Amber Archive Feb 2010 by author
463 messages
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Starting
Mon Feb 01 2010 - 04:00:02 PST,
Ending
Sun Feb 28 2010 - 17:00:04 PST
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aapeters.ncsu.edu
Re: [AMBER] 10_12 potential
(Tue Feb 09 2010 - 06:38:42 PST)
Re: [AMBER] 10_12 potential
(Mon Feb 08 2010 - 12:40:11 PST)
Re: [AMBER] 10_12 potential
(Mon Feb 08 2010 - 08:54:09 PST)
[AMBER] [Fwd: 10_12 potential]
(Mon Feb 08 2010 - 03:01:35 PST)
[AMBER] 10_12 potential
(Mon Feb 08 2010 - 00:14:39 PST)
Adrian Roitberg
Re: [AMBER] QM/MM new parameters
(Mon Feb 08 2010 - 15:40:10 PST)
Alan
Re: [AMBER] chamber - psf/pdb from VMD
(Fri Feb 19 2010 - 00:48:31 PST)
Re: [AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Fri Feb 19 2010 - 00:42:08 PST)
Re: [AMBER] sleap crash with single water molecule and amoeba
(Tue Feb 16 2010 - 04:17:47 PST)
albert albert
[AMBER] Installation error of amber10 after compile Ambertools1.3
(Sat Feb 27 2010 - 12:37:51 PST)
Alex Rodriguez
[AMBER] Problems with PMEMD compilation
(Fri Feb 12 2010 - 02:45:09 PST)
Andrew Voronkov
[AMBER] how is better to measure ligand drift against protein in Amber
(Mon Feb 15 2010 - 06:21:02 PST)
Anna Dejardin
Re: [AMBER] AmberTools1.3 installation error
(Wed Feb 24 2010 - 02:38:26 PST)
Re: [AMBER] AmberTools1.3 installation error
(Tue Feb 23 2010 - 05:45:35 PST)
[AMBER] AmberTools1.3 installation error
(Tue Feb 23 2010 - 03:23:54 PST)
Anselm Horn
Re: [AMBER] tleap command for disulfide bonds: for chain A and Chain B ???
(Wed Feb 03 2010 - 01:17:40 PST)
Arvind Marathe
Re: [AMBER] Binding energy calculation using MMPBSA.py: Sander from amber9 complains "mdfil: Error unknown flag: -y"
(Tue Feb 16 2010 - 01:26:14 PST)
[AMBER] Binding energy calculation using MMPBSA.py: Sander from amber9 complains "mdfil: Error unknown flag: -y"
(Mon Feb 15 2010 - 06:30:04 PST)
Re: [AMBER] Problem with specifying mask for MMPBSA.py script
(Fri Feb 12 2010 - 09:54:45 PST)
[AMBER] Problem with specifying mask for MMPBSA.py script
(Fri Feb 12 2010 - 07:09:03 PST)
Asfa Ali
[AMBER] Regarding restraints during minimisation stage 1 in explicit solvent
(Sun Feb 07 2010 - 21:23:12 PST)
Atro Tossavainen
Re: [AMBER] AmberTools1.3 installation error
(Tue Feb 23 2010 - 05:36:51 PST)
Aurum Bai
[AMBER] Not runing the Nmode!
(Thu Feb 25 2010 - 07:02:18 PST)
[AMBER] About the err of antechamber's tutorial!
(Fri Feb 05 2010 - 07:07:49 PST)
[AMBER] What is the ".ac" files as input of respgen and how to generate it?
(Thu Feb 04 2010 - 21:42:37 PST)
[AMBER] How to construct the methyl-animo acid?
(Tue Feb 02 2010 - 01:17:02 PST)
Balazs Jojart
Re: [AMBER] chamber - psf/pdb from VMD
(Thu Feb 18 2010 - 23:27:48 PST)
[AMBER] chamber - psf/pdb from VMD
(Thu Feb 18 2010 - 13:45:18 PST)
Barbault Florent
Re: [AMBER] Protein + Bilayer Simulations: Role of salt
(Sun Feb 28 2010 - 14:16:07 PST)
Re: [AMBER] swiss cheese water shell
(Sat Feb 27 2010 - 03:48:29 PST)
bbalta.itu.edu.tr
[AMBER] serial compilation of pmemd
(Thu Feb 25 2010 - 07:45:00 PST)
Beale, John
RE: [AMBER] Script
(Thu Feb 18 2010 - 05:15:59 PST)
RE: [AMBER] Script
(Thu Feb 18 2010 - 04:47:21 PST)
RE: [AMBER] Script
(Thu Feb 18 2010 - 04:42:50 PST)
[AMBER] Script
(Thu Feb 18 2010 - 04:35:26 PST)
[AMBER] plotting RMS vs. residue number
(Mon Feb 01 2010 - 11:15:39 PST)
[AMBER] errors in leap
(Mon Feb 01 2010 - 07:09:06 PST)
Ben Roberts
[AMBER] Solvating a protein - tleap works where sleap does not?
(Mon Feb 01 2010 - 07:10:56 PST)
bharat lakhani
[AMBER] help on minimization
(Fri Feb 19 2010 - 05:51:29 PST)
[AMBER] help on minimization
(Fri Feb 19 2010 - 05:44:18 PST)
[AMBER] enquiry regarding distance-dependent dielectric constant minimization
(Mon Feb 15 2010 - 23:35:44 PST)
Bill Ross
Re: [AMBER] Simple question on EM again
(Thu Feb 25 2010 - 20:21:46 PST)
Re: [AMBER] AmberTools1.3 installation error
(Wed Feb 24 2010 - 10:18:52 PST)
Re: [AMBER] AmberTools1.3 installation error
(Wed Feb 24 2010 - 09:58:16 PST)
Re: [AMBER] How to unsolvate solvated protein?
(Tue Feb 23 2010 - 21:34:52 PST)
Re: [AMBER] AmberTools1.3 installation error
(Tue Feb 23 2010 - 10:06:01 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 11:56:53 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 10:43:31 PST)
Re: [AMBER] VMD and Amber coordinates
(Tue Feb 16 2010 - 13:19:35 PST)
Re: [AMBER] limit of joining residues
(Mon Feb 15 2010 - 14:10:00 PST)
Re: [AMBER] limit of joining residues
(Sun Feb 14 2010 - 12:10:17 PST)
Re: [AMBER] limit of joining residues
(Sat Feb 13 2010 - 11:22:33 PST)
Re: [AMBER] compiling amber on intel xeon 5500 series cpu
(Fri Feb 12 2010 - 14:22:56 PST)
Re: [AMBER] compiling amber on intel xeon 5500 series cpu
(Fri Feb 12 2010 - 12:26:17 PST)
Re: [AMBER] Small Molecule Parameters
(Thu Feb 11 2010 - 11:05:32 PST)
Re: [AMBER] limit of joining residues
(Thu Feb 11 2010 - 09:46:04 PST)
Re: [AMBER] limit of joining residues
(Wed Feb 10 2010 - 10:00:43 PST)
Re: [AMBER] Problem in creating cubic water box
(Mon Feb 08 2010 - 10:21:47 PST)
Re: [AMBER] limit of joining residues
(Mon Feb 08 2010 - 09:32:57 PST)
Re: [AMBER] positional restraints of different strengths
(Fri Feb 05 2010 - 16:51:16 PST)
Re: [AMBER] adding atom types to leapfrc
(Wed Feb 03 2010 - 11:11:56 PST)
Re: [AMBER] errors in leap
(Mon Feb 01 2010 - 09:24:50 PST)
Billy Miller III
Re: [AMBER] Not runing the Nmode!
(Thu Feb 25 2010 - 07:52:25 PST)
Re: [AMBER] mm-pbsa receptor and ligand masking
(Fri Feb 19 2010 - 06:32:24 PST)
Re: [AMBER] mm-pbsa receptor and ligand masking
(Thu Feb 18 2010 - 13:32:58 PST)
Re: [AMBER] help
(Thu Feb 18 2010 - 05:58:04 PST)
Re: [AMBER] mmpbsa.py ion radius
(Sat Feb 13 2010 - 18:25:08 PST)
Re: [AMBER] Problem with specifying mask for MMPBSA.py script
(Fri Feb 12 2010 - 07:50:44 PST)
Re: [AMBER] MMPBSA
(Mon Feb 01 2010 - 04:24:03 PST)
Carlos Simmerling
Re: [AMBER] NMR complex and vlimit exceeded
(Thu Feb 25 2010 - 13:46:29 PST)
Re: [AMBER] Simple question on EM again
(Thu Feb 25 2010 - 05:12:00 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Wed Feb 24 2010 - 06:28:17 PST)
Re: [AMBER] helicity of a peptide
(Wed Feb 24 2010 - 04:45:21 PST)
Re: [AMBER] Final PDB after Energy minimization
(Tue Feb 23 2010 - 19:39:15 PST)
Re: [AMBER] trouble with cooling down the system
(Tue Feb 23 2010 - 03:10:16 PST)
Re: [AMBER] trouble with cooling down a system
(Tue Feb 23 2010 - 03:08:18 PST)
Re: [AMBER] Script
(Sun Feb 21 2010 - 06:15:51 PST)
Re: [AMBER] makeCHIR_RST and LES
(Fri Feb 19 2010 - 06:51:37 PST)
Re: [AMBER] Script
(Thu Feb 18 2010 - 04:59:03 PST)
Re: [AMBER] Script
(Thu Feb 18 2010 - 04:40:57 PST)
Re: [AMBER] Regarding restraints during minimisation stage 1 in explicit solvent
(Mon Feb 08 2010 - 03:39:15 PST)
Re: [AMBER] reimaging the trajectory
(Fri Feb 05 2010 - 03:15:00 PST)
Re: [AMBER] If this is normal for 3 or 4 sander.MPI jobs appearing on one node
(Tue Feb 02 2010 - 11:51:57 PST)
Re: [AMBER] interaction energy of single residue to its environment
(Mon Feb 01 2010 - 11:04:16 PST)
Re: [AMBER] Problem in setting parameters for non standard DG residue:O6-Methylguanine
(Mon Feb 01 2010 - 03:53:36 PST)
case
Re: [AMBER] Question about transition from AMBER6 to AMBER9
(Sat Feb 27 2010 - 08:06:58 PST)
Re: [AMBER] xmin_verbosity
(Sat Feb 27 2010 - 06:16:25 PST)
Re: [AMBER] Question about transition from AMBER6 to AMBER9
(Sat Feb 27 2010 - 06:08:14 PST)
Re: [AMBER] serial compilation of pmemd
(Thu Feb 25 2010 - 08:16:59 PST)
Re: [AMBER] use tleap through stdin
(Thu Feb 25 2010 - 06:31:16 PST)
Re: [AMBER] Query about xmin
(Thu Feb 25 2010 - 05:33:33 PST)
Re: [AMBER] AmberTools1.3 installation error
(Wed Feb 24 2010 - 11:35:43 PST)
Re: [AMBER] GUI Competition
(Wed Feb 24 2010 - 07:53:15 PST)
Re: [AMBER] AmberTools1.3 installation error
(Tue Feb 23 2010 - 05:01:37 PST)
Re: [AMBER] installation problem
(Tue Feb 23 2010 - 04:50:10 PST)
Re: [AMBER] Perturbed charges and types
(Mon Feb 22 2010 - 07:44:22 PST)
Re: [AMBER] enquire of NAB tutorial or any detailed introduction
(Sun Feb 21 2010 - 18:28:03 PST)
Re: [AMBER] Question about transition from AMBER6 to AMBER9
(Sat Feb 20 2010 - 19:35:00 PST)
Re: [AMBER] amoeba--Too many dipole_dipole interactions for allocated
(Thu Feb 18 2010 - 14:49:03 PST)
Re: [AMBER] amoeba--Too many dipole_dipole interactions for allocated
(Thu Feb 18 2010 - 08:43:51 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 08:27:55 PST)
Re: [AMBER] References of all force fields for citations
(Thu Feb 18 2010 - 06:21:33 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 06:07:47 PST)
Re: [AMBER] Virtual waters
(Wed Feb 17 2010 - 09:45:45 PST)
Re: [AMBER] sleap crash with single water molecule and amoeba
(Tue Feb 16 2010 - 09:19:04 PST)
Re: [AMBER] (no subject)
(Tue Feb 16 2010 - 04:34:33 PST)
Re: [AMBER] sleap crash with single water molecule and amoeba
(Mon Feb 15 2010 - 13:14:15 PST)
Re: [AMBER] strange behavior in QMMM simulation
(Sat Feb 13 2010 - 19:28:38 PST)
Re: [AMBER] Problem in creating cubic water box
(Tue Feb 09 2010 - 09:46:12 PST)
Re: [AMBER] 10_12 potential
(Mon Feb 08 2010 - 18:40:39 PST)
Re: [AMBER] 10_12 potential
(Mon Feb 08 2010 - 05:19:34 PST)
Re: [AMBER] positional restraints of different strengths
(Sat Feb 06 2010 - 08:53:38 PST)
Re: [AMBER] FW: Problem reading PDB residues in AmberTools-1.3
(Fri Feb 05 2010 - 10:44:41 PST)
Re: [AMBER] load pdb into xleap
(Fri Feb 05 2010 - 04:27:14 PST)
Re: [AMBER] loading parm7 and coords with tLeap?
(Thu Feb 04 2010 - 19:35:03 PST)
Re: [AMBER] Problem reading PDB residues in AmberTools-1.3
(Thu Feb 04 2010 - 19:28:36 PST)
Re: [AMBER] Amber11 vs Amber10
(Thu Feb 04 2010 - 11:20:16 PST)
Re: [AMBER] Addles and makeDIST_RST
(Wed Feb 03 2010 - 14:45:12 PST)
Re: [AMBER] Information regarding how to group atoms for ionic liquid
(Wed Feb 03 2010 - 10:40:30 PST)
Re: [AMBER] AMBER 9 parallel compilation problem on Mac OS X 10.6
(Wed Feb 03 2010 - 04:48:43 PST)
Re: [AMBER] tleap command for disulfide bonds: for chain A and Chain B ???
(Tue Feb 02 2010 - 20:32:11 PST)
Re: [AMBER] deuterate protein atoms by editing the topology file
(Tue Feb 02 2010 - 13:31:41 PST)
Re: [AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 13:28:59 PST)
Re: [AMBER] Test log
(Mon Feb 01 2010 - 10:49:22 PST)
Re: [AMBER] errors in leap
(Mon Feb 01 2010 - 08:19:13 PST)
Re: [AMBER] Problem in setting parameters for non standard DG residue:O6-Methylguanine
(Mon Feb 01 2010 - 08:04:51 PST)
Christine Baranski
[AMBER] Instaltion parallel amber on macbook pro
(Sun Feb 28 2010 - 04:15:00 PST)
Cojocaru,Vlad
RE: [AMBER] About RAMD
(Thu Feb 11 2010 - 13:18:28 PST)
CR Gregor
[AMBER] Charges of ASN in all_aminoct03
(Mon Feb 08 2010 - 05:27:20 PST)
David A. Case
Re: [AMBER] enquiry regarding distance-dependent dielectric constant minimization
(Thu Feb 18 2010 - 04:59:22 PST)
Re: [AMBER] Virtual waters
(Thu Feb 18 2010 - 04:37:35 PST)
David Watson
Re: [AMBER] About the err of antechamber's tutorial!
(Fri Feb 05 2010 - 08:00:03 PST)
Re: [AMBER] About the err of antechamber's tutorial!
(Fri Feb 05 2010 - 07:25:06 PST)
Re: [AMBER] AMBER 9 parallel compilation problem on Mac OS X 10.6
(Wed Feb 03 2010 - 06:21:11 PST)
Dean Cuebas
Re: [AMBER] Energy Minimization of a Complex
(Sun Feb 07 2010 - 17:53:49 PST)
dhilip kumar ramalingam
[AMBER] Information regarding how to group atoms for ionic liquid
(Wed Feb 03 2010 - 01:10:31 PST)
Dian Jiao
Re: [AMBER] amoeba--Too many dipole_dipole interactions for allocated
(Thu Feb 18 2010 - 12:03:27 PST)
[AMBER] amoeba--Too many dipole_dipole interactions for allocated
(Thu Feb 18 2010 - 08:25:45 PST)
[AMBER] RDF with ptraj
(Mon Feb 15 2010 - 12:45:00 PST)
Re: [AMBER] mmpbsa.py ion radius
(Mon Feb 15 2010 - 10:38:16 PST)
Re: [AMBER] PMEMD compiling errors
(Thu Feb 11 2010 - 19:10:46 PST)
[AMBER] PMEMD compiling errors
(Thu Feb 11 2010 - 15:56:31 PST)
Dmitry Mukha
Re: [AMBER] Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Wed Feb 10 2010 - 00:17:43 PST)
Dwight McGee
Re: [AMBER] mm_pbsa statistics problem
(Fri Feb 12 2010 - 07:28:55 PST)
Re: [AMBER] mm_pbsa statistics problem
(Thu Feb 11 2010 - 07:09:14 PST)
dxli75
[AMBER] MPICH2 and AMBER9
(Mon Feb 22 2010 - 12:37:25 PST)
E.M.
[AMBER] PARMSCAN
(Tue Feb 16 2010 - 20:08:45 PST)
[AMBER] PARMSCAN
(Mon Feb 15 2010 - 19:58:15 PST)
Emmanuel Baribefe Naziga
Re: [AMBER] Charge protocol for OLP, HYP
(Sat Feb 27 2010 - 16:29:55 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Fri Feb 26 2010 - 08:28:22 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Thu Feb 25 2010 - 09:33:32 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Wed Feb 24 2010 - 07:36:14 PST)
[AMBER] Charge protocol for OLP, HYP
(Tue Feb 23 2010 - 17:52:43 PST)
eric henon
Re: [AMBER] relaxed PES
(Wed Feb 17 2010 - 13:19:47 PST)
[AMBER] relaxed PES
(Wed Feb 17 2010 - 11:58:50 PST)
ET
[AMBER] Reducing RMS errors in TI calculation
(Tue Feb 09 2010 - 13:02:48 PST)
Fernando Martín García
Re: [AMBER] Virtual waters
(Thu Feb 18 2010 - 05:35:45 PST)
Re: [AMBER] Virtual waters
(Wed Feb 17 2010 - 23:39:09 PST)
[AMBER] Virtual waters
(Wed Feb 17 2010 - 02:59:05 PST)
Francesco Pietra
Re: [AMBER] About RAMD
(Thu Feb 11 2010 - 08:57:32 PST)
[AMBER] antechamber with carbon monoxide
(Sat Feb 06 2010 - 02:52:54 PST)
Re: [AMBER] adding atom types to leapfrc
(Thu Feb 04 2010 - 02:50:15 PST)
Re: [AMBER] adding atom types to leapfrc
(Thu Feb 04 2010 - 02:50:41 PST)
[AMBER] adding atom types to leapfrc
(Wed Feb 03 2010 - 10:53:00 PST)
[AMBER] parameters for heme-CO
(Tue Feb 02 2010 - 10:51:12 PST)
FyD
Re: [AMBER] Charge protocol for OLP, HYP
(Sat Feb 27 2010 - 23:27:48 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Sat Feb 27 2010 - 23:24:44 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Sat Feb 27 2010 - 09:10:22 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Wed Feb 24 2010 - 06:20:29 PST)
Re: [AMBER] deriving charges for use with gaff
(Sat Feb 20 2010 - 05:39:30 PST)
Re: [AMBER] ccl4 simulation
(Wed Feb 17 2010 - 15:10:30 PST)
Re: [AMBER] Glycerol Models
(Wed Feb 17 2010 - 15:02:07 PST)
Re: [AMBER] how to generate acetone box
(Wed Feb 17 2010 - 14:47:03 PST)
Re: [AMBER] Glycerol Models
(Sat Feb 13 2010 - 00:45:16 PST)
Re: [AMBER] limit of joining residues
(Sat Feb 13 2010 - 00:37:50 PST)
Re: [AMBER] limit of joining residues
(Thu Feb 11 2010 - 02:47:34 PST)
Re: [AMBER] Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Tue Feb 09 2010 - 22:41:34 PST)
Re: [AMBER] Charges of ASN in all_aminoct03
(Mon Feb 08 2010 - 08:55:04 PST)
Re: [AMBER] About the err of antechamber's tutorial!
(Fri Feb 05 2010 - 09:27:27 PST)
Re: [AMBER] parameters for heme-CO
(Wed Feb 03 2010 - 06:38:07 PST)
Re: [AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 13:19:20 PST)
Re: [AMBER] How to construct the methyl-animo acid?
(Tue Feb 02 2010 - 03:24:24 PST)
Re: [AMBER] Converting Gaussian output format to the RESP input format
(Mon Feb 01 2010 - 11:25:38 PST)
Gabriel Rocklin
Re: [AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Fri Feb 19 2010 - 15:51:24 PST)
[AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Thu Feb 18 2010 - 15:21:27 PST)
[AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Mon Feb 15 2010 - 15:21:45 PST)
[AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Wed Feb 10 2010 - 11:23:24 PST)
[AMBER] Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Mon Feb 08 2010 - 23:33:17 PST)
Giuseppe De Marco
[AMBER] plumed and sander.MPI
(Fri Feb 12 2010 - 10:07:08 PST)
gokul algates
[AMBER] Amber 8 sander.f file, force.f file
(Fri Feb 19 2010 - 21:14:34 PST)
[AMBER] About RAMD
(Thu Feb 11 2010 - 06:27:32 PST)
gunajyoti das
[AMBER] xmin_verbosity
(Sat Feb 27 2010 - 05:40:59 PST)
[AMBER] Query about LMOD
(Thu Feb 25 2010 - 03:53:31 PST)
[AMBER] Query about xmin
(Wed Feb 24 2010 - 23:58:14 PST)
[AMBER] installation problem
(Tue Feb 23 2010 - 00:51:52 PST)
Hannes Kopitz
Re: [AMBER] TI calculation of absolute dG with restraint and energy decomposition
(Fri Feb 19 2010 - 07:33:47 PST)
Hannes Loeffler
Re: [AMBER] ptraj, imaging for NAMD generated dcd files, Error in tokenize
(Thu Feb 25 2010 - 04:55:08 PST)
hannes.loeffler.stfc.ac.uk
RE: [AMBER] msd calculation using ptraj diffusion
(Sat Feb 27 2010 - 05:18:59 PST)
RE: [AMBER] msd calculation using ptraj diffusion
(Sat Feb 27 2010 - 01:22:20 PST)
Harald Lanig
[AMBER] New Bursaries and Plenary Speaker - Molecular Modeling Workshop 2010 in Erlangen, Germany
(Thu Feb 18 2010 - 02:39:24 PST)
Hiromasa WATANABE
Re: [AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Thu Feb 25 2010 - 22:40:26 PST)
[AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Thu Feb 25 2010 - 19:05:41 PST)
Hopkins, Robert
[AMBER] Imaging difficulty
(Mon Feb 08 2010 - 12:39:59 PST)
RE: [Possible Spam: 10%] Re: [AMBER] FW: Problem reading PDB residues in AmberTools-1.3
(Fri Feb 05 2010 - 10:51:25 PST)
[AMBER] FW: Problem reading PDB residues in AmberTools-1.3
(Fri Feb 05 2010 - 07:37:09 PST)
[AMBER] Problem reading PDB residues in AmberTools-1.3
(Thu Feb 04 2010 - 18:10:04 PST)
Hugh Heldenbrand
[AMBER] softcore TI lambda values of 0 and 1
(Fri Feb 05 2010 - 12:49:05 PST)
Hyma vathi
[AMBER] Problem in MM-PBSA
(Thu Feb 25 2010 - 01:54:48 PST)
Ilyas Yildirim
Re: [AMBER] Fitting Torsional parameters
(Wed Feb 17 2010 - 17:36:07 PST)
Re: [AMBER] Fitting Torsional parameters
(Mon Feb 15 2010 - 08:07:05 PST)
Re: [AMBER] question about how to fix the number of water molecule
(Mon Feb 15 2010 - 05:40:14 PST)
imtiaz shafiq
[AMBER] Small Molecule Parameters
(Thu Feb 11 2010 - 10:44:18 PST)
Re: [AMBER] Converting Gaussian output format to the RESP input format
(Tue Feb 02 2010 - 00:31:36 PST)
Re: [AMBER] Converting Gaussian output format to the RESP input format
(Mon Feb 01 2010 - 23:53:06 PST)
[AMBER] Converting Gaussian output format to the RESP input format
(Mon Feb 01 2010 - 07:44:45 PST)
InSuk Joung
Re: [AMBER] VMD and Amber coordinates
(Tue Feb 16 2010 - 10:52:12 PST)
Ivan Gladich
Re: [AMBER] Problem with translate restrt file
(Sun Feb 28 2010 - 14:17:45 PST)
[AMBER] Problem with translate restrt file
(Sun Feb 28 2010 - 11:00:06 PST)
jacky zhao
Re: [AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Sat Feb 27 2010 - 00:42:45 PST)
Jagdeesh C
Re: [AMBER] MM PBSA problem
(Sat Feb 13 2010 - 09:53:32 PST)
[AMBER] MM PBSA problem
(Sat Feb 13 2010 - 08:49:19 PST)
Jason Swails
Re: [AMBER] Protein + Bilayer Simulations: Role of salt
(Sun Feb 28 2010 - 16:40:37 PST)
Re: [AMBER] Problem with translate restrt file
(Sun Feb 28 2010 - 16:32:12 PST)
Re: [AMBER] Problem with translate restrt file
(Sun Feb 28 2010 - 11:07:53 PST)
Re: [AMBER] Installation error of amber10 after compile Ambertools1.3
(Sun Feb 28 2010 - 09:07:11 PST)
Re: [AMBER] Instaltion parallel amber on macbook pro
(Sun Feb 28 2010 - 09:01:51 PST)
Re: [AMBER] Installation error of amber10 after compile Ambertools1.3
(Sat Feb 27 2010 - 12:46:48 PST)
Re: [AMBER] Simple question on EM again
(Thu Feb 25 2010 - 20:31:30 PST)
Re: [AMBER] Simple question on EM again
(Thu Feb 25 2010 - 19:54:45 PST)
[AMBER] Re: SOS: make CYX bond using xleap
(Thu Feb 25 2010 - 18:34:53 PST)
Re: [AMBER] Problem in MM-PBSA
(Thu Feb 25 2010 - 08:08:34 PST)
Re: [AMBER] Simple question on EM again
(Wed Feb 24 2010 - 22:56:32 PST)
Re: [AMBER] Simple question on EM
(Wed Feb 24 2010 - 20:06:40 PST)
Re: [AMBER] AmberTools1.3 installation error
(Wed Feb 24 2010 - 09:30:40 PST)
Re: [AMBER] design of peptides to stabilize proteins
(Wed Feb 24 2010 - 09:27:47 PST)
Re: [AMBER] How to unsolvate solvated protein?
(Tue Feb 23 2010 - 21:51:47 PST)
Re: [AMBER] parallel test error
(Tue Feb 23 2010 - 07:23:49 PST)
Re: [AMBER] ptraj.MPI issue with "uninterruptible sleep"
(Mon Feb 22 2010 - 16:38:29 PST)
Re: [AMBER] MPICH2 and AMBER9
(Mon Feb 22 2010 - 12:43:31 PST)
Re: [AMBER] mm-pbsa receptor and ligand masking
(Thu Feb 18 2010 - 16:17:42 PST)
Re: [AMBER] mm-pbsa receptor and ligand masking
(Thu Feb 18 2010 - 13:35:31 PST)
Re: [AMBER] relaxed PES
(Wed Feb 17 2010 - 12:05:06 PST)
Re: [AMBER] sander compilation
(Tue Feb 16 2010 - 17:59:45 PST)
Re: [AMBER] mmpbsa.py ion radius
(Mon Feb 15 2010 - 10:58:08 PST)
Re: [AMBER] mmpbsa.py ion radius
(Mon Feb 15 2010 - 10:29:27 PST)
Re: [AMBER] Fitting Torsional parameters
(Mon Feb 15 2010 - 09:42:31 PST)
Re: [AMBER] Binding energy calculation using MMPBSA.py: Sander from amber9 complains "mdfil: Error unknown flag: -y"
(Mon Feb 15 2010 - 06:40:22 PST)
Re: [AMBER] plumed and sander.MPI
(Fri Feb 12 2010 - 15:26:37 PST)
Re: [AMBER] PMEMD compiling errors
(Thu Feb 11 2010 - 18:10:34 PST)
Re: [AMBER] MMPBSA.py error
(Wed Feb 10 2010 - 16:57:52 PST)
Re: [AMBER] problem of chenge of the water box during equilibration
(Wed Feb 10 2010 - 08:54:07 PST)
Re: [AMBER] Problem in Ptraj
(Fri Feb 05 2010 - 23:22:19 PST)
Re: [AMBER] AMBER10 build - failing "jar" and "jar_multi" tests
(Fri Feb 05 2010 - 07:02:57 PST)
Re: [AMBER] TEST_FAILURES
(Thu Feb 04 2010 - 07:41:54 PST)
Re: [AMBER] adding atom types to leapfrc
(Thu Feb 04 2010 - 07:34:05 PST)
Re: [AMBER] parmchk lists multiple values of the same parameter
(Wed Feb 03 2010 - 10:05:05 PST)
Re: [AMBER] tleap command for disulfide bonds: for chain A and Chain B ???
(Tue Feb 02 2010 - 23:50:16 PST)
Re: [AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 12:30:21 PST)
Re: [AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 11:41:19 PST)
Re: [AMBER] mmpbsa error: No data for 0+2 MM BOND 200
(Mon Feb 01 2010 - 20:16:20 PST)
Re: [AMBER] Test log
(Mon Feb 01 2010 - 13:24:43 PST)
Re: [AMBER] Converting Gaussian output format to the RESP input format
(Mon Feb 01 2010 - 07:54:59 PST)
Re: [AMBER] errors in leap
(Mon Feb 01 2010 - 07:32:13 PST)
Re: [AMBER] Problem in setting parameters for non standard DG residue:O6-Methylguanine
(Mon Feb 01 2010 - 04:52:39 PST)
Re: [AMBER] MMPBSA
(Mon Feb 01 2010 - 04:38:57 PST)
Jeffrey
[AMBER] dielectric constant in NMODE
(Wed Feb 03 2010 - 18:45:26 PST)
Jim Miller
[AMBER] how to fix or restraint atoms in molecules
(Tue Feb 09 2010 - 00:30:20 PST)
[AMBER] load pdb into xleap
(Fri Feb 05 2010 - 01:12:12 PST)
Jio M
Re: [AMBER] mm-pbsa receptor and ligand masking
(Fri Feb 19 2010 - 07:52:54 PST)
Re: [AMBER] mm-pbsa receptor and ligand masking
(Fri Feb 19 2010 - 06:07:49 PST)
Re: [AMBER] limit of joining residues
(Wed Feb 17 2010 - 06:56:32 PST)
Re: [AMBER] limit of joining residues
(Sun Feb 14 2010 - 21:03:49 PST)
Re: [AMBER] limit of joining residues
(Sun Feb 14 2010 - 03:42:34 PST)
Re: [AMBER] limit of joining residues
(Sat Feb 13 2010 - 00:20:58 PST)
Re: [AMBER] limit of joining residues
(Thu Feb 11 2010 - 00:34:52 PST)
Re: [AMBER] limit of joining residues
(Wed Feb 10 2010 - 08:12:58 PST)
[AMBER] limit of joining residues
(Mon Feb 08 2010 - 05:38:54 PST)
Jose Borreguero
Re: [AMBER] how to identify closest waters to protein surface?
(Sat Feb 20 2010 - 16:24:40 PST)
[AMBER] how to identify closest waters to protein surface?
(Sat Feb 20 2010 - 15:47:54 PST)
[AMBER] are translations applied in the 'average' command of ptraj?
(Fri Feb 19 2010 - 16:02:22 PST)
Re: [AMBER] positional restraints of different strengths
(Tue Feb 09 2010 - 05:00:06 PST)
Re: [AMBER] positional restraints of different strengths
(Sat Feb 06 2010 - 03:33:10 PST)
[AMBER] positional restraints of different strengths
(Fri Feb 05 2010 - 15:55:28 PST)
Re: [AMBER] deuterate protein atoms by editing the topology file
(Tue Feb 02 2010 - 13:35:24 PST)
[AMBER] deuterate protein atoms by editing the topology file
(Tue Feb 02 2010 - 12:16:43 PST)
Josmar R. da Rocha
Re: [AMBER] Script
(Mon Feb 22 2010 - 09:50:03 PST)
Kshatresh Dutta Dubey
[AMBER] Problem in Ptraj
(Fri Feb 05 2010 - 22:41:12 PST)
Lachele Foley (Lists)
Re: [AMBER] Charge protocol for OLP, HYP
(Fri Feb 26 2010 - 10:12:18 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Fri Feb 26 2010 - 07:56:44 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Thu Feb 25 2010 - 09:27:15 PST)
Re: [AMBER] Charge protocol for OLP, HYP
(Wed Feb 24 2010 - 06:59:36 PST)
Re: [AMBER] Script
(Thu Feb 18 2010 - 07:43:23 PST)
Re: [AMBER] Tutorial for Glycoprotein simulation
(Mon Feb 01 2010 - 06:34:15 PST)
Lalit Dubey
Re: [AMBER] Protein + Bilayer Simulations: Role of salt
(Sun Feb 28 2010 - 15:35:05 PST)
[AMBER] Protein + Bilayer Simulations: Role of salt
(Sun Feb 28 2010 - 13:32:05 PST)
lina
Re: ODP: [AMBER] help
(Thu Feb 18 2010 - 06:06:22 PST)
luzhenw1.msu.edu
[AMBER] interaction energy of single residue to its environment
(Mon Feb 01 2010 - 10:49:56 PST)
M. L. Dodson
Re: [AMBER] strange behavior in QMMM simulation
(Sun Feb 14 2010 - 06:19:00 PST)
Re: [AMBER] strange behavior in QMMM simulation
(Sat Feb 13 2010 - 12:21:06 PST)
[AMBER] strange behavior in QMMM simulation
(Thu Feb 11 2010 - 12:35:25 PST)
mani grover
[AMBER] (no subject)
(Mon Feb 08 2010 - 22:19:15 PST)
manikanthan bhavaraju
[AMBER] mailing list
(Tue Feb 09 2010 - 13:22:45 PST)
Manjunath Sripadarao
[AMBER] Sander jac benchmark segfaults with non-power of two processors
(Wed Feb 24 2010 - 23:05:52 PST)
Mannan
[AMBER] helicity of a peptide
(Wed Feb 24 2010 - 00:56:41 PST)
Re: [AMBER] Glycerol Models
(Wed Feb 17 2010 - 06:50:27 PST)
[AMBER] Glycerol Models
(Fri Feb 12 2010 - 00:39:45 PST)
Marina Grabar
Re: [AMBER] mm_pbsa statistics problem
(Mon Feb 15 2010 - 04:48:17 PST)
Re: [AMBER] mm_pbsa statistics problem
(Fri Feb 12 2010 - 03:57:24 PST)
Re: [AMBER] mm_pbsa statistics problem
(Thu Feb 11 2010 - 07:22:05 PST)
[AMBER] mm_pbsa statistics problem
(Thu Feb 11 2010 - 06:51:01 PST)
Mark Dixon
Re: [AMBER] AMBER10 build - failing "jar" and "jar_multi" tests
(Fri Feb 05 2010 - 07:15:02 PST)
[AMBER] AMBER10 build - failing "jar" and "jar_multi" tests
(Fri Feb 05 2010 - 06:55:29 PST)
Mark M Huntress
RE: [AMBER] swiss cheese water shell
(Sat Feb 27 2010 - 13:46:07 PST)
[AMBER] swiss cheese water shell
(Fri Feb 26 2010 - 21:40:25 PST)
Mark Williamson
Re: [AMBER] chamber - psf/pdb from VMD
(Fri Feb 19 2010 - 10:41:08 PST)
Re: [AMBER] chamber - psf/pdb from VMD
(Thu Feb 18 2010 - 18:12:14 PST)
Re: [AMBER] chamber - psf/pdb from VMD
(Thu Feb 18 2010 - 15:08:48 PST)
MASLYK, MACIEJ MARCIN
ODP: [AMBER] help
(Thu Feb 18 2010 - 05:58:58 PST)
Matthew Tessier
[AMBER] GUI Competition
(Wed Feb 24 2010 - 06:18:20 PST)
RE: [AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 12:01:15 PST)
[AMBER] MOL2 Output through LEAP
(Tue Feb 02 2010 - 11:20:54 PST)
Max Wang
Re: [AMBER] compiling amber on intel xeon 5500 series cpu
(Fri Feb 12 2010 - 14:10:19 PST)
[AMBER] compiling amber on intel xeon 5500 series cpu
(Fri Feb 12 2010 - 12:16:29 PST)
Michael Durney
[AMBER] NMR complex and vlimit exceeded
(Thu Feb 25 2010 - 08:00:50 PST)
mirage .
[AMBER] question about how to fix the number of water molecule
(Sun Feb 14 2010 - 23:39:29 PST)
Monika Sharma
Re: [AMBER] msd calculation using ptraj diffusion
(Sat Feb 27 2010 - 01:30:09 PST)
[AMBER] msd calculation using ptraj diffusion
(Fri Feb 26 2010 - 22:05:39 PST)
Re: [AMBER] ptraj, imaging for NAMD generated dcd files, Error in tokenize
(Thu Feb 25 2010 - 05:02:53 PST)
[AMBER] ptraj, imaging for NAMD generated dcd files, Error in tokenize
(Thu Feb 25 2010 - 04:24:20 PST)
[AMBER] ptraj, imaging for NAMD generated dcd files, Error in tokenize
(Thu Feb 25 2010 - 04:20:16 PST)
MQO.Carlos Javier Nunez Aguero
Re: [AMBER] Simple question on EM again
(Thu Feb 25 2010 - 22:17:00 PST)
Re: [AMBER] Simple question on EM again
(Wed Feb 24 2010 - 23:12:01 PST)
MUHAMMAD IMTIA SHAFIQ
[AMBER] Protein Stability in amber mmpbsa tutorial
(Mon Feb 22 2010 - 12:54:54 PST)
Re: [AMBER] Small Molecule Parameters
(Thu Feb 11 2010 - 13:51:59 PST)
[AMBER] Energy Minimization of a Complex
(Sun Feb 07 2010 - 16:22:57 PST)
[AMBER] If this is normal for 3 or 4 sander.MPI jobs appearing on one node
(Tue Feb 02 2010 - 11:46:31 PST)
N.R. Jena
[AMBER] Problem in setting parameters for non standard DG residue:O6-Methylguanine
(Mon Feb 01 2010 - 03:47:47 PST)
Nancy
[AMBER] trouble with cooling down a system
(Tue Feb 23 2010 - 02:56:49 PST)
[AMBER] AMBER MD simulation
(Tue Feb 23 2010 - 02:56:50 PST)
Neil Henson
Re: [AMBER] sleap crash with single water molecule and amoeba
(Tue Feb 16 2010 - 08:20:22 PST)
[AMBER] sleap crash with single water molecule and amoeba
(Mon Feb 08 2010 - 06:14:45 PST)
Nicee
[AMBER] parallel test error
(Tue Feb 23 2010 - 01:34:00 PST)
Nicholas Musolino
Re: [AMBER] swiss cheese water shell
(Sat Feb 27 2010 - 06:08:54 PST)
Re: [AMBER] loading parm7 and coords with tLeap?
(Fri Feb 05 2010 - 08:48:52 PST)
[AMBER] loading parm7 and coords with tLeap?
(Thu Feb 04 2010 - 12:41:10 PST)
Nicolas Sapay
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Fri Feb 19 2010 - 06:42:00 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 11:48:18 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 08:42:59 PST)
Re: [AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 06:29:54 PST)
[AMBER] Segmentation fault with xleap while loading a leaprc
(Thu Feb 18 2010 - 05:48:00 PST)
Niel Henriksen
RE: [AMBER] Re: Antechamber: imidazole=aromatic, imidazolium=not aromatic?
(Wed Feb 24 2010 - 17:42:36 PST)
Oliver Kuhn
[AMBER] trajectory alignment to a reference frame
(Wed Feb 24 2010 - 07:17:39 PST)
parvesh singh
[AMBER] how to generate acetone box
(Wed Feb 17 2010 - 03:10:09 PST)
pelaez.usal.es
[AMBER] AMBER 9 parallel compilation problem on Mac OS X 10.6
(Wed Feb 03 2010 - 04:15:43 PST)
Peter Charles Kahuna
[AMBER] PARMSCAN
(Sun Feb 21 2010 - 18:38:14 PST)
[AMBER] parmscan
(Fri Feb 19 2010 - 19:13:56 PST)
Peter Schmidtke
Re: [AMBER] swiss cheese water shell
(Sat Feb 27 2010 - 12:34:11 PST)
Re: [AMBER] use tleap through stdin
(Thu Feb 25 2010 - 06:47:29 PST)
[AMBER] use tleap through stdin
(Tue Feb 23 2010 - 09:41:04 PST)
Pol Boudard
[AMBER] Add charge on quaternary nitrogen
(Fri Feb 05 2010 - 05:40:34 PST)
Raja Pandian
[AMBER] VDW parameter for Cobalt and Nickel
(Mon Feb 01 2010 - 06:17:21 PST)
Ray Luo
Re: [AMBER] MM PBSA problem
(Sat Feb 13 2010 - 09:31:59 PST)
Re: [AMBER] mm_pbsa statistics problem
(Fri Feb 12 2010 - 09:51:27 PST)
Re: [AMBER] mm_pbsa statistics problem
(Thu Feb 11 2010 - 09:20:54 PST)
Re: [AMBER] failure when doing bugfix patch for amber10 and tools V1.2
(Wed Feb 03 2010 - 10:03:45 PST)
Rebeca García Fandiño
[AMBER] VMD and Amber coordinates
(Tue Feb 16 2010 - 10:25:25 PST)
[AMBER] (no subject)
(Tue Feb 16 2010 - 10:14:45 PST)
Ross Walker
RE: [AMBER] swiss cheese water shell
(Sat Feb 27 2010 - 14:03:20 PST)
RE: [AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Fri Feb 26 2010 - 21:40:56 PST)
RE: [AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Thu Feb 25 2010 - 22:22:09 PST)
RE: [AMBER] Sander jac benchmark segfaults with non-power of two processors
(Thu Feb 25 2010 - 09:55:37 PST)
RE: [AMBER] ptraj.MPI issue with "uninterruptible sleep"
(Mon Feb 22 2010 - 17:37:23 PST)
RE: [AMBER] PARMSCAN
(Sun Feb 21 2010 - 19:50:25 PST)
RE: [AMBER] pmemd.cuda progress
(Thu Feb 18 2010 - 18:51:51 PST)
RE: [AMBER] QM/MM new parameters
(Tue Feb 09 2010 - 04:14:38 PST)
[AMBER] RE: Question of Tutorials-A: the total charge is not integer
(Sun Feb 07 2010 - 02:02:40 PST)
RE: [AMBER] TEST_FAILURES
(Thu Feb 04 2010 - 12:48:05 PST)
Ryan Pavlovicz
Re: [AMBER] MM-PBSA: decompose energy error
(Fri Feb 19 2010 - 11:30:54 PST)
s. Bill
[AMBER] Perturbed charges and types
(Sun Feb 21 2010 - 08:01:14 PST)
[AMBER] sander compilation
(Tue Feb 16 2010 - 17:23:47 PST)
Re: [AMBER] mmpbsa.py ion radius
(Mon Feb 15 2010 - 10:16:29 PST)
[AMBER] mmpbsa.py ion radius
(Sat Feb 13 2010 - 18:02:43 PST)
Re: [AMBER] MMPBSA.py error
(Thu Feb 11 2010 - 04:14:18 PST)
Re: [AMBER] MMPBSA.py error
(Wed Feb 10 2010 - 16:40:13 PST)
[AMBER] MMPBSA.py error
(Wed Feb 10 2010 - 15:46:34 PST)
RE: [AMBER] QM/MM new parameters
(Tue Feb 09 2010 - 14:40:08 PST)
Re: [AMBER] QM/MM new parameters
(Mon Feb 08 2010 - 15:53:52 PST)
[AMBER] QM/MM new parameters
(Mon Feb 08 2010 - 15:32:59 PST)
Re: [AMBER] Test log
(Mon Feb 01 2010 - 12:41:28 PST)
[AMBER] Test log
(Mon Feb 01 2010 - 09:48:10 PST)
[AMBER] MMPBSA
(Mon Feb 01 2010 - 03:43:11 PST)
Samuel Genheden
Re: [AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Wed Feb 24 2010 - 10:55:19 PST)
Re: [AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Wed Feb 24 2010 - 04:19:08 PST)
[AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Wed Feb 24 2010 - 01:03:21 PST)
Re: [AMBER] TI calculation of absolute dG with restraint and energy decomposition
(Sat Feb 20 2010 - 03:11:01 PST)
[AMBER] TI calculation of absolute dG with restraint and energy decomposition
(Fri Feb 19 2010 - 01:10:45 PST)
Sanders, Larry R.
[AMBER] RE: Problem compiling Amber 10 after applying latest bugfix file
(Thu Feb 11 2010 - 06:35:06 PST)
[AMBER] Problem compiling Amber 10 after applying latest bugfix file
(Wed Feb 10 2010 - 12:17:40 PST)
Sandro L. Fornili
Re: [AMBER] ccl4 simulation
(Thu Feb 18 2010 - 01:02:52 PST)
Sangita Kachhap
Re: [AMBER] Problem in creating cubic water box
(Sat Feb 13 2010 - 00:43:54 PST)
Re: [AMBER] problem of chenge of the water box during equilibration
(Sat Feb 13 2010 - 00:42:32 PST)
[AMBER] problem of chenge of the water box during equilibration
(Wed Feb 10 2010 - 08:48:34 PST)
[AMBER] Problem in creating cubic water box
(Mon Feb 08 2010 - 09:51:28 PST)
Shaandar Nyamtulga
[AMBER] Simple question on EM again
(Thu Feb 25 2010 - 19:00:39 PST)
[AMBER] Simple question on EM again
(Wed Feb 24 2010 - 21:24:41 PST)
[AMBER] Simple question on EM
(Wed Feb 24 2010 - 19:42:03 PST)
[AMBER] How to unsolvate solvated protein?
(Tue Feb 23 2010 - 21:17:21 PST)
[AMBER] Final PDB after Energy minimization
(Tue Feb 23 2010 - 19:03:15 PST)
Shaikh Abdul R S Ramaju
[AMBER] RDF analysis
(Tue Feb 23 2010 - 00:05:58 PST)
[AMBER] reimaging the trajectory
(Fri Feb 05 2010 - 02:25:53 PST)
Siddharth Rastogi
[AMBER] tleap command for disulfide bonds: for chain A and Chain B ???
(Tue Feb 02 2010 - 17:19:28 PST)
Re: [AMBER] Tutorial for Glycoprotein simulation
(Tue Feb 02 2010 - 16:56:28 PST)
Sidney Elmer
[AMBER] deriving charges for use with gaff
(Fri Feb 19 2010 - 12:00:06 PST)
[AMBER] parmchk lists multiple values of the same parameter
(Wed Feb 03 2010 - 09:12:39 PST)
sikander azam
[AMBER] Calcium and Phosphate
(Tue Feb 16 2010 - 22:12:22 PST)
Re: [AMBER] TEST_FAILURES
(Tue Feb 16 2010 - 04:55:09 PST)
Re: [AMBER] TEST_FAILURES
(Thu Feb 04 2010 - 05:37:44 PST)
Simon Becker
[AMBER] design of peptides to stabilize proteins
(Wed Feb 24 2010 - 06:55:24 PST)
song_jianing_hi
[AMBER] trouble with cooling down the system
(Tue Feb 23 2010 - 02:43:39 PST)
steinbrt.rci.rutgers.edu
Re: [AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Thu Feb 25 2010 - 02:15:13 PST)
Re: [AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Wed Feb 24 2010 - 07:52:36 PST)
Re: [AMBER] Question on applying restraints in absolute dG calculations with TI in Amber 10
(Wed Feb 24 2010 - 03:52:30 PST)
Re: [AMBER] Reducing RMS errors in TI calculation
(Tue Feb 09 2010 - 23:19:56 PST)
Re: [AMBER] softcore TI lambda values of 0 and 1
(Sun Feb 07 2010 - 02:01:55 PST)
Re: [AMBER] Announcement: Amber MD Workshop 2010 in Duesseldorf, Germany April 26-30th
(Thu Feb 04 2010 - 00:37:17 PST)
[AMBER] Announcement: Amber MD Workshop 2010 in Duesseldorf, Germany April 26-30th
(Tue Feb 02 2010 - 02:45:53 PST)
stephane acoca
Re: [AMBER] Fitting Torsional parameters
(Wed Feb 17 2010 - 08:07:09 PST)
Re: [AMBER] Fitting Torsional parameters
(Mon Feb 15 2010 - 13:49:24 PST)
[AMBER] Fitting Torsional parameters
(Mon Feb 15 2010 - 07:48:07 PST)
Steve Seibold
[AMBER] Amber11 vs Amber10
(Thu Feb 04 2010 - 10:58:59 PST)
Sushil Mishra
[AMBER] References of all force fields for citations
(Thu Feb 18 2010 - 06:18:26 PST)
Syed Tarique Moin
Re: [AMBER] Calcium and Phosphate
(Wed Feb 17 2010 - 02:29:02 PST)
Thomas Cheatham
Re: [AMBER] are translations applied in the 'average' command of ptraj?
(Sat Feb 20 2010 - 01:20:01 PST)
Thomas Cheatham III
Re: [AMBER] trajectory alignment to a reference frame
(Thu Feb 25 2010 - 12:39:13 PST)
Titus, Jamie (bairdje)
RE: [AMBER] makeCHIR_RST and LES
(Fri Feb 19 2010 - 07:40:55 PST)
[AMBER] makeCHIR_RST and LES
(Wed Feb 17 2010 - 08:34:13 PST)
[AMBER] Addles and makeDIST_RST
(Thu Feb 04 2010 - 04:58:13 PST)
[AMBER] Addles and makeDIST_RST
(Wed Feb 03 2010 - 12:08:20 PST)
Tom Joseph
Re: [AMBER] how to identify closest waters to protein surface?
(Sat Feb 20 2010 - 16:01:24 PST)
Tom Williams
[AMBER] Question of Tutorials-A: the total charge is not integer
(Sun Feb 07 2010 - 00:00:39 PST)
Trevor Gokey
Re: [AMBER] Installation error of amber10 after compile Ambertools1.3
(Sun Feb 28 2010 - 00:35:08 PST)
Re: [AMBER] ptraj.MPI issue with
(Mon Feb 22 2010 - 17:11:25 PST)
[AMBER] ptraj.MPI issue with "uninterruptible sleep"
(Mon Feb 22 2010 - 16:04:28 PST)
[AMBER] pmemd.cuda progress
(Thu Feb 18 2010 - 16:44:15 PST)
vaibhav jain
[AMBER] help
(Thu Feb 18 2010 - 05:54:02 PST)
Vlad
Re: [AMBER] GUI Competition
(Wed Feb 24 2010 - 15:21:52 PST)
Vlad Cojocaru
Re: [AMBER] About RAMD
(Thu Feb 11 2010 - 06:57:20 PST)
wong105.llnl.gov
[AMBER] multiple intercalating waters
(Thu Feb 04 2010 - 11:05:32 PST)
Workalemhu Berhanu
Re: [AMBER] mm-pbsa receptor and ligand masking
(Thu Feb 18 2010 - 15:38:41 PST)
[AMBER] mm-pbsa receptor and ligand masking
(Thu Feb 18 2010 - 13:26:03 PST)
xueping chin
Re: [AMBER] Announcement: Amber MD Workshop 2010 in Duesseldorf, Germany April 26-30th
(Thu Feb 04 2010 - 01:35:07 PST)
Re: [AMBER] Announcement: Amber MD Workshop 2010 in Duesseldorf, Germany April 26-30th
(Wed Feb 03 2010 - 15:47:53 PST)
xueqin pang
[AMBER] enquire of NAB tutorial or any detailed introduction
(Sun Feb 21 2010 - 06:41:08 PST)
Re: [AMBER] failure when doing bugfix patch for amber10 and tools V1.2
(Thu Feb 04 2010 - 17:45:05 PST)
[AMBER] failure when doing bugfix patch for amber10 and tools V1.2
(Tue Feb 02 2010 - 22:52:56 PST)
Re: [AMBER] mmpbsa error: No data for 0+2 MM BOND 200
(Mon Feb 01 2010 - 22:46:08 PST)
[AMBER] mmpbsa error: No data for 0+2 MM BOND 200
(Mon Feb 01 2010 - 17:25:55 PST)
Yubo Fan
Re: [AMBER] (no subject)
(Tue Feb 16 2010 - 10:23:15 PST)
[AMBER] (no subject)
(Tue Feb 16 2010 - 00:31:46 PST)
ZhaoLei
RE: [AMBER] Periodic Boundary in AMBER(PMEMD) GPU Acceleration support ?
(Fri Feb 26 2010 - 19:57:59 PST)
坂庭 大輔
Re: [AMBER] Question about transition from AMBER6 to AMBER9
(Sat Feb 27 2010 - 07:30:33 PST)
Re: [AMBER] Question about transition from AMBER6 to AMBER9
(Sat Feb 27 2010 - 02:07:53 PST)
[AMBER] Question about transition from AMBER6 to AMBER9
(Fri Feb 19 2010 - 02:19:27 PST)
Last message date
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Sun Feb 28 2010 - 17:00:04 PST
Archived on
: Fri Dec 20 2024 - 05:54:01 PST
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