun Sep 19 2010 - 00:20:54 PDT)
Rasale, Anupama
[AMBER] Amber10 tests and benchmark verification failures across compilers
(Thu Sep 02 2010 - 04:08:41 PDT)
Ray Luo
Re: [AMBER] mm_pbsa.pl frozen, hanging, stopped at end.
(Fri Sep 24 2010 - 16:16:52 PDT)
Re: [AMBER] mm_pbsa fails
(Wed Sep 01 2010 - 14:49:16 PDT)
Re: [AMBER] PB warning in pb_miccg
(Wed Sep 01 2010 - 09:30:43 PDT)
Rebeca García Fandiño
[AMBER] installation of Ambertools
(Thu Sep 02 2010 - 05:14:17 PDT)
Rilei Yu
[AMBER] molecular dynamics simulation-water-box-diffution problem
(Sun Sep 19 2010 - 19:51:29 PDT)
[AMBER] ptraj-problem
(Fri Sep 03 2010 - 18:04:38 PDT)
Robert Konecny
Re: [AMBER] Compaliation of sander.APBS
(Thu Sep 16 2010 - 14:12:39 PDT)
ros
Re: [AMBER] Cluster analysis
(Thu Sep 30 2010 - 07:24:07 PDT)
Re: [AMBER] Cu2+ parameters
(Thu Sep 30 2010 - 05:36:49 PDT)
[AMBER] Cluster analysis
(Wed Sep 29 2010 - 17:48:10 PDT)
Ross Walker
Re: [AMBER] pmemd.cuda error with group restraint
(Thu Sep 30 2010 - 17:35:12 PDT)
Re: [AMBER] chamber At line 2692 of file _psfprm.f
(Fri Sep 24 2010 - 07:33:53 PDT)
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Tue Sep 21 2010 - 22:46:59 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 23:28:40 PDT)
Re: [AMBER] Amber11 compile issue
(Sat Sep 18 2010 - 22:03:14 PDT)
Re: [AMBER] restraints in pmemd.cuda
(Sat Sep 18 2010 - 07:52:35 PDT)
Re: [AMBER] Exactly the same energy output over multiple runs of cuda_SPDP
(Mon Sep 13 2010 - 16:55:28 PDT)
Re: [AMBER] chamber At line 2692 of file _psfprm.f
(Mon Sep 13 2010 - 09:01:23 PDT)
Re: [AMBER] PMEMD with CUDA support for Windows?
(Sun Sep 12 2010 - 12:37:38 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Sat Sep 11 2010 - 10:09:11 PDT)
Re: [AMBER] pmemd 11 (parallel) compilation error
(Fri Sep 10 2010 - 16:46:35 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Thu Sep 09 2010 - 09:16:22 PDT)
Re: [AMBER] JAC test on GTX 470 error produced/run again w/o changes/need help
(Wed Sep 08 2010 - 20:42:12 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 14:02:03 PDT)
Re: [AMBER] mixing GAFF with CHARMM
(Wed Sep 08 2010 - 11:03:23 PDT)
Re: [AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 17:54:10 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's
(Sat Sep 04 2010 - 10:35:51 PDT)
Re: [AMBER] Is there any Amber training programm in Europe?
(Fri Sep 03 2010 - 01:24:44 PDT)
Rossella Noschese
Re: [AMBER] problems with xleap
(Tue Sep 21 2010 - 00:59:34 PDT)
Re: [AMBER] problems with xleap
(Mon Sep 20 2010 - 03:13:12 PDT)
[AMBER] problems with xleap
(Mon Sep 20 2010 - 02:55:42 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 08:37:29 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 07:50:04 PDT)
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 06:06:00 PDT)
[AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 02:48:44 PDT)
Sangita Kachhap
[AMBER] H-bonb calculation
(Tue Sep 28 2010 - 05:58:54 PDT)
Re: [AMBER] amber11 installation error
(Fri Sep 24 2010 - 02:38:17 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 21:03:44 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 10:11:42 PDT)
Re: [AMBER] amber11 installation error
(Thu Sep 23 2010 - 09:50:44 PDT)
[AMBER] amber11 installation error
(Thu Sep 23 2010 - 09:07:02 PDT)
Re: [AMBER] MMPBSA.py installation error
(Sun Sep 12 2010 - 06:39:12 PDT)
[AMBER] MMPBSA.py installation error
(Sun Sep 12 2010 - 03:59:22 PDT)
[AMBER] installation of python script for mm_pbsa
(Thu Sep 09 2010 - 09:17:03 PDT)
[AMBER] NAMD -trajectory and amber10 mm_pbsa
(Tue Sep 07 2010 - 06:44:52 PDT)
Re: [AMBER] mm_pbsa nmode error
(Sat Sep 04 2010 - 05:07:42 PDT)
[AMBER] mm_pbsa nmode error
(Sat Sep 04 2010 - 04:41:33 PDT)
Re: [AMBER] Heating up the sytem
(Fri Sep 03 2010 - 03:36:45 PDT)
Sasha Buzko
Re: [AMBER] Aromatic C and N atom type problems in Antechamber
(Mon Sep 20 2010 - 13:30:16 PDT)
[AMBER] restraints in pmemd.cuda
(Fri Sep 17 2010 - 15:55:15 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 14:17:52 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 13:43:10 PDT)
Re: [AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 18:46:06 PDT)
Re: [AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 14:20:37 PDT)
[AMBER] pmemd.cuda errors on GTX400 series cards - USER POLL
(Sun Sep 05 2010 - 15:47:41 PDT)
Scott Brozell
Re: [AMBER] amber7 vs xleap on 64bit machine
(Wed Sep 08 2010 - 16:49:23 PDT)
Scott Le Grand
Re: [AMBER] restraints in pmemd.cuda
(Fri Sep 17 2010 - 17:11:11 PDT)
Re: [AMBER] Sander/pmemd usage: refc question
(Thu Sep 16 2010 - 13:23:59 PDT)
Re: [AMBER] Exactly the same energy output over multiple runs of cuda_SPDP
(Mon Sep 13 2010 - 18:37:03 PDT)
Re: [AMBER] how to set clock rate? temperature in a C2050 card? hardware replacement?
(Mon Sep 13 2010 - 13:58:36 PDT)
Re: [AMBER] Debug pmemd.cuda
(Mon Sep 13 2010 - 13:10:32 PDT)
Re: [AMBER] Memory test con GTX 470
(Sun Sep 12 2010 - 20:15:11 PDT)
Re: [AMBER] debug run
(Fri Sep 10 2010 - 13:34:42 PDT)
Re: [AMBER] GPU memory test program
(Fri Sep 10 2010 - 11:32:54 PDT)
Re: [AMBER] JAC error reproduced 3 times on GTX 470
(Fri Sep 10 2010 - 08:33:15 PDT)
Re: [AMBER] JAC test on GTX 470 started
(Wed Sep 08 2010 - 15:41:59 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 13:55:06 PDT)
Re: [AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 12:52:13 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's
(Sat Sep 04 2010 - 10:49:26 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's
(Sat Sep 04 2010 - 09:57:11 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's
(Sat Sep 04 2010 - 09:48:30 PDT)
Seibold, Stephen
Re: [AMBER] Blowing array
(Wed Sep 22 2010 - 06:31:24 PDT)
Re: [AMBER] Blowing array
(Tue Sep 21 2010 - 07:41:55 PDT)
[AMBER] Blowing array
(Sun Sep 19 2010 - 16:00:42 PDT)
[AMBER] Blowing array
(Sat Sep 18 2010 - 14:19:20 PDT)
Re: [AMBER] memory allocation problem?
(Sun Sep 12 2010 - 13:23:29 PDT)
[AMBER] memory allocation problem?
(Sun Sep 12 2010 - 09:21:43 PDT)
Senthil Natesan
Re: [AMBER] MMPBSA.py.MPI with MVAPICH2
(Thu Sep 30 2010 - 06:01:37 PDT)
Re: [AMBER] MMPBSA.py.MPI with MVAPICH2
(Wed Sep 29 2010 - 09:31:39 PDT)
[AMBER] MMPBSA.py.MPI with MVAPICH2
(Wed Sep 29 2010 - 08:45:59 PDT)
[AMBER] ptraj clustering for long trajetories
(Fri Sep 17 2010 - 07:51:18 PDT)
Re: [AMBER] Atom selection
(Fri Sep 10 2010 - 06:54:07 PDT)
Re: [AMBER] significance of time-average or representative structures from MD
(Mon Sep 06 2010 - 14:13:18 PDT)
[AMBER] significance of time-average or representative structures from MD
(Sun Sep 05 2010 - 11:01:55 PDT)
Re: [AMBER] Heating up the sytem
(Sat Sep 04 2010 - 07:57:10 PDT)
Re: [AMBER] visualizing the output from PTRAJ -Cluster
(Wed Sep 01 2010 - 16:01:53 PDT)
[AMBER] visualizing the output from PTRAJ -Cluster
(Wed Sep 01 2010 - 14:14:45 PDT)
Sergio R Aragon
Re: [AMBER] GRID-enabled web portal for the use of the AMBER
(Mon Sep 20 2010 - 10:42:30 PDT)
Re: [AMBER] Residues with multiple conformations
(Tue Sep 14 2010 - 08:09:09 PDT)
Re: [AMBER] how to set clock rate? temperature in a C2050 card? hardware replacement?
(Mon Sep 13 2010 - 13:34:11 PDT)
Re: [AMBER] Debug pmemd.cuda
(Mon Sep 13 2010 - 12:29:14 PDT)
Re: [AMBER] Memory test con GTX 470
(Sun Sep 12 2010 - 08:00:54 PDT)
Re: [AMBER] debug run
(Fri Sep 10 2010 - 15:36:35 PDT)
[AMBER] debug run
(Fri Sep 10 2010 - 12:03:20 PDT)
Re: [AMBER] Complex distorts during pressure adjustment in equilibration
(Fri Sep 10 2010 - 10:26:41 PDT)
[AMBER] GPU memory test program
(Fri Sep 10 2010 - 10:17:42 PDT)
[AMBER] JAC error reproduced 3 times on GTX 470
(Thu Sep 09 2010 - 09:20:06 PDT)
Re: [AMBER] JAC test on GTX 470 error produced/run again w/o changes/need help
(Wed Sep 08 2010 - 20:07:25 PDT)
[AMBER] JAC test on GTX 470 error produced
(Wed Sep 08 2010 - 18:17:13 PDT)
[AMBER] JAC test on GTX 470 started
(Wed Sep 08 2010 - 15:22:42 PDT)
[AMBER] problem of GTX470 running pmemd.cuda_DPDP/input file access provided
(Wed Sep 08 2010 - 11:34:51 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's/update 1
(Sun Sep 05 2010 - 21:34:43 PDT)
Re: [AMBER] Nvidia driver bug for GTX400 series gpu's
(Sun Sep 05 2010 - 13:55:01 PDT)
[AMBER] Nvidia driver bug for GTX400 series gpu's
(Fri Sep 03 2010 - 19:35:19 PDT)
shaktis.gbu.ac.in
[AMBER] LD and SGLD runs (Simulations)
(Mon Sep 13 2010 - 18:53:40 PDT)
Shradha Chopra Phd2009,BIC
[AMBER] AmberTools 1.4 installation problem
(Thu Sep 23 2010 - 04:50:02 PDT)
shweta
Re: [AMBER] Phosphate group treatment
(Sun Sep 26 2010 - 21:39:57 PDT)
[AMBER] Phosphate group treatment
(Sun Sep 26 2010 - 01:32:45 PDT)
[AMBER] Confirmation of stabilisation of protein at equilibrium step
(Wed Sep 22 2010 - 01:35:28 PDT)
Siddharth Rastogi
Re: [AMBER] ERROR in MM-PBSA
(Thu Sep 23 2010 - 15:05:25 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Thu Sep 16 2010 - 16:01:19 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Tue Sep 14 2010 - 09:29:58 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 08 2010 - 17:49:44 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Fri Sep 03 2010 - 17:07:38 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Thu Sep 02 2010 - 11:48:21 PDT)
Re: [AMBER] ERROR in MM-PBSA
(Wed Sep 01 2010 - 17:18:44 PDT)
[AMBER] ERROR in MM-PBSA
(Wed Sep 01 2010 - 08:10:33 PDT)
Sidney Elmer
[AMBER] hydrogen-deuterium exchange: iso program or papers that outline methods
(Tue Sep 21 2010 - 09:28:17 PDT)
Simon Becker
[AMBER] loop relaxation with les
(Sun Sep 26 2010 - 07:34:06 PDT)
steinbrt.rci.rutgers.edu
Re: [AMBER] Disulphide bond breakage during minimization
(Tue Sep 28 2010 - 03:55:45 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Mon Sep 27 2010 - 23:53:34 PDT)
Re: [AMBER] Disulphide bond breakage during minimization
(Mon Sep 27 2010 - 23:01:38 PDT)
Re: [AMBER] ibelly doesn't work
(Mon Sep 27 2010 - 21:13:47 PDT)
Re: [AMBER] Analysis of MD simulation
(Sat Sep 25 2010 - 21:39:12 PDT)
Re: [AMBER] Analysis of MD simulation
(Fri Sep 24 2010 - 21:38:38 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Wed Sep 22 2010 - 23:55:33 PDT)
Re: [AMBER] Confirmation of stabilisation of protein at equilibrium step
(Wed Sep 22 2010 - 02:36:26 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 21:47:26 PDT)
Re: [AMBER] How to calculate total potential energy for protein chain only?
(Tue Sep 21 2010 - 21:18:03 PDT)
Re: [AMBER] Trivial VMD question
(Wed Sep 01 2010 - 09:46:14 PDT)
Su Qiu
Re: [AMBER] Problems with Amber 8 PMEMD
(Sun Sep 26 2010 - 18:11:48 PDT)
Re: [AMBER] Problems with Amber 8 PMEMD
(Sat Sep 25 2010 - 18:59:10 PDT)
Re: [AMBER] Problems with Amber 8 PMEMD
(Sat Sep 25 2010 - 01:39:22 PDT)
[AMBER] Problems with Amber 8 PMEMD
(Tue Sep 21 2010 - 00:06:08 PDT)
subrata paul
[AMBER] spc/e water
(Thu Sep 30 2010 - 01:29:16 PDT)
Re: [AMBER] cubic box
(Tue Sep 28 2010 - 06:04:21 PDT)
Re: [AMBER] cubic box
(Tue Sep 28 2010 - 00:17:59 PDT)
[AMBER] cubic box
(Sun Sep 26 2010 - 22:19:35 PDT)
Re: [AMBER] how we increase the number of sugar molecule in a system
(Thu Sep 02 2010 - 05:19:01 PDT)
Sushil Mishra
Re: [AMBER] problem with MMPBSA
(Tue Sep 28 2010 - 05:23:54 PDT)
Re: [AMBER] problem with MMPBSA
(Mon Sep 27 2010 - 04:54:40 PDT)
Re: [AMBER] Minimum Energy Conformational Structures of Saccharides in Solution
(Thu Sep 23 2010 - 21:36:10 PDT)
[AMBER] Minimum Energy Conformational Structures of Saccharides in Solution
(Thu Sep 23 2010 - 03:21:21 PDT)
Re: [AMBER] Water Box Shape
(Mon Sep 06 2010 - 00:07:36 PDT)
Temiz, Nuri (NIH/NCI) [C]
[AMBER] curves question
(Fri Sep 10 2010 - 12:41:24 PDT)
Thomas Cheatham
Re: [AMBER] Running MM-PBSA at different temperatures
(Mon Sep 20 2010 - 19:04:14 PDT)
Re: [AMBER] ERROR in safe_malloc: Error in alloc of -2030981184 bytes
(Sat Sep 04 2010 - 13:51:34 PDT)
Thomas Cheatham III
Re: [AMBER] rmsd of a subunit I w.r.t subunit II
(Wed Sep 29 2010 - 14:33:47 PDT)
Re: [AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Thu Sep 16 2010 - 08:39:41 PDT)
Re: [AMBER] comparison of PDBs from clustering - representative, average and from rst file
(Wed Sep 15 2010 - 15:18:22 PDT)
Re: [AMBER] Complex distorts during pressure adjustment in equilibration
(Fri Sep 10 2010 - 17:21:17 PDT)
Thomas Patko
[AMBER] PMEMD with CUDA support for Windows?
(Sun Sep 12 2010 - 06:35:59 PDT)
tomba.uni-bremen.de
[AMBER] builiding an oxide substrate
(Sun Sep 05 2010 - 15:22:27 PDT)
tong Zhu
[AMBER] Restraint of atom distance during minimization
(Thu Sep 16 2010 - 23:32:06 PDT)
Trevor Gokey
[AMBER] sander gb post-processing fail
(Mon Sep 27 2010 - 14:25:16 PDT)
Re: [AMBER] Creation of a mol2/pdb initial structure file of a pharmaceutical compound.
(Wed Sep 22 2010 - 00:52:58 PDT)
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Wed Sep 22 2010 - 00:31:52 PDT)
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Tue Sep 21 2010 - 22:22:40 PDT)
Re: [AMBER] Error due to ***s in restart file
(Tue Sep 21 2010 - 22:16:31 PDT)
Re: [AMBER] a pdb-trajout problems
(Tue Sep 21 2010 - 22:08:19 PDT)
Re: [AMBER] netCDF support for mmpbsa.py + general question
(Thu Sep 16 2010 - 13:36:58 PDT)
[AMBER] netCDF support for mmpbsa.py + general question
(Thu Sep 16 2010 - 11:12:22 PDT)
Re: [AMBER] Exactly the same energy output over multiple runs of cuda_SPDP
(Mon Sep 13 2010 - 18:26:13 PDT)
[AMBER] Exactly the same energy output over multiple runs of cuda_SPDP
(Mon Sep 13 2010 - 16:33:29 PDT)
Tyler Glembo
[AMBER] Quasiharmonic Analysis
(Mon Sep 06 2010 - 22:55:40 PDT)
vhakkim boy
Re: [AMBER] Symposium on Accelerating Biology
(Thu Sep 02 2010 - 23:48:38 PDT)
Vijay Manickam Achari
Re: [AMBER] running pmemd fails
(Wed Sep 29 2010 - 23:25:55 PDT)
Re: [AMBER] running pmemd fails
(Tue Sep 28 2010 - 20:36:03 PDT)
Re: [AMBER] running pmemd fails
(Tue Sep 28 2010 - 19:37:08 PDT)
[AMBER] running pmemd fails
(Tue Sep 28 2010 - 02:08:26 PDT)
xqkong
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 23:15:10 PDT)
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 03:59:49 PDT)
Re: [AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 03:39:06 PDT)
[AMBER] How to control the speed of heating?
(Sat Sep 11 2010 - 01:59:36 PDT)
xue wang
Re: [AMBER] Minimization terminated without any output
(Mon Sep 20 2010 - 13:31:43 PDT)
[AMBER] Minimization terminated without any output
(Sun Sep 19 2010 - 08:07:48 PDT)
Re: [AMBER] Restrainmask problem
(Sat Sep 18 2010 - 19:19:46 PDT)
Re: [AMBER] Restrainmask problem
(Sat Sep 18 2010 - 19:14:31 PDT)
[AMBER] Restrainmask problem
(Fri Sep 17 2010 - 20:08:54 PDT)
Re: [AMBER] mm_pbsa fails
(Fri Sep 17 2010 - 13:57:49 PDT)
Re: [AMBER] mm_pbsa fails
(Fri Sep 17 2010 - 13:08:43 PDT)
[AMBER] mm_pbsa fails
(Wed Sep 01 2010 - 13:14:11 PDT)
xuemeiwang1103
[AMBER] bonded model
(Thu Sep 30 2010 - 01:51:58 PDT)
Ye MEI
Re: [AMBER] molecular dynamics simulation-water-box-diffution problem
(Sun Sep 19 2010 - 20:02:11 PDT)
Re: [AMBER] AMBER 10 on OPENMPI
(Tue Sep 14 2010 - 03:42:47 PDT)
Yi Shang
Re: [AMBER] Blowing array
(Sun Sep 19 2010 - 18:19:46 PDT)
Yi Xue
Re: [AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 18:28:03 PDT)
Re: [AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 14:44:24 PDT)
[AMBER] problem of GTX480 running pmemd.cuda
(Mon Sep 06 2010 - 08:23:18 PDT)
Yu, Bingwu
[AMBER] AMBER RESTART QUESTIONS
(Mon Sep 27 2010 - 13:54:44 PDT)
[AMBER] AMBER RESTART QUESTIONS
(Mon Sep 27 2010 - 10:41:39 PDT)
zhihong ke
[AMBER] MM_PBSA stopped at the last step
(Wed Sep 22 2010 - 08:40:34 PDT)
宋德寿
[AMBER] PB warning in pb_miccg
(Wed Sep 01 2010 - 18:35:52 PDT)
[AMBER] PB warning in pb_miccg
(Wed Sep 01 2010 - 18:34:17 PDT)
[AMBER] PB warning in pb_miccg
(Tue Aug 31 2010 - 22:32:21 PDT)
[AMBER] PB warning in pb_miccg
(Tue Aug 31 2010 - 22:30:38 PDT)
Last message date
:
Thu Sep 30 2010 - 18:00:03 PDT
Archived on
: Fri Nov 15 2024 - 05:54:12 PST
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