Amber Archive Feb 2008: by author

abiram abiram
- AMBER: Dimension of the solvated box? (Wed Feb 20 2008 - 05:54:08 PST)
Alessandro Nascimento
- Re: AMBER: compiling PMEMD with MKL10.0 (Tue Feb 26 2008 - 03:36:40 PST)
- AMBER: compiling PMEMD with MKL10.0 (Tue Feb 26 2008 - 02:20:47 PST)
Alexander Klenner
- AMBER: parameters of nonbonded potentials (Tue Feb 19 2008 - 02:43:27 PST)
alfredoq.mail.fcq.unc.edu.ar
- AMBER: Problem with energy decomposition in MMPBSA (Tue Feb 05 2008 - 13:32:05 PST)
Amie Demmel
- Re: AMBER: problems with 10-12 potential in amber8 sander (Fri Feb 29 2008 - 08:23:15 PST)
- Re: AMBER: problems with 10-12 potential in amber8 sander (Thu Feb 28 2008 - 14:53:15 PST)
- AMBER: problems with 10-12 potential in amber8 sander (Thu Feb 28 2008 - 12:59:27 PST)
Anamika Awasthi
- AMBER: initial command? (Wed Feb 27 2008 - 04:01:51 PST)
- AMBER: XLEaP (Thu Feb 21 2008 - 01:36:20 PST)
Andreas Svrcek-Seiler
- Re: AMBER: using NAB to calculate normal modes (Fri Feb 15 2008 - 14:23:30 PST)
Andrew Borgert
- AMBER: varying restraint_wt with nmropt=1 (Wed Feb 27 2008 - 12:18:28 PST)
Andrey Semichaevsky
- Re: AMBER: Re: Force field parameter file for CNT (Fri Feb 29 2008 - 08:38:39 PST)
- AMBER: Re: Amber Force field for CNT: leaprc.ff23 (Fri Feb 29 2008 - 07:35:16 PST)
- AMBER: Re: Force field parameter file for CNT (Thu Feb 28 2008 - 13:34:01 PST)
- AMBER: Amber compilation with ifort (Wed Feb 06 2008 - 13:23:26 PST)
aneesh cna
- AMBER: problem with antechamber (Wed Feb 27 2008 - 21:55:53 PST)
- AMBER: dihedral energy in amber (Sat Feb 23 2008 - 02:32:08 PST)
Arturas Ziemys
- Re: AMBER: silica slab (Tue Feb 05 2008 - 10:35:03 PST)
- AMBER: silica slab (Tue Feb 05 2008 - 09:28:55 PST)
- AMBER: silica slab / FF (Fri Feb 01 2008 - 13:42:13 PST)
Atro Tossavainen
- Re: AMBER: AMBER 8 problems on RHEL4/Opteron/PGF 7.0-7 (Wed Feb 13 2008 - 23:02:22 PST)
- Re: AMBER: AMBER 8 problems on RHEL4/Opteron/PGF 7.0-7 (Wed Feb 13 2008 - 12:49:57 PST)
- Re: AMBER: AMBER 8 problems on RHEL4/Opteron/PGF 7.0-7 (Wed Feb 13 2008 - 12:27:29 PST)
- AMBER: AMBER 8 problems on RHEL4/Opteron/PGF 7.0-7 (Wed Feb 13 2008 - 05:31:54 PST)
- Re: AMBER: Amber compilation with ifort (Wed Feb 06 2008 - 23:45:09 PST)
Badry Bursulaya
- AMBER: mm_pbsa problem (Mon Feb 11 2008 - 14:45:29 PST)
Bill Ross
- Re: AMBER: Lennard-Jones parameters (Thu Feb 28 2008 - 12:07:31 PST)
- Re: AMBER: Lennard-Jones parameters (Wed Feb 27 2008 - 16:09:10 PST)
- RE: AMBER: initial command? (Wed Feb 27 2008 - 10:56:20 PST)
- Re: AMBER: Deleting solute from box (Thu Feb 07 2008 - 13:37:27 PST)
- Re: AMBER: Amber 8 Equivalent of the Amber 5 - Edit program (Wed Feb 06 2008 - 16:18:38 PST)
Campbell, Patrick
- RE: AMBER: Input file for Minimization (Tue Feb 12 2008 - 09:43:34 PST)
- AMBER: Input file for Minimization (Sat Feb 09 2008 - 13:18:51 PST)
Carlos Simmerling
- Re: AMBER: problems with Replica Exchange (Fri Feb 29 2008 - 10:33:59 PST)
- Re: AMBER: Plea for REMD tutorial (Fri Feb 29 2008 - 09:47:47 PST)
- Re: AMBER: problems with Replica Exchange (Thu Feb 28 2008 - 08:14:14 PST)
- Re: AMBER: Plea for REMD tutorial (Thu Feb 28 2008 - 06:08:26 PST)
- Re: AMBER: problems with Replica Exchange (Thu Feb 28 2008 - 04:46:57 PST)
- Re: AMBER: change in secondary structure during MD (Thu Feb 28 2008 - 04:15:58 PST)
- Re: AMBER: initial command? (Wed Feb 27 2008 - 04:10:01 PST)
- Re: AMBER: More on tweaking a topology file (Sat Feb 23 2008 - 04:08:30 PST)
- Re: AMBER: Input file for Minimization (Tue Feb 12 2008 - 09:55:18 PST)
- Re: AMBER: leaprc help (Mon Feb 11 2008 - 09:56:38 PST)
- Re: AMBER: Input file for Minimization (Mon Feb 11 2008 - 09:06:42 PST)
chen
- Re: AMBER: Error while compiling Amber (Sat Feb 09 2008 - 16:00:09 PST)
Christopher Illingworth
- Re: AMBER: Generating RESP charges (Tue Feb 19 2008 - 08:11:21 PST)
- AMBER: Generating RESP charges (Tue Feb 19 2008 - 03:39:22 PST)
Daniel Cappel
- Re: AMBER: varying restraint_wt with nmropt=1 (Wed Feb 27 2008 - 23:50:02 PST)
David A. Case
- Re: AMBER: for NMR refinement (Fri Feb 29 2008 - 10:53:59 PST)
- Re: AMBER: Re: Force field parameter file for CNT (Fri Feb 29 2008 - 08:19:47 PST)
- Re: AMBER: problems with 10-12 potential in amber8 sander (Thu Feb 28 2008 - 15:47:10 PST)
- Re: AMBER: problems with 10-12 potential in amber8 sander (Thu Feb 28 2008 - 14:27:47 PST)
- Re: AMBER: DFTB/SCC-DFTB (Wed Feb 27 2008 - 22:15:48 PST)
- Re: AMBER: Lennard-Jones parameters (Wed Feb 27 2008 - 14:16:34 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 10:25:02 PST)
- Re: AMBER: Using restart files (Tue Feb 26 2008 - 16:45:34 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 16:41:26 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Tue Feb 26 2008 - 13:34:07 PST)
- Re: AMBER: mol2 save (Tue Feb 26 2008 - 09:51:19 PST)
- Re: AMBER: Force fields (Tue Feb 26 2008 - 09:31:19 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 09:16:46 PST)
- Re: AMBER: dihedral energy in amber (Sat Feb 23 2008 - 08:37:09 PST)
- Re: AMBER: Question: tweaking topology files to add SHAKE-constrained bonds (Fri Feb 22 2008 - 09:14:59 PST)
- Re: AMBER: NAB to calcuate entropy. . (Thu Feb 21 2008 - 12:26:06 PST)
- Re: AMBER: simulated annealing (Thu Feb 21 2008 - 12:04:26 PST)
- Re: AMBER: NAB to calcuate entropy. . (Thu Feb 21 2008 - 09:10:36 PST)
- Re: AMBER: NAB to calcuate entropy. . (Thu Feb 21 2008 - 09:10:16 PST)
- Re: AMBER: XLEaP (Thu Feb 21 2008 - 08:45:08 PST)
- Re: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 15:18:32 PST)
- Re: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 15:16:14 PST)
- Re: AMBER: NAB to calcuate entropy (Wed Feb 20 2008 - 13:36:15 PST)
- Re: AMBER: Dimension of the solvated box? (Wed Feb 20 2008 - 08:31:36 PST)
- Re: AMBER: NAB to calcuate entropy (Tue Feb 19 2008 - 17:33:59 PST)
- Re: AMBER: united atom force field: antechamber (Tue Feb 19 2008 - 15:33:32 PST)
- Re: AMBER: parameters of nonbonded potentials (Tue Feb 19 2008 - 08:05:07 PST)
- Re: AMBER: TERs (Mon Feb 18 2008 - 08:49:55 PST)
- Re: AMBER: setting perioding box in AMBER (Sun Feb 17 2008 - 18:14:31 PST)
- Re: AMBER: setbox for solvateoct model (Fri Feb 15 2008 - 18:52:14 PST)
- Re: AMBER: Is boiling point a good way to validate solvent paramters? (Fri Feb 15 2008 - 18:49:12 PST)
- Re: AMBER: using NAB to calculate normal modes. . (Fri Feb 15 2008 - 15:54:46 PST)
- Re: AMBER: using NAB to calculate normal modes (Fri Feb 15 2008 - 14:17:23 PST)
- AMBER: problem with ambmask (Fri Feb 15 2008 - 10:07:54 PST)
- Re: AMBER: ambmask problem (Fri Feb 15 2008 - 09:32:46 PST)
- Re: AMBER: sander error on Make test.serial (Wed Feb 13 2008 - 21:57:32 PST)
- Re: AMBER: xmgr graphics display program (Wed Feb 13 2008 - 21:46:40 PST)
- Re: AMBER: Is boiling point a good way to validate solvent paramters? (Wed Feb 13 2008 - 12:34:01 PST)
- Re: AMBER: RDCs in AMBER 10 (Tue Feb 12 2008 - 15:56:52 PST)
- Re: AMBER: PKa calculation (Tue Feb 12 2008 - 09:15:55 PST)
- Re: AMBER: Which install compiler and flags? (Fri Feb 08 2008 - 09:04:55 PST)
- Re: AMBER: Error while compiling Amber (Thu Feb 07 2008 - 17:42:31 PST)
- Re: AMBER: Amber compilation with ifort (Wed Feb 06 2008 - 13:47:20 PST)
- Re: AMBER: using NAB to calculate entropy. . (Wed Feb 06 2008 - 13:37:40 PST)
- Re: AMBER: using NAB to calculate entropy (Wed Feb 06 2008 - 12:21:28 PST)
- Re: AMBER: Binary restart file !! (Wed Feb 06 2008 - 08:35:42 PST)
- Re: AMBER: Query related to implicit solvent EXTDIEL (Wed Feb 06 2008 - 08:31:08 PST)
- Re: AMBER: silica slab (Tue Feb 05 2008 - 10:00:33 PST)
- AMBER: infinite polymers in CHARMM (Tue Feb 05 2008 - 08:39:45 PST)
- Re: AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 17:55:47 PST)
- Re: AMBER: VLIMIT units; TGTFITMASK (Mon Feb 04 2008 - 15:18:39 PST)
- Re: AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 13:46:00 PST)
- Re: AMBER: twin cut-off radii (Mon Feb 04 2008 - 08:09:51 PST)
David Beveridge
- AMBER: matrix correl (Sat Feb 16 2008 - 01:09:29 PST)
David Cerutti
- AMBER: More on tweaking a topology file (Fri Feb 22 2008 - 19:15:40 PST)
- AMBER: Question: tweaking topology files to add SHAKE-constrained bonds (Thu Feb 21 2008 - 21:37:28 PST)
- Re: AMBER: Problem:neturalization (Wed Feb 06 2008 - 23:42:39 PST)
- AMBER: A new program for doing RESP (Wed Feb 06 2008 - 22:56:04 PST)
David LeBard
- Re: AMBER: AMBER parameters for Chlorophyll (Sat Feb 16 2008 - 09:25:51 PST)
Denzil Bernard
- AMBER: charge derivation for modified amino acids (Tue Feb 26 2008 - 17:14:44 PST)
Douglas Kojetin
- Re: AMBER: RDCs in AMBER 10 (Tue Feb 12 2008 - 17:01:30 PST)
- AMBER: RDCs in AMBER 10 (Tue Feb 12 2008 - 15:39:37 PST)
Eddie Mende
- AMBER: DFTB/SCC-DFTB (Wed Feb 27 2008 - 11:21:42 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 14:55:20 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 12:49:04 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 13:04:02 PST)
- AMBER: bond breaking in proteins (Tue Feb 26 2008 - 15:40:03 PST)
- AMBER: bond breaking in proteins (Tue Feb 26 2008 - 14:41:22 PST)
- AMBER: bond breaking in proteins (Tue Feb 26 2008 - 08:16:21 PST)
- Re: AMBER: (no subject) (Thu Feb 21 2008 - 22:33:07 PST)
- Re: AMBER: (no subject) (Thu Feb 21 2008 - 22:31:01 PST)
- AMBER: PB Bomb in pb_atmlist(): maxnba too short (Fri Feb 08 2008 - 05:22:07 PST)
- Re: AMBER: Entropy calculations using NMODE (Sat Feb 02 2008 - 05:17:06 PST)
Evan Kelly
- AMBER: "Assuming uniform neutralizing plasma" (Tue Feb 26 2008 - 18:01:52 PST)
- Re: AMBER: sander error on Make test.serial (Thu Feb 14 2008 - 10:36:25 PST)
- Re: AMBER: sander error on Make test.serial (Wed Feb 13 2008 - 13:03:58 PST)
- AMBER: sander error on Make test.serial (Wed Feb 13 2008 - 12:26:25 PST)
fatima.chami.durham.ac.uk
- AMBER: united atom force field: antechamber (Tue Feb 19 2008 - 13:59:42 PST)
- AMBER: time autocorrelation: ?? (Mon Feb 04 2008 - 10:05:47 PST)
Fenghui Fan
- RE: AMBER: change in secondary structure during MD (Thu Feb 28 2008 - 14:48:53 PST)
- AMBER: Molecular dynamics simulation of large-scale domainmovement in a protein (Thu Feb 28 2008 - 06:38:23 PST)
Francesco Pietra
- Re: AMBER: Amber: shared memory vs cluster (Wed Feb 27 2008 - 13:00:32 PST)
- AMBER: Amber: shared memory vs cluster (Wed Feb 27 2008 - 10:08:19 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 10:14:56 PST)
- Re: AMBER: compiling PMEMD with MKL10.0 (Tue Feb 26 2008 - 03:00:32 PST)
FyD
- Re: AMBER: charge derivation for modified amino acids (Tue Feb 26 2008 - 22:35:10 PST)
- Re: AMBER: mol2 save (Tue Feb 26 2008 - 09:38:40 PST)
- RE: AMBER: Is boiling point a good way to validate solvent paramters? (Fri Feb 15 2008 - 23:31:14 PST)
Gustavo Seabra
- Re: AMBER: bond breaking in proteins (Wed Feb 27 2008 - 08:09:58 PST)
- Re: AMBER: bond breaking in proteins (Tue Feb 26 2008 - 11:58:22 PST)
- Re: AMBER: compiling PMEMD with MKL10.0 (Tue Feb 26 2008 - 11:46:24 PST)
- Re: AMBER: problem bull linux compiling (Tue Feb 26 2008 - 09:18:27 PST)
- Re: AMBER: problem bull linux compiling (Fri Feb 22 2008 - 07:56:25 PST)
- Re: AMBER: mpd error in submitting parallel job (Thu Feb 14 2008 - 11:45:47 PST)
- Re: AMBER: xmgr graphics display program (Wed Feb 13 2008 - 18:29:26 PST)
Henar Martínez
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 10:30:33 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 10:28:13 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 03:14:58 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 02:58:09 PST)
- AMBER: autodock pdb to obtain parm with tleap (Tue Feb 26 2008 - 09:23:43 PST)
Holger Gohlke
- Re: AMBER: matrix correl (Mon Feb 18 2008 - 04:56:07 PST)
Holly Freedman
- Re: AMBER: simulated annealing (Thu Feb 21 2008 - 12:52:42 PST)
- AMBER: simulated annealing (Thu Feb 21 2008 - 11:31:48 PST)
Hopkins, Robert
- RE: AMBER: problem with ambmask (Mon Feb 18 2008 - 13:57:07 PST)
- Re: AMBER: xmgr graphics display program (Sun Feb 17 2008 - 12:38:41 PST)
- AMBER: xmgr graphics display program (Wed Feb 13 2008 - 18:02:23 PST)
- AMBER: ambmask problem (Wed Feb 13 2008 - 16:42:53 PST)
- RE: AMBER: VLIMIT units; TGTFITMASK (Tue Feb 05 2008 - 07:08:07 PST)
- AMBER: VLIMIT units; TGTFITMASK (Mon Feb 04 2008 - 14:55:03 PST)
Ibrahim Moustafa
- RE: AMBER: change in secondary structure during MD (Thu Feb 28 2008 - 14:12:49 PST)
- AMBER: change in secondary structure during MD (Wed Feb 27 2008 - 17:45:21 PST)
- RE: AMBER: (no subject) (Fri Feb 22 2008 - 08:29:59 PST)
- RE: AMBER: matrix correl (Wed Feb 20 2008 - 10:19:31 PST)
- RE: AMBER: matrix correl (Wed Feb 20 2008 - 09:22:53 PST)
Ignacio J. General
- AMBER: hbonds in first solvation shells (Fri Feb 01 2008 - 11:02:30 PST)
Jack Lei
- Re: AMBER: Error while compiling Amber (Thu Feb 14 2008 - 04:50:57 PST)
jani sahil
- AMBER: Regarding:PME and neturalization (Tue Feb 19 2008 - 21:12:45 PST)
- AMBER: Problem:neturalization (Wed Feb 06 2008 - 21:03:35 PST)
Junmei Wang
- Re: AMBER: problem with antechamber (Thu Feb 28 2008 - 07:06:31 PST)
- Re: AMBER: autodock pdb to obtain parm with tleap (Wed Feb 27 2008 - 09:42:52 PST)
- Re: AMBER: saveAmberPrep in internal coordinates (Wed Feb 20 2008 - 09:43:31 PST)
- Re: AMBER: Generating RESP charges (Tue Feb 19 2008 - 11:22:59 PST)
- Re: AMBER: Generating RESP charges (Tue Feb 19 2008 - 10:04:44 PST)
- Re: AMBER: Generating RESP charges (Tue Feb 19 2008 - 07:05:39 PST)
- Re: AMBER: Error while compiling Amber (Fri Feb 15 2008 - 09:16:47 PST)
- Re: AMBER: Error while compiling Amber (Thu Feb 14 2008 - 13:13:30 PST)
- Re: AMBER: xmgr graphics display program (Thu Feb 14 2008 - 12:04:16 PST)
- Re: AMBER: Using antechamber without AMBER program (Fri Feb 08 2008 - 07:10:27 PST)
kanazta1.yahoo.co.jp
- AMBER: Re: bad atom type f(fluorine) in MM-PBSA (Mon Feb 04 2008 - 09:32:51 PST)
Kevin Davies
- Re: AMBER: Deleting solute from box (Thu Feb 07 2008 - 14:21:22 PST)
- AMBER: Deleting solute from box (Thu Feb 07 2008 - 12:45:48 PST)
Klenner.bioinformatik.uni-frankfurt.de
- Re: AMBER: Lennard-Jones parameters (Wed Feb 27 2008 - 14:11:50 PST)
Lars Skjærven
- Re: AMBER: matrix correl (Wed Feb 20 2008 - 09:35:30 PST)
- Re: AMBER: Regarding:PME and neturalization (Wed Feb 20 2008 - 00:39:59 PST)
Lili Peng
- AMBER: Using restart files (Tue Feb 26 2008 - 15:36:50 PST)
- Re: AMBER: Error while compiling Amber (Thu Feb 14 2008 - 14:24:02 PST)
- Re: AMBER: Error while compiling Amber (Thu Feb 14 2008 - 09:41:18 PST)
- Re: AMBER: Error while compiling Amber (Thu Feb 14 2008 - 01:09:22 PST)
- AMBER: mpd error in submitting parallel job (Thu Feb 14 2008 - 01:11:25 PST)
- Re: AMBER: Error while compiling Amber (Sat Feb 09 2008 - 11:11:39 PST)
- Re: AMBER: Error while compiling Amber (Fri Feb 08 2008 - 17:51:55 PST)
- AMBER: Error while compiling Amber (Thu Feb 07 2008 - 17:14:42 PST)
Lynn F. Ten Eyck
- Re: AMBER: problems with 10-12 potential in amber8 sander (Thu Feb 28 2008 - 14:54:47 PST)
- AMBER: Antechamber/mopac query (Fri Feb 08 2008 - 17:15:12 PST)
M. L. Dodson
- Re: AMBER: Generating RESP charges (Tue Feb 19 2008 - 10:38:22 PST)
Marc Lindner
- AMBER: mm_pbsa: vertex atom mismatch (Tue Feb 05 2008 - 02:47:23 PST)
Marcin Krol
- Re: AMBER: disulfide bridge with ff03ua FF (Wed Feb 13 2008 - 07:32:18 PST)
- Re: AMBER: disulfide bridge with ff03ua FF (Mon Feb 11 2008 - 07:01:30 PST)
- Re: AMBER: disulfide bridge with ff03ua FF (Fri Feb 08 2008 - 09:00:25 PST)
- AMBER: disulfide bridge with ff03ua FF (Thu Feb 07 2008 - 06:50:16 PST)
Marco A. Lopez
- RE: AMBER: principal component analysis (Mon Feb 04 2008 - 11:22:36 PST)
Mark Williamson
- Re: AMBER: Amber compilation with ifort (Wed Feb 06 2008 - 14:24:16 PST)
- Re: AMBER: principal component analysis (Mon Feb 04 2008 - 04:55:47 PST)
mathew k varghese
- Re: AMBER: AMBER parameters for Chlorophyll (Sat Feb 16 2008 - 06:09:30 PST)
Mike Wykes
- AMBER: Non aqueous implicit solvation (Fri Feb 29 2008 - 10:56:01 PST)
- RE: AMBER: Is boiling point a good way to validate solvent paramters? (Fri Feb 15 2008 - 07:27:35 PST)
- AMBER: Is boiling point a good way to validate solvent paramters? (Wed Feb 13 2008 - 06:08:25 PST)
Mohd Farid Ismail
- AMBER: Amber 8 Equivalent of the Amber 5 - Edit program (Wed Feb 06 2008 - 14:07:55 PST)
Neil Bruce
- AMBER: Non-polar Parameters For MM_PBSA Calculation (Tue Feb 12 2008 - 03:54:02 PST)
oguz gurbulak
- AMBER: Force fields (Tue Feb 26 2008 - 08:12:48 PST)
raja pandian
- Re: AMBER: disulfide bridge with ff03ua FF (Fri Feb 08 2008 - 20:17:48 PST)
- Re: AMBER: disulfide bridge with ff03ua FF (Fri Feb 08 2008 - 08:17:50 PST)
rams rams
- Re: AMBER: WARNING in readAmberTrajectory(): fsetpos() failed on when looking for box coordinates! (Sun Feb 10 2008 - 21:32:01 PST)
- AMBER: WARNING in readAmberTrajectory(): fsetpos() failed on when looking for box coordinates! (Thu Feb 07 2008 - 21:36:15 PST)
- AMBER: segmentation fault while generating the covariance matrix (Tue Feb 05 2008 - 21:12:29 PST)
- Re: AMBER: principal component analysis (Mon Feb 04 2008 - 07:45:17 PST)
- AMBER: principal component analysis (Mon Feb 04 2008 - 04:26:31 PST)
Ray Luo
- Re: AMBER: disulfide bridge with ff03ua FF (Tue Feb 12 2008 - 14:52:37 PST)
rebeca.mmb.pcb.ub.es
- Re: AMBER: problems with Replica Exchange (Thu Feb 28 2008 - 07:16:27 PST)
- AMBER: problems with Replica Exchange (Thu Feb 28 2008 - 04:29:23 PST)
Reena .....
- Re: AMBER: leaprc help (Mon Feb 11 2008 - 20:19:22 PST)
Rita Cassia
- AMBER: Liquid/Gas Phase (Thu Feb 28 2008 - 08:34:00 PST)
rluo.uci.edu
- RE: AMBER: Non-polar Parameters For MM_PBSA Calculation (Tue Feb 12 2008 - 15:23:40 PST)
Robert Duke
- Re: AMBER: Amber: shared memory vs cluster (Wed Feb 27 2008 - 13:20:56 PST)
- Re: AMBER: Amber: shared memory vs cluster (Wed Feb 27 2008 - 10:37:31 PST)
- Re: AMBER: compiling PMEMD with MKL10.0 (Tue Feb 26 2008 - 05:22:04 PST)
- Re: AMBER: twin cut-off radii (Mon Feb 04 2008 - 08:55:06 PST)
Ross Walker
- RE: AMBER: mpd error in submitting parallel job (Thu Feb 14 2008 - 20:11:23 PST)
- RE: AMBER: AMBER 8 problems on RHEL4/Opteron/PGF 7.0-7 (Wed Feb 13 2008 - 07:20:07 PST)
- RE: AMBER: (no subject) (Wed Feb 13 2008 - 07:21:52 PST)
- RE: AMBER: Input file for Minimization (Sun Feb 10 2008 - 10:55:34 PST)
- RE: AMBER: Error while compiling Amber (Sat Feb 09 2008 - 11:40:41 PST)
- RE: AMBER: Error while compiling Amber (Sat Feb 09 2008 - 09:58:59 PST)
- RE: AMBER: PB Bomb in pb_atmlist(): maxnba too short (Fri Feb 08 2008 - 08:53:56 PST)
- RE: AMBER: Which install compiler and flags? (Fri Feb 08 2008 - 08:52:24 PST)
- RE: AMBER: WARNING in readAmberTrajectory(): fsetpos() failed on when looking for box coordinates! (Fri Feb 08 2008 - 08:40:25 PST)
- RE: AMBER: QMMM with printcharges (Thu Feb 07 2008 - 14:12:17 PST)
- RE: AMBER: Amber 8 Equivalent of the Amber 5 - Edit program (Wed Feb 06 2008 - 16:35:33 PST)
- RE: AMBER: Amber compilation with ifort (Wed Feb 06 2008 - 14:06:20 PST)
- RE: AMBER: Amber 9 installation (Mon Feb 04 2008 - 14:21:41 PST)
S.Sundar Raman
- AMBER: Query related to implicit solvent EXTDIEL (Wed Feb 06 2008 - 04:03:02 PST)
Sam Kaye
- AMBER: Which install compiler and flags? (Fri Feb 08 2008 - 02:07:15 PST)
Sampath Koppole
- Re: AMBER: Binary restart file !! (Wed Feb 06 2008 - 09:01:43 PST)
- AMBER: Binary restart file !! (Wed Feb 06 2008 - 06:41:03 PST)
Sandeep Kaushik
- AMBER: twin cut-off radii (Mon Feb 04 2008 - 01:17:57 PST)
saurabh agrawal
- Re: AMBER: Entropy calculations using NMODE (Sat Feb 02 2008 - 05:50:13 PST)
- AMBER: Entropy calculations using NMODE (Fri Feb 01 2008 - 23:18:24 PST)
Scott Brozell
- Re: AMBER: parameters for silicon atom (Fri Feb 29 2008 - 00:31:03 PST)
- Re: AMBER: parameters for silicon atom (Mon Feb 25 2008 - 18:24:03 PST)
- Re: AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 13:32:11 PST)
Servaas Michielssens
- Re: AMBER: gaff paramters (Fri Feb 22 2008 - 23:06:54 PST)
- Re: AMBER: gaff paramters (Fri Feb 22 2008 - 13:15:23 PST)
- AMBER: gaff paramters (Fri Feb 22 2008 - 09:38:53 PST)
snoze pa
- AMBER: mol2 save (Tue Feb 26 2008 - 09:09:18 PST)
- Re: AMBER: leaprc help (Mon Feb 11 2008 - 13:08:14 PST)
- AMBER: leaprc help (Mon Feb 11 2008 - 09:50:30 PST)
Sreeja Parameswaran
- Re: AMBER: AMBER parameters for Chlorophyll (Sat Feb 16 2008 - 06:45:32 PST)
- AMBER: AMBER parameters for Chlorophyll (Wed Feb 13 2008 - 17:31:05 PST)
Steve Seibold
- RE: AMBER: TERs (Mon Feb 18 2008 - 09:51:51 PST)
- AMBER: TERs (Mon Feb 18 2008 - 05:19:39 PST)
Steve Spronk
- RE: AMBER: initial command? (Fri Feb 29 2008 - 06:17:38 PST)
- RE: AMBER: initial command? (Wed Feb 27 2008 - 10:45:43 PST)
- RE: AMBER: silica slab (Wed Feb 06 2008 - 11:01:22 PST)
Steven Winfield
- Re: AMBER: mol2 save (Tue Feb 26 2008 - 09:13:23 PST)
- Re: AMBER: silica slab (Wed Feb 06 2008 - 15:48:59 PST)
Sudha Mani Karra
- AMBER: Distance restraints between com of two groups of residues (Thu Feb 14 2008 - 14:20:26 PST)
Surasak Chunsrivirot
- Re: AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 16:38:07 PST)
- Re: AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 16:22:38 PST)
- AMBER: Using antechamber without AMBER program (Mon Feb 04 2008 - 12:58:59 PST)
Swarup Gupta
- AMBER: stops writing trajectory (Wed Feb 27 2008 - 01:55:10 PST)
Syed Tarique Moin
- AMBER: (no subject) (Thu Feb 21 2008 - 22:10:36 PST)
- RE: AMBER: (no subject) (Wed Feb 13 2008 - 20:58:56 PST)
- AMBER: (no subject) (Wed Feb 13 2008 - 02:55:02 PST)
- Fwd: AMBER: (no subject) (Wed Feb 06 2008 - 00:00:23 PST)
- AMBER: (no subject) (Mon Feb 04 2008 - 06:07:26 PST)
Taufik Al-Sarraj
- AMBER: Amber 9 installation (Tue Feb 05 2008 - 07:14:56 PST)
- AMBER: Amber 9 installation (Mon Feb 04 2008 - 13:53:23 PST)
Thomas Cheatham
- Re: AMBER: "Assuming uniform neutralizing plasma" (Tue Feb 26 2008 - 19:31:39 PST)
- Re: AMBER: TERs (Mon Feb 18 2008 - 09:18:36 PST)
tushar garud
- AMBER: Plea for REMD tutorial (Fri Feb 29 2008 - 06:57:41 PST)
- AMBER: Plea for REMD tutorial (Thu Feb 28 2008 - 05:56:42 PST)
Vidana.Epa.csiro.au
- AMBER: re MD simulations of NMR structures: minimized average structure vs. ensemble member (Tue Feb 05 2008 - 22:08:19 PST)
Vijay Manickam Achari
- AMBER: Visualizing Periodc box (Thu Feb 28 2008 - 23:50:13 PST)
- AMBER: is that possible fix box size in constant pressure MD (Tue Feb 19 2008 - 21:39:46 PST)
- Re: AMBER: setting perioding box in AMBER (Mon Feb 18 2008 - 22:00:06 PST)
- AMBER: setting perioding box in AMBER (Sun Feb 17 2008 - 17:47:17 PST)
Vlad Cojocaru
- AMBER: print distance between atoms during simulation within sander itsself (Fri Feb 15 2008 - 06:06:24 PST)
Wang, Xuelin
- RE: AMBER: NAB to calcuate entropy. . (Thu Feb 21 2008 - 12:00:31 PST)
- RE: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 16:14:01 PST)
- RE: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 14:22:16 PST)
- RE: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 13:21:15 PST)
- AMBER: NAB to calcuate entropy (Tue Feb 19 2008 - 15:58:15 PST)
- RE: AMBER: using NAB to calculate normal modes. . (Fri Feb 15 2008 - 14:29:55 PST)
- AMBER: setbox for solvateoct model (Fri Feb 15 2008 - 07:22:07 PST)
- AMBER: PKa calculation (Tue Feb 12 2008 - 08:45:16 PST)
- RE: AMBER: using NAB to calculate entropy. . (Wed Feb 06 2008 - 13:00:46 PST)
- AMBER: using NAB to calculate entropy (Wed Feb 06 2008 - 09:52:06 PST)
Wenyong Tong
- AMBER: for NMR refinement (Thu Feb 28 2008 - 18:20:08 PST)
Xu, Huafeng
- AMBER: saveAmberPrep in internal coordinates (Wed Feb 20 2008 - 09:02:00 PST)
Yannick Monclin
- Re: AMBER: problem bull linux compiling (Mon Feb 25 2008 - 05:16:06 PST)
- AMBER: problem bull linux compiling (Fri Feb 22 2008 - 03:22:49 PST)
Yi-Ming Cheng
- Fwd: Re: AMBER: Problem with "trajout pdb" (Sat Feb 23 2008 - 02:21:29 PST)
- Re: AMBER: Problem with "trajout pdb" (Sat Feb 23 2008 - 02:15:29 PST)
- Re: AMBER: Problem with "trajout pdb" (Sat Feb 23 2008 - 01:36:24 PST)
- AMBER: Problem with "trajout pdb" (Wed Feb 20 2008 - 08:53:32 PST)
Yong Duan
- RE: AMBER: change in secondary structure during MD (Wed Feb 27 2008 - 18:13:11 PST)
Yu Chen
- Re: AMBER: Amber 9 installation (Mon Feb 04 2008 - 14:10:37 PST)
Z. Nevin Gerek
- Re: AMBER: NAB to calcuate entropy. . (Wed Feb 20 2008 - 13:34:33 PST)
- Re: AMBER: NAB to calcuate entropy (Wed Feb 20 2008 - 12:38:28 PST)
- AMBER: using NAB to calculate normal modes (Fri Feb 15 2008 - 12:24:50 PST)
Zhan Chen
- Re: AMBER: Lennard-Jones parameters (Wed Feb 27 2008 - 18:59:26 PST)
- AMBER: Lennard-Jones parameters (Wed Feb 27 2008 - 23:41:02 PST)

Amber Archive Feb 2008 by author