AMBER Archive (2009) - Mar 2009 By Author

Starting: Sun Mar 01 2009 - 05:52:43 CST
Ending: Tue Mar 31 2009 - 22:52:42 CDT

• . ..
  • [AMBER] hydrogen bond (Wed Mar 04 2009 - 05:12:33 CST)
• aditya chhikara
  • Re: [AMBER] installing resp on linux 64bit (Thu Mar 26 2009 - 16:36:50 CDT)
  • [AMBER] installing resp on linux 64bit (Thu Mar 26 2009 - 12:24:27 CDT)
• Adrian Roitberg
  • Re: [AMBER] IG not change at each restart of NPT simulation (Thu Mar 19 2009 - 08:30:10 CDT)
  • Re: [AMBER] SMD in Amber10 (Fri Mar 13 2009 - 10:01:31 CDT)
  • Re: [AMBER] SMD in Amber10 (Fri Mar 13 2009 - 08:45:39 CDT)
  • Re: [AMBER] SMD in Amber10 (Thu Mar 12 2009 - 13:46:14 CDT)
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 18:11:49 CST)
• Adrien Delmont
  • [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 09:37:40 CDT)
• Alan
  • [AMBER] Announcing NMR validation web interface iCing (Mon Mar 30 2009 - 11:55:00 CDT)
  • Re: [AMBER] sleap and check (Wed Mar 18 2009 - 16:23:51 CDT)
  • [AMBER] sleap and check (Wed Mar 18 2009 - 06:18:27 CDT)
  • Re: [AMBER] to understand multiplicity in antechamber (Fri Mar 13 2009 - 17:43:28 CDT)
  • [AMBER] to understand multiplicity in antechamber (Fri Mar 13 2009 - 09:43:45 CDT)
  • [AMBER] to understand multiplicity in antechamber (Fri Mar 13 2009 - 07:06:45 CDT)
• Andreas Svrcek-Seiler
  • RE: [AMBER] Question about NAB module (Mon Mar 02 2009 - 03:23:52 CST)
• Andrew Voronkov
  • Re: [AMBER] divcon error during antechamber run, convergence problem (Sat Mar 07 2009 - 09:58:19 CST)
  • Re: [AMBER] divcon error during antechamber run, convergence problem (Fri Mar 06 2009 - 12:04:55 CST)
• aneesh cna
  • Re: [AMBER] Regarding leap (Wed Mar 04 2009 - 22:29:17 CST)
  • [AMBER] Regarding leap (Wed Mar 04 2009 - 05:43:52 CST)
• anna berteotti
  • RE: [AMBER] 8Mureabox (Wed Mar 11 2009 - 03:45:03 CDT)
  • [AMBER] 8Mureabox (Mon Mar 09 2009 - 05:07:52 CDT)
• Aravind S
  • Re: [AMBER] .rst file generation problem. (Tue Mar 31 2009 - 03:49:17 CDT)
  • [AMBER] problem with the results in the .out file! (Tue Mar 31 2009 - 00:30:57 CDT)
  • Re: [AMBER] .rst file generation problem. (Mon Mar 30 2009 - 01:32:12 CDT)
  • [AMBER] .rst file generation problem. (Mon Mar 30 2009 - 00:48:55 CDT)
• Astrid Maaß
  • Re: [AMBER] Help with torsions in parm99.dat file (Mon Mar 09 2009 - 08:27:30 CDT)
• Atro Tossavainen
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 05:18:58 CDT)
  • Re: [AMBER] Problem build pmemd (Sat Mar 14 2009 - 14:10:53 CDT)
  • Re: [AMBER] problems compiling ambertool (Sat Mar 14 2009 - 14:09:36 CDT)
• Bala subramanian
  • Re: [AMBER] helical parameters (Mon Mar 23 2009 - 13:14:29 CDT)
  • Re: [AMBER] adding chain id to ptraj pdb output (Mon Mar 23 2009 - 06:37:43 CDT)
  • Re: [AMBER] analysing DNA trajectory (Fri Mar 20 2009 - 03:06:08 CDT)
  • Re: [AMBER] temperature rises with igb=1 (Thu Mar 19 2009 - 06:24:45 CDT)
  • [AMBER] temperature rises with igb=1 (Tue Mar 17 2009 - 11:35:41 CDT)
  • [AMBER] removing center of mass (Tue Mar 17 2009 - 10:21:28 CDT)
  • Re: [AMBER] minimisation with igb=10 (Mon Mar 16 2009 - 10:56:48 CDT)
  • [AMBER] minimisation with igb=10 (Mon Mar 16 2009 - 10:43:10 CDT)
  • [AMBER] suggestions for PB simulation (Sat Mar 14 2009 - 11:41:19 CDT)
• balaji nagarajan
  • [AMBER] helical parameters (Mon Mar 23 2009 - 11:21:04 CDT)
  • [AMBER] analysing DNA trajectory (Fri Mar 20 2009 - 00:09:10 CDT)
  • RE: [AMBER] TMD (Wed Mar 18 2009 - 06:15:55 CDT)
  • [AMBER] TMD (Tue Mar 17 2009 - 23:58:37 CDT)
  • [AMBER] need- help-for TMD (Tue Mar 17 2009 - 00:16:34 CDT)
  • [AMBER] doubt-reg_ Targeted molecular dynamics (Fri Mar 13 2009 - 11:20:41 CDT)
• Barbault Florent
  • Re: [AMBER] binding free energy (Sun Mar 01 2009 - 06:20:39 CST)
• Beale, John
  • [AMBER] secstruct (Thu Mar 05 2009 - 07:54:20 CST)
• Benjamin Roberts
  • [AMBER] Segmentation faults (Wed Mar 04 2009 - 18:17:50 CST)
  • Re: [AMBER] Compilation and qmmm_div (Wed Mar 04 2009 - 18:15:37 CST)
  • [AMBER] Compilation and qmmm_div (Wed Mar 04 2009 - 09:48:16 CST)
• BERGY
  • [AMBER] High RMSD for DNA: A to B transition study (Fri Mar 06 2009 - 01:26:57 CST)
  • Re: [AMBER] DNA simulation: Problem with RMSD (Fri Mar 06 2009 - 00:20:00 CST)
  • [AMBER] DNA simulation: Problem with RMSD (Wed Mar 04 2009 - 21:44:26 CST)
• bharat lakhani
  • Re: [AMBER] please help me out (Tue Mar 24 2009 - 08:57:18 CDT)
  • Re: [AMBER] please help me out (Mon Mar 23 2009 - 02:58:52 CDT)
  • Re: [AMBER] please help me out (Sat Mar 14 2009 - 06:04:37 CDT)
  • Re: [AMBER] please help me out (Thu Mar 12 2009 - 01:04:00 CDT)
  • Re: [AMBER] please help me out (Mon Mar 09 2009 - 03:43:08 CDT)
  • Re: [AMBER] please help me out (Mon Mar 09 2009 - 00:04:45 CDT)
  • Re: [AMBER] please help me out (Thu Mar 05 2009 - 05:16:45 CST)
  • [AMBER] please help me out (Thu Mar 05 2009 - 02:35:44 CST)
  • [AMBER] Fwd: please help me out (Wed Mar 04 2009 - 22:42:06 CST)
• Bill Ross
  • Re: [AMBER] change in protein ligand order (Tue Mar 24 2009 - 13:07:42 CDT)
  • Re: [AMBER] Metal in MD simulation (Thu Mar 19 2009 - 16:22:12 CDT)
  • Re: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 17:47:07 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 12:24:48 CDT)
  • Re: [AMBER] Unit 5 Error on OPEN: nan.in (Tue Mar 17 2009 - 12:12:07 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 12:10:01 CDT)
  • Re: [AMBER] Re: join two units in amber9 or amber10 (Mon Mar 16 2009 - 17:56:01 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 17:50:44 CDT)
  • Re: [AMBER] solvent and counter ions (Thu Mar 05 2009 - 17:29:50 CST)
  • Re: [AMBER] solvent and counter ions (Wed Mar 04 2009 - 18:20:45 CST)
• Bradshaw, Richard
  • [AMBER] MM-PBSA decomp by residue and snapshot? (Thu Mar 05 2009 - 11:55:05 CST)
• Carlos Simmerling
  • Re: [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 21:24:34 CDT)
  • Re: [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 20:41:49 CDT)
  • Re: [AMBER] combine many coord files into trajectory file (Tue Mar 31 2009 - 08:55:58 CDT)
  • Re: [AMBER] .rst file generation problem. (Tue Mar 31 2009 - 06:28:35 CDT)
  • Re: [AMBER] Creating conditions for biased MD (Mon Mar 30 2009 - 06:56:36 CDT)
  • Re: [AMBER] .rst file generation problem. (Mon Mar 30 2009 - 06:30:58 CDT)
  • Re: [AMBER] continuam water (Tue Mar 24 2009 - 08:36:15 CDT)
  • Re: [AMBER] MMGBSA IG Value (Fri Mar 20 2009 - 12:42:14 CDT)
  • Re: [AMBER] MMGBSA IG Value (Fri Mar 20 2009 - 12:25:38 CDT)
  • Re: [AMBER] Help needed in amber parallel installation (Fri Mar 20 2009 - 06:34:31 CDT)
  • Re: [AMBER] problem in running sander (Wed Mar 18 2009 - 10:51:07 CDT)
  • Re: [AMBER] protein protrudes from unit cell (Wed Mar 18 2009 - 10:49:43 CDT)
  • Re: [AMBER] problem in running sander (Wed Mar 18 2009 - 09:58:04 CDT)
  • Re: [AMBER] TMD (Wed Mar 18 2009 - 05:32:14 CDT)
  • Re: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 13:53:05 CDT)
  • Re: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 13:53:05 CDT)
  • Re: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 13:53:05 CDT)
  • Re: [AMBER] temperature rises with igb=1 (Tue Mar 17 2009 - 11:58:05 CDT)
  • Re: [AMBER] temperature rises with igb=1 (Tue Mar 17 2009 - 11:44:32 CDT)
  • Re: [AMBER] minimisation with igb=10 (Mon Mar 16 2009 - 11:04:37 CDT)
  • Re: [AMBER] minimisation with igb=10 (Mon Mar 16 2009 - 10:45:47 CDT)
  • Re: Re: [AMBER] Unit 5 Error on OPEN: nan.in (Mon Mar 16 2009 - 09:32:02 CDT)
  • Re: [AMBER] Problem with REMD (Thu Mar 12 2009 - 06:00:07 CDT)
  • Re: [AMBER] about MD simulation (Wed Mar 11 2009 - 05:56:43 CDT)
  • Re: [AMBER] problem in rmsd (Tue Mar 10 2009 - 05:29:20 CDT)
  • Re: [AMBER] generalized distance restraint (Mon Mar 09 2009 - 11:39:43 CDT)
  • Re: [AMBER] generalized distance restraint (Mon Mar 09 2009 - 10:13:50 CDT)
  • Re: [AMBER] addles segmentation fault (Mon Mar 09 2009 - 06:45:24 CDT)
  • Re: [AMBER] secstruct (Thu Mar 05 2009 - 08:27:18 CST)
  • Re: [AMBER] Regarding leap (Wed Mar 04 2009 - 05:48:30 CST)
  • Re: [AMBER] hydrogen bond (Wed Mar 04 2009 - 05:20:53 CST)
• case
  • Re: [AMBER] amber tools installation (Mon Mar 30 2009 - 11:28:38 CDT)
  • Re: [AMBER] mm_pbsa problem (Mon Mar 30 2009 - 07:48:05 CDT)
  • Re: [AMBER] Problem with "Atom does not have a type" (Mon Mar 30 2009 - 07:46:59 CDT)
  • Re: [AMBER] question about pair wise per-residue energy decomposition; idecomp=3 (Wed Mar 25 2009 - 13:58:02 CDT)
  • Re: [AMBER] create new crd files from transformed coordinates (Wed Mar 25 2009 - 07:26:29 CDT)
  • Re: [AMBER] pmemd compile error.... (Tue Mar 24 2009 - 07:12:46 CDT)
• Catein Catherine
  • [AMBER] AMBER installation : compilation error (Wed Mar 04 2009 - 20:53:54 CST)
  • [AMBER] How to restart the umbrella sampling jobs? (Mon Mar 02 2009 - 23:52:16 CST)
• Cen Gao
  • Re: [AMBER] Input file of the second stage RESP fitting (Tue Mar 17 2009 - 16:24:24 CDT)
  • [AMBER] Input file of the second stage RESP fitting (Mon Mar 16 2009 - 23:29:17 CDT)
• CHAMI F.
  • [AMBER] POLARIZABLE WATER MODEL (Tue Mar 24 2009 - 13:03:25 CDT)
• Chih-Ying Lin
  • [AMBER] protein PDB (Thu Mar 19 2009 - 15:43:15 CDT)
  • [AMBER] What is the default position of the partial charges? (Wed Mar 04 2009 - 15:06:16 CST)
• Cristina S.D. Sisu
  • Re: [AMBER] catenan simulation problems (Fri Mar 06 2009 - 09:35:46 CST)
• Cristina Sisu
  • Re: [AMBER] catenan simulation problems (Fri Mar 06 2009 - 09:28:00 CST)
  • [AMBER] catenan simulation problems (Fri Mar 06 2009 - 07:16:08 CST)
• Daniel Oehme
  • [AMBER] Fwd: AMBER: MM-PBSA in AMBER 10 (Thu Mar 26 2009 - 18:44:59 CDT)
• David A. Case
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sun Mar 29 2009 - 13:41:13 CDT)
  • Re: [AMBER] Problem reading PDB file into XLEAP - SLEAP (Sun Mar 29 2009 - 13:37:35 CDT)
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sat Mar 28 2009 - 21:26:58 CDT)
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sat Mar 28 2009 - 16:39:35 CDT)
  • Re: [AMBER] Question (Sat Mar 28 2009 - 08:38:49 CDT)
  • Re: [AMBER] Problem reading PDB file into XLEAP (Sat Mar 28 2009 - 08:28:53 CDT)
  • Re: [AMBER] Problem with "Atom does not have a type" (Sat Mar 28 2009 - 08:25:33 CDT)
  • Re: [AMBER] Problem reading PDB file into XLEAP (Fri Mar 27 2009 - 07:39:26 CDT)
  • Re: [AMBER] Antechamber problem (Fri Mar 27 2009 - 07:29:48 CDT)
  • Re: [AMBER] problem in installing AMBER10 (Fri Mar 27 2009 - 07:05:31 CDT)
  • Re: [AMBER] Problem with "Atom does not have a type" (Fri Mar 27 2009 - 06:44:22 CDT)
  • Re: [AMBER] leap and chirality (Mon Mar 23 2009 - 08:16:14 CDT)
  • Re: [AMBER] problem in installing AMBER10 (Mon Mar 23 2009 - 06:07:17 CDT)
  • Re: [AMBER] simulation in water-oil (or water/hydrophobic-solvent) box (Thu Mar 19 2009 - 12:38:52 CDT)
  • Re: [AMBER] problem in running sander (Thu Mar 19 2009 - 07:13:11 CDT)
  • Re: [AMBER] temperature rises with igb=1 (Thu Mar 19 2009 - 07:04:54 CDT)
  • Re: [AMBER] error for nmode (Thu Mar 19 2009 - 06:31:24 CDT)
  • Re: [AMBER] Mass of LP (Thu Mar 19 2009 - 06:27:48 CDT)
  • Re: [AMBER] mol2 - pdb conversion (Wed Mar 18 2009 - 16:53:06 CDT)
  • Re: [AMBER] problems compiling ambertool (Wed Mar 18 2009 - 07:39:38 CDT)
  • Re: [AMBER] catenan simulation problems (Wed Mar 18 2009 - 06:47:32 CDT)
  • Re: [AMBER] errors about install amber9 on MAC OS (Wed Mar 18 2009 - 06:08:44 CDT)
  • Re: [AMBER] CCL4 simulation (Wed Mar 18 2009 - 06:06:30 CDT)
  • Re: [AMBER] CCL4 simulation (Tue Mar 17 2009 - 21:14:51 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 11:13:30 CDT)
  • Re: [AMBER] convert .mol2 file to .pdb with atomtype definitions (Tue Mar 17 2009 - 11:00:19 CDT)
  • Re: [AMBER] mol2 - pdb conversion (Tue Mar 17 2009 - 10:47:53 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 07:49:20 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 10:12:40 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 09:27:26 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 08:50:24 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 07:13:23 CDT)
  • Re: [AMBER] please help me out (Sat Mar 14 2009 - 08:06:34 CDT)
  • Re: [AMBER] problems compiling ambertool (Fri Mar 13 2009 - 14:54:56 CDT)
  • Re: [AMBER] High RMSD for DNA: A to B transition study (Fri Mar 13 2009 - 07:00:40 CDT)
  • Re: [AMBER] Changing Force Fields in "Midstream" (Wed Mar 11 2009 - 17:36:56 CDT)
  • [AMBER] installing AmberTools on Windows machines (Wed Mar 11 2009 - 15:27:07 CDT)
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 06:08:17 CDT)
  • Re: [AMBER] 8Mureabox (Tue Mar 10 2009 - 07:51:08 CDT)
  • Re: [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 09:30:16 CDT)
  • Re: [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 08:43:34 CDT)
  • Re: [AMBER] catenan simulation problems (Sat Mar 07 2009 - 17:25:07 CST)
  • Re: [AMBER] divcon error during antechamber run, convergence problem (Fri Mar 06 2009 - 12:33:24 CST)
  • Re: [AMBER] catenan simulation problems (Fri Mar 06 2009 - 08:59:24 CST)
  • Re: [AMBER] High RMSD for DNA: A to B transition study (Fri Mar 06 2009 - 08:57:02 CST)
  • Re: [AMBER] GBSA: dielectric symmetry (Thu Mar 05 2009 - 18:05:51 CST)
  • Re: [AMBER] chemical shift penalty (Thu Mar 05 2009 - 17:59:33 CST)
  • Re: [AMBER] specification of antechamber AC file format? (Wed Mar 04 2009 - 16:39:44 CST)
  • Re: Re: [AMBER] How can I use the charge I calculated (using mol2 file) ? (Tue Mar 03 2009 - 07:39:26 CST)
  • Re: [AMBER] Pseudoatoms (Mon Mar 02 2009 - 17:25:29 CST)
  • Re: [AMBER] How can I use the charge I calculated (using mol2 file) ? (Mon Mar 02 2009 - 08:56:54 CST)
  • Re: [AMBER] Question about NAB module (Sun Mar 01 2009 - 07:52:19 CST)
• David Watson
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 15:00:39 CDT)
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 10:02:55 CDT)
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 09:54:57 CDT)
• Dechang Li
  • [AMBER] error for nmode (Thu Mar 19 2009 - 06:00:09 CDT)
• Dmitri Nilov
  • [AMBER] Actual force constant in SMD (Mon Mar 16 2009 - 13:07:09 CDT)
  • Re: [AMBER] SMD in Amber10 (Fri Mar 13 2009 - 10:17:44 CDT)
  • Re: [AMBER] SMD in Amber10 (Fri Mar 13 2009 - 09:54:07 CDT)
  • Re: [AMBER] SMD in Amber10 (Fri Mar 13 2009 - 03:52:26 CDT)
  • [AMBER] SMD in Amber10 (Thu Mar 12 2009 - 13:12:13 CDT)
• Don.Bashford_at_stjude.org
  • Re: [AMBER] binding free energy (Sun Mar 01 2009 - 11:18:39 CST)
• Donald Keidel
  • [AMBER] create new crd files from transformed coordinates (Tue Mar 24 2009 - 20:49:03 CDT)
  • [AMBER] Warning: name change in pdb file residue (Thu Mar 05 2009 - 13:25:38 CST)
• Dr. Debaprasad Giri
  • Re: [AMBER] problem in installing AMBER10 (Fri Mar 27 2009 - 05:16:47 CDT)
  • [AMBER] problem in installing AMBER10 (Mon Mar 23 2009 - 05:31:26 CDT)
• drugdesign
  • [AMBER] divcon error during antechamber run, convergence problem (Thu Mar 05 2009 - 07:53:59 CST)
• Duggan, Brendan M.
  • RE: [AMBER] Warning: name change in pdb file residue (Thu Mar 05 2009 - 14:42:21 CST)
• fohm fohm
  • Re: [AMBER] PMEMD 9 on MVAPICH / Infiniband problem (Tue Mar 31 2009 - 06:04:10 CDT)
• Francesco Pietra
  • [AMBER] Creating conditions for biased MD (Mon Mar 30 2009 - 05:16:54 CDT)
  • [AMBER] Quality/size of HDD for Amber (Fri Mar 06 2009 - 03:26:03 CST)
• FyD
  • Re: [AMBER] modifying LYN (Tue Mar 31 2009 - 10:41:56 CDT)
  • Re: [AMBER] installing resp on linux 64bit (Thu Mar 26 2009 - 14:37:22 CDT)
  • Re: [AMBER] [about advanced tutorial 1] How could I get conformations for gaussian that have minimum energy? (Sun Mar 22 2009 - 15:12:17 CDT)
  • Re: [AMBER] Input file of the second stage RESP fitting (Tue Mar 17 2009 - 08:32:58 CDT)
  • Re: [AMBER] please help me out (Mon Mar 09 2009 - 05:05:06 CDT)
  • Re: [AMBER] please help me out (Mon Mar 09 2009 - 03:10:08 CDT)
  • Re: [AMBER] please help me out (Thu Mar 05 2009 - 03:22:20 CST)
  • [AMBER] Re: Fw:How to creat .frcmod file (Thu Mar 05 2009 - 00:22:56 CST)
  • Re: [AMBER] How can I use the charge I calculated (using mol2 file) ? (Tue Mar 03 2009 - 08:12:18 CST)
  • Re: [AMBER] inpcrd and prmtop (Tue Mar 03 2009 - 04:19:43 CST)
• German Erlenkamp
  • [AMBER] Problems with MM-PBSA Calculation after MD (Thu Mar 12 2009 - 04:28:23 CDT)
• Giacomo Bastianelli
  • [AMBER] GBSA: dielectric symmetry (Thu Mar 05 2009 - 17:29:50 CST)
• Giorgos Lamprinidis
  • Re: [AMBER] mm_pbsa problem (Mon Mar 30 2009 - 08:59:55 CDT)
  • [AMBER] mm_pbsa problem (Mon Mar 30 2009 - 05:02:07 CDT)
  • [AMBER] pmemd compile error (Mon Mar 23 2009 - 15:54:37 CDT)
  • [AMBER] pmemd compile error.... (Thu Mar 19 2009 - 10:06:04 CDT)
  • Re: [AMBER] Problem build pmemd (Wed Mar 18 2009 - 08:28:06 CDT)
• gmail
  • [AMBER] errors on reading time series file in WHAM calculation (Mon Mar 23 2009 - 19:35:02 CDT)
  • [AMBER] Understanding the all.out file in the MM-PBSA output (Wed Mar 11 2009 - 20:39:10 CDT)
  • [AMBER] addles segmentation fault (Mon Mar 09 2009 - 03:28:56 CDT)
• Gregersen, Brent
  • RE: [AMBER] Help with torsions in parm99.dat file (Fri Mar 06 2009 - 20:15:11 CST)
  • [AMBER] Help with torsions in parm99.dat file (Fri Mar 06 2009 - 16:44:17 CST)
• Gustavo Seabra
  • Re: [AMBER] problem with the results in the .out file! (Tue Mar 31 2009 - 08:01:41 CDT)
  • Re: [AMBER] Quality/size of HDD for Amber (Mon Mar 09 2009 - 12:44:54 CDT)
  • Re: [AMBER] Regarding leap (Thu Mar 05 2009 - 09:32:56 CST)
  • Re: [AMBER] Regarding leap (Wed Mar 04 2009 - 16:05:25 CST)
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 18:08:33 CST)
  • Re: [AMBER] How to restart the umbrella sampling jobs? (Tue Mar 03 2009 - 14:41:25 CST)
  • Re: [AMBER] Fail to allocate ff (Tue Mar 03 2009 - 14:36:53 CST)
  • Re: [AMBER] inpcrd and prmtop (Tue Mar 03 2009 - 14:20:38 CST)
  • Re: [AMBER] assigning velocities to each atom without heating the system (Mon Mar 02 2009 - 11:31:09 CST)
• Hannes Kopitz
  • Re: [AMBER] Problems with MM-PBSA Calculation after MD (Thu Mar 12 2009 - 06:06:54 CDT)
  • Re: [AMBER] Understanding the all.out file in the MM-PBSA output (Thu Mar 12 2009 - 05:54:27 CDT)
• Hannes Loeffler
  • Re: [AMBER] change in protein ligand order (Tue Mar 24 2009 - 06:27:24 CDT)
  • Re: [AMBER] lipid bliayers (Wed Mar 18 2009 - 08:17:04 CDT)
  • Re: [AMBER] protein protrudes from unit cell (Wed Mar 18 2009 - 04:08:41 CDT)
  • Re: [AMBER] problem in rmsd (Tue Mar 10 2009 - 03:30:16 CDT)
  • Re: [AMBER] inpcrd and prmtop (Tue Mar 03 2009 - 03:37:16 CST)
• Hannes Wallnoefer
  • Re: [AMBER] change in protein ligand order (Tue Mar 24 2009 - 15:45:16 CDT)
  • Re: [AMBER] change in protein ligand order (Tue Mar 24 2009 - 07:38:18 CDT)
  • [AMBER] change in protein ligand order (Tue Mar 24 2009 - 06:05:36 CDT)
• Harald Lanig
  • [AMBER] Announcement of Model(l)ing'09 - The annual 2009 MGMS Meeting in Erlangen, Germany (Fri Mar 20 2009 - 06:25:09 CDT)
• Hemant Gangwar
  • [AMBER] problem using amoeba (Fri Mar 27 2009 - 05:41:26 CDT)
  • [AMBER] Solvate Box od amoeba water (Fri Mar 06 2009 - 03:50:01 CST)
• Hemant Kumar
  • Re: [AMBER] Solvate Box od amoeba water (Sun Mar 22 2009 - 11:06:01 CDT)
• Hopkins, Robert
  • RE: [AMBER] Problem reading PDB file into XLEAP - SLEAP (Sun Mar 29 2009 - 13:27:09 CDT)
  • RE: [AMBER] Problem reading PDB file into XLEAP - SLEAP (Sat Mar 28 2009 - 18:12:06 CDT)
  • RE: [AMBER] Problem reading PDB file into XLEAP (Fri Mar 27 2009 - 17:09:11 CDT)
  • [AMBER] Problem reading PDB file into XLEAP (Thu Mar 26 2009 - 19:01:26 CDT)
  • RE: [AMBER] IG not change at each restart of NPT simulation (Wed Mar 18 2009 - 18:15:54 CDT)
  • Re: [AMBER] IG not change at each restart of NPT simulation (Wed Mar 18 2009 - 17:55:33 CDT)
  • RE: [AMBER] Changing Force Fields in "Midstream" (Thu Mar 12 2009 - 15:45:46 CDT)
  • RE: [AMBER] Changing Force Fields in "Midstream" (Wed Mar 11 2009 - 16:36:12 CDT)
  • RE: [AMBER] Changing Force Fields in "Midstream" (Tue Mar 10 2009 - 18:29:44 CDT)
  • [AMBER] Changing Force Fields in "Midstream" (Mon Mar 09 2009 - 19:12:27 CDT)
• iccy liu
  • [AMBER] radial distribution function mask (Wed Mar 04 2009 - 12:57:08 CST)
• Jacopo Sgrignani
  • [AMBER] QM/MM charges (Fri Mar 20 2009 - 04:38:30 CDT)
  • [AMBER] chemical shift penalty (Thu Mar 05 2009 - 03:47:03 CST)
• Jagadeesh, M.N., Ph.D.
  • Re: [AMBER] Metal in MD simulation (Thu Mar 19 2009 - 09:48:28 CDT)
• jani sahil
  • Re: [AMBER] Regarding use of PME along with Implict solvation (Mon Mar 23 2009 - 08:04:15 CDT)
  • [AMBER] Regarding use of PME along with Implict solvation (Mon Mar 23 2009 - 05:38:39 CDT)
  • [AMBER] regarding tutorial on united atom force field (Mon Mar 16 2009 - 23:51:16 CDT)
• Jayalakshmi Sridhar
  • [AMBER] amber tools installation (Mon Mar 30 2009 - 10:44:57 CDT)
• Jeff Schwinefus
  • Re: [AMBER] Amber: water-water hydrogen bonding analysis on a subset of waters in a trajectory (Wed Mar 04 2009 - 23:22:34 CST)
  • [AMBER] Amber: water-water hydrogen bonding analysis on a subset of waters in a trajectory (Tue Mar 03 2009 - 16:18:25 CST)
• Jeffrey
  • [AMBER] validation of parameters and request suggestions (Tue Mar 24 2009 - 06:52:19 CDT)
  • [AMBER] validation of parameters and request of suggestions (Mon Mar 23 2009 - 21:16:35 CDT)
  • [AMBER] protein protrudes from unit cell (Wed Mar 18 2009 - 03:59:06 CDT)
• Jenny Iskrenova
  • Re: [AMBER] errors on reading time series file in WHAM calculation (Tue Mar 24 2009 - 09:35:51 CDT)
  • Re: [AMBER] Unit 5 Error on OPEN: nan.in (Tue Mar 17 2009 - 07:34:00 CDT)
• Jia Xu
  • [AMBER] angle between ligand ring plane and axis (Wed Mar 04 2009 - 05:00:08 CST)
• Joe Krahn
  • Re: [AMBER] adding chain id to ptraj pdb output (Mon Mar 23 2009 - 18:20:30 CDT)
• John Bennett
  • [AMBER] sander.MPI and pmemd.MPI in Fedora 8 (Sun Mar 15 2009 - 16:23:16 CDT)
• Jose Borreguero
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 16:56:03 CDT)
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 13:46:29 CDT)
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 12:28:21 CDT)
  • [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Tue Mar 10 2009 - 11:09:48 CDT)
• Junmei Wang
  • Re: [AMBER] ambmol2? (Tue Mar 31 2009 - 21:41:35 CDT)
  • Re: [AMBER] ambmol2? (Tue Mar 31 2009 - 18:08:25 CDT)
  • Re: [AMBER] Antechamber problem (Fri Mar 27 2009 - 16:21:33 CDT)
• Karl Kirschner
  • Re: [AMBER] leap and chirality (Tue Mar 24 2009 - 03:11:38 CDT)
  • Re: [AMBER] leap and chirality (Mon Mar 23 2009 - 09:05:56 CDT)
  • [AMBER] leap and chirality (Mon Mar 23 2009 - 04:54:29 CDT)
• Kristina Furse
  • RE: [AMBER] Changing Force Fields in "Midstream" (Wed Mar 11 2009 - 16:58:06 CDT)
• Kshatresh Dutta Dubey
  • Re: [AMBER] Question (Sat Mar 28 2009 - 04:16:03 CDT)
  • [AMBER] Question (Fri Mar 27 2009 - 08:06:09 CDT)
  • Re: [AMBER] problem in running sander (Thu Mar 19 2009 - 02:17:21 CDT)
• m m
  • RE: [AMBER] inpcrd and prmtop (Tue Mar 03 2009 - 04:08:51 CST)
  • [AMBER] inpcrd and prmtop (Tue Mar 03 2009 - 03:27:06 CST)
• M. L. Dodson
  • Re: [AMBER] generalized distance restraint (Mon Mar 09 2009 - 11:51:19 CDT)
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 13:34:03 CDT)
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 13:32:22 CDT)
  • Re: [AMBER] Quality/size of HDD for Amber (Fri Mar 06 2009 - 09:44:45 CST)
• Madhurima Jana
  • Re: [AMBER] Fail to allocate ff (Tue Mar 03 2009 - 08:27:41 CST)
  • [AMBER] Fail to allocate ff (Tue Mar 03 2009 - 05:17:57 CST)
• Mannan
  • [AMBER] continuam water (Mon Mar 23 2009 - 23:11:50 CDT)
• Marek Malý
  • [AMBER] Parametrisation of Silicon based molecules for Amber simulations ? (Thu Mar 19 2009 - 18:49:21 CDT)
• Marius Retegan
  • Re: [AMBER] modifying LYN (Tue Mar 31 2009 - 11:58:06 CDT)
  • [AMBER] modifying LYN (Tue Mar 31 2009 - 08:36:21 CDT)
• Martin Peters
  • Re: [AMBER] divcon error during antechamber run, convergence problem (Thu Mar 05 2009 - 08:21:19 CST)
• Maryam Hamzehee
  • RE: [AMBER] binding free energy (Mon Mar 02 2009 - 01:33:44 CST)
  • [AMBER] binding free energy (Sun Mar 01 2009 - 05:52:43 CST)
• mathew k varghese
  • Re: [AMBER] "rfree: End of file on unit 5" (Mon Mar 30 2009 - 04:57:44 CDT)
  • Re: [AMBER] xmgrace (Sat Mar 21 2009 - 00:18:32 CDT)
  • Re: [AMBER] Unit 5 Error on OPEN: nan.in (Tue Mar 17 2009 - 06:22:08 CDT)
  • Re: [AMBER] Unit 5 Error on OPEN: nan.in (Mon Mar 16 2009 - 08:36:57 CDT)
• mloureiro_at_cesga.es
  • [AMBER] Problem running test.pmemd.AMOEBA (Fri Mar 13 2009 - 06:45:30 CDT)
• Nancy
  • [AMBER] a layer of water (Tue Mar 31 2009 - 20:37:51 CDT)
  • Re:Re: [AMBER] xmgrace (Sat Mar 21 2009 - 00:42:48 CDT)
  • [AMBER] xmgrace (Fri Mar 20 2009 - 23:41:33 CDT)
  • Re:Re: [AMBER] Unit 5 Error on OPEN: nan.in (Tue Mar 17 2009 - 08:37:44 CDT)
  • [AMBER] Unit 5 Error on OPEN: nan.in (Tue Mar 17 2009 - 04:11:10 CDT)
  • [AMBER] Unit 5 Error on OPEN: nan.in (Mon Mar 16 2009 - 20:02:09 CDT)
  • Re:Re: [AMBER] Unit 5 Error on OPEN: nan.in (Mon Mar 16 2009 - 09:01:14 CDT)
  • [AMBER] Unit 5 Error on OPEN: nan.in (Mon Mar 16 2009 - 07:49:31 CDT)
  • [AMBER] Fw:how to select force field (Sun Mar 08 2009 - 09:07:48 CDT)
• Naser Alijabbari
  • Re: [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 21:43:28 CDT)
  • Re: [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 21:15:13 CDT)
  • [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 20:35:43 CDT)
• neville forlemu
  • [AMBER] PMEMD error message (Tue Mar 10 2009 - 09:55:31 CDT)
  • [AMBER] PMEMD error message (Sun Mar 08 2009 - 15:37:09 CDT)
• Nicholas Musolino
  • Re: [AMBER] Fail to allocate ff (Tue Mar 03 2009 - 07:10:21 CST)
  • [AMBER] specification of antechamber AC file format? (Tue Mar 03 2009 - 01:53:23 CST)
• nicholus bhattacharjee
  • [AMBER] To find radial distribution curve (Thu Mar 26 2009 - 12:16:07 CDT)
  • Re: [AMBER] problem with amber installation (Tue Mar 24 2009 - 12:14:10 CDT)
• Nick Holway
  • [AMBER] PMEMD 9 on MVAPICH / Infiniband problem (Fri Mar 27 2009 - 10:55:38 CDT)
• Nir London
  • [AMBER] Rosetta Academic Training Webinar (Wed Mar 25 2009 - 11:14:21 CDT)
• oguz gurbulak
  • [AMBER] analysis on Amber (Sat Mar 07 2009 - 12:04:19 CST)
  • [AMBER] Re: using Gromacs for analysis (Mon Mar 02 2009 - 10:17:45 CST)
  • [AMBER] calculate shear viscosity (Mon Mar 02 2009 - 07:35:06 CST)
• ozlem ulucan
  • [AMBER] Free Energy Decomposition Problem (Mon Mar 09 2009 - 08:55:45 CDT)
• Pankaj R. Daga
  • RE: [AMBER] convert .mol2 file to .pdb with atomtype definitions (Tue Mar 17 2009 - 11:41:20 CDT)
• Pansy Patel
  • Re: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 14:24:58 CDT)
  • [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 13:43:49 CDT)
  • Re: [AMBER] convert .mol2 file to .pdb with atomtype definitions (Tue Mar 17 2009 - 11:09:10 CDT)
  • [AMBER] convert .mol2 file to .pdb with atomtype definitions (Tue Mar 17 2009 - 10:50:57 CDT)
• Parimal Kar
  • Re: [AMBER] problem in rmsd (Mon Mar 09 2009 - 22:36:13 CDT)
  • [AMBER] problem in rmsd (Mon Mar 09 2009 - 22:18:48 CDT)
  • Re: [AMBER] assigning velocities to each atom without heating the system (Mon Mar 02 2009 - 11:46:25 CST)
  • [AMBER] assigning velocities to each atom without heating the system (Mon Mar 02 2009 - 10:44:26 CST)
• parul sharma
  • Re: [AMBER] Regarding use of PME along with Implict solvation (Mon Mar 23 2009 - 05:55:24 CDT)
  • [AMBER] Problem with REMD (Thu Mar 12 2009 - 02:45:09 CDT)
• Paul Brandt
  • [AMBER] adding chain id to ptraj pdb output (Sat Mar 21 2009 - 21:09:59 CDT)
• Per Jr. Greisen
  • Re: [AMBER] problems compiling ambertool (Wed Mar 18 2009 - 07:45:53 CDT)
  • Re: [AMBER] problems compiling ambertool (Wed Mar 18 2009 - 06:49:57 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 11:06:00 CDT)
  • Re: [AMBER] problems compiling ambertool (Tue Mar 17 2009 - 03:10:20 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 17:35:38 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 09:41:26 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 09:00:14 CDT)
  • Re: [AMBER] problems compiling ambertool (Mon Mar 16 2009 - 08:29:37 CDT)
  • Re: [AMBER] problems compiling ambertool (Fri Mar 13 2009 - 17:01:35 CDT)
  • [AMBER] problems compiling ambertool (Fri Mar 13 2009 - 14:08:36 CDT)
• Peter Gannett
  • Re: [AMBER] combine many coord files into trajectory file (Tue Mar 31 2009 - 09:25:00 CDT)
  • [AMBER] combine many coord files into trajectory file (Tue Mar 31 2009 - 08:51:16 CDT)
• PRADEEP VENKATARAMAN
  • [AMBER] Mass of LP (Wed Mar 18 2009 - 22:27:24 CDT)
  • [AMBER] Thermodynamic Integration at higher values of clambda using AMBER 9 (Thu Mar 12 2009 - 16:56:59 CDT)
• priya priya
  • Re: [AMBER] Metal in MD simulation (Fri Mar 20 2009 - 01:15:06 CDT)
  • [AMBER] Metal in MD simulation (Thu Mar 19 2009 - 01:25:09 CDT)
• Rajesh Raju
  • [AMBER] About Free energy decomposition (Wed Mar 25 2009 - 09:08:00 CDT)
  • Re: [AMBER] MMGBSA IG Value (Fri Mar 20 2009 - 12:36:37 CDT)
  • [AMBER] MMGBSA IG Value (Fri Mar 20 2009 - 12:20:52 CDT)
  • Re: [AMBER] IG not change at each restart of NPT simulation (Fri Mar 20 2009 - 08:20:09 CDT)
  • RE: [AMBER] IG not change at each restart of NPT simulation (Thu Mar 19 2009 - 07:54:26 CDT)
• ranga nath
  • Re: [AMBER] simulation in water-oil (or water/hydrophobic-solvent) box (Sat Mar 21 2009 - 21:04:13 CDT)
  • [AMBER] simulation in water-oil (or water/hydrophobic-solvent) box (Wed Mar 18 2009 - 23:27:54 CDT)
• Rausch, Felix
  • RE: [AMBER] Question (Fri Mar 27 2009 - 08:37:29 CDT)
  • RE: [AMBER] generalized distance restraint (Wed Mar 11 2009 - 02:39:05 CDT)
  • RE: [AMBER] generalized distance restraint (Mon Mar 09 2009 - 11:15:11 CDT)
  • [AMBER] generalized distance restraint (Mon Mar 09 2009 - 08:48:01 CDT)
• Ray Luo
  • RE: [AMBER] mm_pbsa problem (Mon Mar 30 2009 - 12:27:59 CDT)
  • Re: [AMBER] Fwd: AMBER: MM-PBSA in AMBER 10 (Thu Mar 26 2009 - 18:54:17 CDT)
  • Re: [AMBER] regarding tutorial on united atom force field (Tue Mar 17 2009 - 11:22:01 CDT)
  • RE: [AMBER] minimisation with igb=10 (Mon Mar 16 2009 - 11:34:21 CDT)
  • RE: [AMBER] Understanding the all.out file in the MM-PBSA output (Thu Mar 12 2009 - 11:29:22 CDT)
  • RE: [AMBER] PB Bomb from MM-PBSA of Amber 10 (Tue Mar 10 2009 - 11:28:15 CDT)
  • Re: [AMBER] unning MMPBSA in CHCl3 environment (Wed Mar 04 2009 - 11:15:55 CST)
• Remya S R
  • [AMBER] "rfree: End of file on unit 5" (Mon Mar 30 2009 - 01:21:53 CDT)
• Richard Tseng
  • Re: [AMBER] Problem with "Atom does not have a type" (Sun Mar 29 2009 - 14:20:37 CDT)
  • Re: [AMBER] Problem with "Atom does not have a type" (Fri Mar 27 2009 - 17:08:34 CDT)
  • Re: [AMBER] Problem with "Atom does not have a type" (Fri Mar 27 2009 - 16:51:32 CDT)
  • [AMBER] Problem with "Atom does not have a type" (Thu Mar 26 2009 - 18:17:19 CDT)
• Rilei Yu
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sat Mar 28 2009 - 23:00:00 CDT)
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sat Mar 28 2009 - 22:07:47 CDT)
  • Re: [AMBER] Load protein complex to Xleap (Combine) (Sat Mar 28 2009 - 20:17:21 CDT)
  • [AMBER] Load protein complex to Xleap (Combine) (Fri Mar 27 2009 - 21:30:04 CDT)
• Robert Duke
  • Re: [AMBER] PMEMD 9 on MVAPICH / Infiniband problem (Tue Mar 31 2009 - 07:21:22 CDT)
  • Re: [AMBER] problem using amoeba (Fri Mar 27 2009 - 07:22:31 CDT)
  • Re: [AMBER] How to reproduce a parallel PMEMD run? (Wed Mar 25 2009 - 18:45:49 CDT)
  • Re: [AMBER] pmemd compile error.... (Tue Mar 24 2009 - 07:19:45 CDT)
  • Re: [AMBER] pmemd compile error (Mon Mar 23 2009 - 16:03:45 CDT)
  • Re: [AMBER] IG not change at each restart of NPT simulation (Fri Mar 20 2009 - 08:58:18 CDT)
  • Re: [AMBER] pmemd compile error.... (Thu Mar 19 2009 - 10:25:04 CDT)
  • Re: [AMBER] pmemd compile error.... (Thu Mar 19 2009 - 10:24:29 CDT)
  • Re: [AMBER] IG not change at each restart of NPT simulation (Thu Mar 19 2009 - 09:05:35 CDT)
  • Re: [AMBER] IG not change at each restart of NPT simulation (Thu Mar 19 2009 - 08:24:02 CDT)
  • Re: [AMBER] Problem build pmemd (Wed Mar 18 2009 - 08:53:17 CDT)
  • Re: [AMBER] Problem running test.pmemd.AMOEBA (Fri Mar 13 2009 - 09:33:55 CDT)
  • Re: [AMBER] Problem build pmemd (Fri Mar 13 2009 - 07:40:09 CDT)
  • Re: [AMBER] PMEMD error message (Tue Mar 10 2009 - 10:39:38 CDT)
  • Re: [AMBER] PMEMD error message (Sun Mar 08 2009 - 15:47:16 CDT)
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 22:26:59 CST)
  • Re: [AMBER] binding free energy (Mon Mar 02 2009 - 07:22:22 CST)
• Ross Walker
  • RE: [AMBER] Maxwell-Boltzmann distribution and ig=-1 (Tue Mar 31 2009 - 22:52:42 CDT)
  • RE: [AMBER] BINDER/xaLeap (Mon Mar 30 2009 - 20:29:46 CDT)
  • RE: [AMBER] PMEMD 9 on MVAPICH / Infiniband problem (Fri Mar 27 2009 - 20:04:04 CDT)
  • RE: [AMBER] Help needed in amber parallel installation (Fri Mar 20 2009 - 10:40:30 CDT)
  • RE: [AMBER] QM/MM charges (Fri Mar 20 2009 - 10:37:34 CDT)
  • RE: [AMBER] Metal in MD simulation (Thu Mar 19 2009 - 10:12:24 CDT)
  • RE: [AMBER] IG not change at each restart of NPT simulation (Wed Mar 18 2009 - 18:07:07 CDT)
  • RE: [AMBER] protein protrudes from unit cell (Wed Mar 18 2009 - 10:39:23 CDT)
  • RE: [AMBER] error in constructing DNA from nucgen (Tue Mar 17 2009 - 14:31:16 CDT)
  • RE: [AMBER] temperature rises with igb=1 (Tue Mar 17 2009 - 11:53:04 CDT)
  • RE: [AMBER] please help me out (Sat Mar 14 2009 - 11:54:22 CDT)
  • RE: [AMBER] Seeking for suggestion related to plot the cluster out file (Wed Mar 11 2009 - 10:55:38 CDT)
  • RE: [AMBER] Seeking for suggestion related to plot the cluster out file (Wed Mar 11 2009 - 09:33:38 CDT)
  • RE: [AMBER] Changing Force Fields in "Midstream" (Mon Mar 09 2009 - 19:21:15 CDT)
  • RE: [AMBER] Particle-mesh Ewald method (Mon Mar 09 2009 - 14:53:52 CDT)
  • RE: [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 14:50:08 CDT)
  • RE: [AMBER] PMEMD error message (Sun Mar 08 2009 - 16:52:01 CDT)
  • RE: [AMBER] Fw:how to select force field (Sun Mar 08 2009 - 12:52:56 CDT)
  • RE: [AMBER] Help with torsions in parm99.dat file (Sat Mar 07 2009 - 00:32:23 CST)
  • RE: [AMBER] Problem with particle-mesh Ewald method (Sat Mar 07 2009 - 00:10:34 CST)
  • RE: [AMBER] Help with torsions in parm99.dat file (Fri Mar 06 2009 - 18:52:05 CST)
  • RE: [AMBER] Thermodynamic Intergration problem (Wed Mar 04 2009 - 10:45:24 CST)
  • RE: [AMBER] hydrogen bond (Wed Mar 04 2009 - 10:39:49 CST)
  • RE: [AMBER] Compilation and qmmm_div (Wed Mar 04 2009 - 10:36:07 CST)
  • RE: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 19:33:58 CST)
  • RE: [AMBER] How to restart the umbrella sampling jobs? (Tue Mar 03 2009 - 10:00:04 CST)
  • RE: [AMBER] assigning velocities to each atom without heating the system (Mon Mar 02 2009 - 14:23:22 CST)
  • RE: [AMBER] binding free energy (Mon Mar 02 2009 - 14:16:55 CST)
  • RE: [AMBER] binding free energy (Sun Mar 01 2009 - 11:29:35 CST)
• rpaduri_at_chem.wayne.edu
  • Re: [AMBER] please help me out (Thu Mar 12 2009 - 11:37:09 CDT)
• Ryan Pavlovicz
  • [AMBER] sulfotyrosine parameters (Tue Mar 10 2009 - 10:05:59 CDT)
• S.Sundar Raman
  • Re: [AMBER] Seeking for suggestion related to plot the cluster out file (Wed Mar 11 2009 - 11:07:25 CDT)
  • Re: [AMBER] Seeking for suggestion related to plot the cluster out file (Wed Mar 11 2009 - 09:57:40 CDT)
  • [AMBER] Seeking for suggestion related to plot the cluster out file (Wed Mar 11 2009 - 07:44:17 CDT)
• SAFAK OZHAN
  • [AMBER] unning MMPBSA in CHCl3 environment (Wed Mar 04 2009 - 05:55:52 CST)
• Sampath Koppole
  • Re: [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 09:39:38 CDT)
  • Re: [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 09:06:23 CDT)
  • [AMBER] Restraint Mask length restriction !! (Mon Mar 09 2009 - 08:32:35 CDT)
• Sasha Buzko
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Wed Mar 04 2009 - 11:58:09 CST)
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 20:55:56 CST)
  • Re: [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 18:26:44 CST)
  • [AMBER] A good way to use an Amber force field with NAMD? (Tue Mar 03 2009 - 15:37:29 CST)
• Scott Brozell
  • Re: [AMBER] to understand multiplicity in antechamber (Fri Mar 13 2009 - 14:05:06 CDT)
  • Re: [AMBER] NAB md function prints strange output (Thu Mar 12 2009 - 16:04:15 CDT)
• SENTHIL KUMAR
  • Re: [AMBER] High RMSD for DNA: A to B transition study (Fri Mar 13 2009 - 01:36:43 CDT)
• Siang Yip
  • [AMBER] How to reproduce a parallel PMEMD run? (Wed Mar 25 2009 - 17:33:56 CDT)
• Siddharth Rastogi
  • [AMBER] how to convert secstruct output file into plot or pictorial representation (Tue Mar 31 2009 - 05:56:37 CDT)
• steinbrt_at_rci.rutgers.edu
  • Re: [AMBER] Thermodynamic Integration at higher values of clambda using AMBER 9 (Thu Mar 12 2009 - 19:37:08 CDT)
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 13:56:15 CDT)
  • Re: [AMBER] wrong estimation of hydrogen velocities when using SHAKE? (Wed Mar 11 2009 - 12:45:56 CDT)
  • Re: [AMBER] Problem with particle-mesh Ewald method (Fri Mar 06 2009 - 21:42:26 CST)
• sudipta
  • Re: [AMBER] CCL4 simulation (Wed Mar 18 2009 - 02:47:48 CDT)
  • [AMBER] CCL4 simulation (Tue Mar 17 2009 - 13:18:07 CDT)
• Supat Jiranusornkul
  • [AMBER] Amber 10 and core i7 (Thu Mar 26 2009 - 04:13:10 CDT)
• sushobhan_at_iiar.res.in
  • [AMBER] Help needed in amber parallel installation (Fri Mar 20 2009 - 01:39:36 CDT)
• Taufik Al-Sarraj
  • Re: [AMBER] ambmol2? (Tue Mar 31 2009 - 21:15:00 CDT)
  • [AMBER] ambmol2? (Tue Mar 31 2009 - 17:28:51 CDT)
  • [AMBER] BINDER/xaLeap (Mon Mar 30 2009 - 20:00:10 CDT)
  • Re: [AMBER] mol2 - pdb conversion (Wed Mar 18 2009 - 14:20:54 CDT)
  • [AMBER] mol2 - pdb conversion (Mon Mar 16 2009 - 16:38:09 CDT)
  • [AMBER] Re: join two units in amber9 or amber10 (Mon Mar 16 2009 - 16:11:30 CDT)
  • Re: [AMBER] solvent and counter ions (Thu Mar 05 2009 - 17:16:24 CST)
  • [AMBER] solvent and counter ions (Wed Mar 04 2009 - 15:36:36 CST)
• taufik.alsarraj_at_utoronto.ca
  • RE: [AMBER] BINDER/xaLeap (Mon Mar 30 2009 - 21:16:32 CDT)
• Thomas Cheatham
  • Re: [AMBER] problem in rmsd (Mon Mar 09 2009 - 22:48:53 CDT)
  • Re: [AMBER] problem in rmsd (Mon Mar 09 2009 - 22:25:18 CDT)
  • Re: [AMBER] nmoldyn2 with Amber (Sun Mar 08 2009 - 15:10:17 CDT)
  • Re: [AMBER] analysis on Amber (Sat Mar 07 2009 - 12:18:58 CST)
  • Re: [AMBER] DNA simulation: Problem with RMSD (Wed Mar 04 2009 - 22:04:53 CST)
• Thomas Cheatham III
  • Re: [AMBER] solvent and counter ions (Wed Mar 04 2009 - 15:49:35 CST)
  • Re: [AMBER] What is the default position of the partial charges? (Wed Mar 04 2009 - 15:44:20 CST)
  • Re: [AMBER] H-Bonds (Wed Mar 04 2009 - 15:00:30 CST)
  • Re: [AMBER] Amber: water-water hydrogen bonding analysis on a subset of waters in a trajectory (Wed Mar 04 2009 - 13:59:30 CST)
• Urszula Uciechowska
  • [AMBER] lipid bliayers (Wed Mar 18 2009 - 08:00:32 CDT)
• waleed zalloum
  • [AMBER] Pseudoatoms (Mon Mar 02 2009 - 06:12:33 CST)
• Wei Huang
  • RE: [AMBER] about mm-pbsa (Mon Mar 16 2009 - 10:17:30 CDT)
  • RE: [AMBER] PB Bomb from MM-PBSA of Amber 10 (Tue Mar 10 2009 - 11:20:29 CDT)
  • RE: [AMBER] PB Bomb from MM-PBSA of Amber 10 (Tue Mar 10 2009 - 05:30:50 CDT)
  • RE: [AMBER] Question about NAB module (Sun Mar 01 2009 - 08:57:50 CST)
• Wei Zhang
  • Re: [AMBER] Problem reading PDB file into XLEAP - SLEAP (Sat Mar 28 2009 - 18:29:20 CDT)
  • Re: [AMBER] leap and chirality (Tue Mar 24 2009 - 07:55:47 CDT)
  • Re: [AMBER] leap and chirality (Mon Mar 23 2009 - 13:36:54 CDT)
  • Re: [AMBER] sleap and check (Wed Mar 18 2009 - 09:40:57 CDT)
  • Re: [AMBER] convert .mol2 file to .pdb with atomtype definitions (Tue Mar 17 2009 - 11:33:27 CDT)
  • Re: [AMBER] Changing Force Fields in "Midstream" (Wed Mar 11 2009 - 16:42:52 CDT)
  • Re: [AMBER] Help with torsions in parm99.dat file (Mon Mar 09 2009 - 09:38:56 CDT)
  • Re: [AMBER] Solvate Box od amoeba water (Fri Mar 06 2009 - 08:20:09 CST)
• wfli_at_biophy.nju.edu.cn
  • [AMBER] question about pair wise per-residue energy decomposition; idecomp=3 (Wed Mar 25 2009 - 04:48:29 CDT)
• Xiaohui Jiang [Contractor]
  • RE: [AMBER] Thermodynamic Intergration problem (Wed Mar 04 2009 - 11:00:06 CST)
  • [AMBER] Thermodynamic Intergration problem (Wed Mar 04 2009 - 09:36:14 CST)
• xiaonan zhang
  • Re: [AMBER] addles segmentation fault (Mon Mar 09 2009 - 08:08:47 CDT)
• Yiannis Georgiadis
  • Re: [AMBER] pmemd compile error.... (Tue Mar 24 2009 - 15:10:27 CDT)
  • Re: [AMBER] Problem build pmemd (Wed Mar 18 2009 - 19:57:44 CDT)
  • [AMBER] Problem build pmemd (Fri Mar 13 2009 - 19:14:49 CDT)
• Youn Kyeung Lee
  • [AMBER] [about advanced tutorial 1] How could I get conformations for gaussian that have minimum energy? (Thu Mar 19 2009 - 02:31:16 CDT)
• Yunjie Zhao
  • [AMBER] Particle-mesh Ewald method (Mon Mar 09 2009 - 04:46:15 CDT)
  • [AMBER] Problem with particle-mesh Ewald method (Fri Mar 06 2009 - 21:29:02 CST)
• zeinab bagheri
  • [AMBER] polarizable force field and solvent (Thu Mar 12 2009 - 00:40:33 CDT)
  • [AMBER] polarizable force field and solvent (Wed Mar 11 2009 - 17:02:06 CDT)
• zgong.hust
  • [AMBER] errors about install amber9 on MAC OS (Wed Mar 18 2009 - 03:41:19 CDT)
• Zhu, Yong-Liang
  • RE: [AMBER] PB Bomb from MM-PBSA of Amber 10 (Tue Mar 10 2009 - 11:06:43 CDT)
  • [AMBER] PB Bomb from MM-PBSA of Amber 10 (Mon Mar 09 2009 - 23:30:33 CDT)
• ÀÌÀ±°æ
  • Re: Re: [AMBER] How can I use the charge I calculated (using mol2 file) ? (Mon Mar 02 2009 - 19:39:37 CST)
  • [AMBER] How can I use the charge I calculated (using mol2 file) ? (Mon Mar 02 2009 - 07:27:39 CST)
• ÁÎÇ໪
  • [AMBER] about MD simulation (Wed Mar 11 2009 - 04:19:28 CDT)
• Å·ÑôµÂ·½
  • RE: [AMBER] Antechamber problem (Fri Mar 27 2009 - 19:55:03 CDT)
  • [AMBER] Antechamber problem (Thu Mar 26 2009 - 23:44:24 CDT)
• å»–é�’å�Ž
  • [AMBER] about mm-pbsa (Mon Mar 23 2009 - 04:10:29 CDT)
  • [AMBER] About mm-pbsa (Thu Mar 19 2009 - 01:48:21 CDT)
  • [AMBER] About error of "vertex atom mismatch" (Wed Mar 18 2009 - 03:30:29 CDT)
  • [AMBER] about mm-pbsa (Mon Mar 16 2009 - 10:02:49 CDT)
  • [AMBER] about mm-pbsa (Mon Mar 16 2009 - 09:59:40 CDT)
  • 回å¤�： [AMBER] about MD simulation (Wed Mar 11 2009 - 11:25:05 CDT)

Last message date: Mon Nov 23 2009 - 13:25:08 CST
Archived on: Mon Nov 23 2009 - 13:25:11 CST