Amber Archive Feb 2020: by author

Abdullah Bin Faheem
- [AMBER] Using cutoffs smaller than 8 A (Thu Feb 20 2020 - 23:51:23 PST)
ABEL Stephane
- Re: [AMBER] Simulation of an asymmetric membrane model (Thu Feb 13 2020 - 01:37:43 PST)
Abhilash J
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 09:48:41 PST)
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 09:42:40 PST)
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 08:06:27 PST)
- Re: [AMBER] AMBER 18 installation issue (Wed Feb 12 2020 - 08:44:32 PST)
- [AMBER] AMBER 18 installation issue (Tue Feb 11 2020 - 17:09:56 PST)
Adrian Roitberg
- Re: [AMBER] BMRB Chemical shift values (Thu Feb 13 2020 - 08:29:02 PST)
Akhilesh Paspureddi
- [AMBER] Single ion solvation free energy calculations. (Wed Feb 26 2020 - 13:33:30 PST)
Akshay Prabhakant
- [AMBER] inquiry regarding minimum-image convention in cpptraj (Sun Feb 23 2020 - 11:13:03 PST)
ALAMGIR KHAN
- [AMBER] kindly guide me (Wed Feb 19 2020 - 03:33:59 PST)
- [AMBER] suggest an article for MD for covalent inhibitors (Mon Feb 17 2020 - 21:44:04 PST)
- [AMBER] kindly guide me. (Mon Feb 10 2020 - 21:25:00 PST)
ankita mehta
- Re: [AMBER] hiii (Wed Feb 05 2020 - 11:09:51 PST)
- Re: [AMBER] hiii (Wed Feb 05 2020 - 11:00:02 PST)
- [AMBER] hiii (Wed Feb 05 2020 - 10:27:00 PST)
Annachiara TINIVELLA
- Re: [AMBER] sulfonamide parameters for correct geometry (Thu Feb 06 2020 - 08:17:36 PST)
Antonio Bauzá
- [AMBER] amber18 tests failure (Thu Feb 20 2020 - 01:37:39 PST)
Antonio Bauzá Riera
- [AMBER] amber18 tests failures (Wed Feb 19 2020 - 07:46:51 PST)
Aravind R
- [AMBER] Running Amber in a GPU cluster (Wed Feb 19 2020 - 04:23:35 PST)
Arun Srikanth
- Re: [AMBER] vmd progress time (Wed Feb 26 2020 - 03:04:10 PST)
Bacaita Simona
- [AMBER] pmemd.cuda installation (Tue Feb 11 2020 - 11:40:44 PST)
Baptiste Legrand
- Re: [AMBER] Production run in NVT ensemble (Wed Feb 19 2020 - 00:13:03 PST)
- [AMBER] Production run in NVT ensemble (Fri Feb 14 2020 - 03:04:18 PST)
- [AMBER] MMPBSA calculations (Thu Feb 06 2020 - 03:14:17 PST)
bbalta.itu.edu.tr
- [AMBER] replica exchange with GPU (Fri Feb 28 2020 - 04:14:59 PST)
Bisignano, Paola
- Re: [AMBER] installation of amber 18 failed - CUDA_HOME not set (although not true) (Sat Feb 01 2020 - 20:19:20 PST)
- [AMBER] installation of amber 18 failed - CUDA_HOME not set (although not true) (Sat Feb 01 2020 - 20:09:08 PST)
Busra Demir
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 00:12:54 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 10:55:23 PST)
Carlos Simmerling
- Re: [AMBER] replica exchange with GPU (Fri Feb 28 2020 - 04:22:05 PST)
- Re: [AMBER] Running Amber in a GPU cluster (Wed Feb 19 2020 - 04:26:49 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 07:29:21 PST)
- Re: [AMBER] tLEaP error of the N-terminal OXT atom (Sat Feb 15 2020 - 15:34:20 PST)
- Re: [AMBER] how to locate all parameters for specific AA in parm directory (Fri Feb 14 2020 - 08:43:58 PST)
- Re: [AMBER] Production run in NVT ensemble (Fri Feb 14 2020 - 03:34:51 PST)
- Re: [AMBER] how to locate all parameters for specific AA in parm directory (Fri Feb 14 2020 - 03:31:18 PST)
- Re: [AMBER] Reg. Periodic Boundary Conditions (Wed Feb 05 2020 - 04:39:26 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 07:00:40 PST)
- Re: [AMBER] [External] Re: Reading Frames from Trajectory File (Mon Feb 03 2020 - 10:55:41 PST)
- Re: [AMBER] Reading Frames from Trajectory File (Mon Feb 03 2020 - 10:39:22 PST)
Catherine Jenifer Rajam Rajendran
- Re: [AMBER] [External] Re: Reading Frames from Trajectory File (Mon Feb 03 2020 - 11:45:02 PST)
- Re: [AMBER] [External] Re: Reading Frames from Trajectory File (Mon Feb 03 2020 - 11:03:48 PST)
- Re: [AMBER] [External] Re: Reading Frames from Trajectory File (Mon Feb 03 2020 - 10:51:00 PST)
- [AMBER] Reading Frames from Trajectory File (Mon Feb 03 2020 - 10:12:50 PST)
Cavender, Chapin
- Re: [AMBER] Shaw DE RNA ff in Amber format (Thu Feb 06 2020 - 13:23:53 PST)
Christina Bergonzo
- Re: [AMBER] BMRB Chemical shift values (Thu Feb 13 2020 - 05:50:58 PST)
Clorice Reinhardt
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 07:24:57 PST)
- Re: [AMBER] On QM/MM dummy atom and deprotonated TYR (Tue Feb 11 2020 - 07:47:35 PST)
- Re: [AMBER] On QM/MM dummy atom and deprotonated TYR (Tue Feb 11 2020 - 07:34:51 PST)
- Re: [AMBER] On QM/MM dummy atom and deprotonated TYR (Thu Feb 06 2020 - 15:27:38 PST)
Daniel Roe
- Re: [AMBER] Clustering logistics (Mon Feb 24 2020 - 09:59:02 PST)
- Re: [AMBER] inquiry regarding minimum-image convention in cpptraj (Mon Feb 24 2020 - 06:39:51 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 06:02:37 PST)
- Re: [AMBER] hiii (Thu Feb 06 2020 - 05:16:02 PST)
- Re: [AMBER] CPPTRAJ hydrogen bond analysis (Tue Feb 04 2020 - 11:42:26 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 11:37:04 PST)
- Re: [AMBER] Reading Frames from Trajectory File (Mon Feb 03 2020 - 11:12:38 PST)
- Re: [AMBER] "Bad inpcrd file!" when running pmemd.MPI but not pmemd (Mon Feb 03 2020 - 05:15:30 PST)
- Re: [AMBER] .crd error (Mon Feb 03 2020 - 05:08:08 PST)
- Re: [AMBER] cpptraj_clucster (Sat Feb 01 2020 - 11:05:57 PST)
David A Case
- Re: [AMBER] Weird error with antechamber for metal ion / MCPB tutorial (Wed Feb 26 2020 - 18:18:50 PST)
- Re: [AMBER] Weird error with antechamber for metal ion / MCPB tutorial (Wed Feb 26 2020 - 18:17:50 PST)
- Re: [AMBER] Amber 16 or 20 (Sat Feb 22 2020 - 05:17:57 PST)
- Re: [AMBER] Versions of AMBER (Wed Feb 19 2020 - 12:14:23 PST)
- Re: [AMBER] kindly guide me (Wed Feb 19 2020 - 05:56:47 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Wed Feb 19 2020 - 05:55:28 PST)
- Re: [AMBER] What Can I do for Mixture of Solutions simulation and what should I assign epsilon value for this? (Tue Feb 18 2020 - 08:17:33 PST)
- Re: [AMBER] mmpbsa.py (Tue Feb 18 2020 - 05:39:31 PST)
- Re: [AMBER] Force field for terminal phosphorylated residues (Tue Feb 18 2020 - 05:35:16 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 04:38:01 PST)
- Re: [AMBER] Compatibility issue of Atom type naming in AMBER (Fri Feb 14 2020 - 04:36:48 PST)
- Re: [AMBER] AMBER 18 installation issue (Wed Feb 12 2020 - 06:16:36 PST)
- Re: [AMBER] Amber install error (Wed Feb 12 2020 - 06:11:53 PST)
- Re: [AMBER] pmemd.cuda installation (Wed Feb 12 2020 - 06:08:46 PST)
- Re: [AMBER] kindly guide me. (Tue Feb 11 2020 - 04:49:07 PST)
- Re: [AMBER] [LEaP] Atom does not have a type (Fri Feb 07 2020 - 15:06:13 PST)
- Re: [AMBER] tleap/xleap performance enhancement (Fri Feb 07 2020 - 05:00:10 PST)
- Re: [AMBER] hiii (Wed Feb 05 2020 - 10:46:28 PST)
- Re: [AMBER] Reg. Periodic Boundary Conditions (Wed Feb 05 2020 - 04:52:47 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 05:34:13 PST)
- Re: [AMBER] .crd error (Mon Feb 03 2020 - 05:24:22 PST)
- Re: [AMBER] "Bad inpcrd file!" when running pmemd.MPI but not pmemd (Mon Feb 03 2020 - 05:17:58 PST)
David Case
- Re: [AMBER] installation of amber 18 failed - CUDA_HOME not set (although not true) (Sun Feb 02 2020 - 05:34:52 PST)
David Cerutti
- Re: [AMBER] facing problem in installation of Amber18 with CUDA support (Wed Feb 19 2020 - 22:58:28 PST)
- Re: [AMBER] amber18 tests failures (Wed Feb 19 2020 - 08:02:41 PST)
David Sáez
- Re: [AMBER] On QM/MM dummy atom and deprotonated TYR (Tue Feb 11 2020 - 07:28:29 PST)
- Re: [AMBER] On QM/MM dummy atom and deprotonated TYR (Thu Feb 06 2020 - 18:36:44 PST)
- [AMBER] On QM/MM dummy atom and deprotonated TYR (Thu Feb 06 2020 - 14:38:55 PST)
Debarati DasGupta
- [AMBER] TI calculations in AMBER18 (Fri Feb 28 2020 - 11:23:45 PST)
- [AMBER] Clustering logistics (Mon Feb 24 2020 - 09:27:01 PST)
- [AMBER] query on a script called getdvdl.py in AMBER TI tutorial section (Sat Feb 08 2020 - 06:50:39 PST)
DHEERAJ CHITARA
- [AMBER] Reg. Periodic Boundary Conditions (Wed Feb 05 2020 - 04:20:36 PST)
Eduardo R. Almeida
- [AMBER] Simulation of an asymmetric membrane model (Wed Feb 12 2020 - 11:38:07 PST)
Elvis Martis
- Re: [AMBER] generate ligand frcmod and lib files (Fri Feb 28 2020 - 04:07:42 PST)
- Re: [AMBER] Doubt in running mmpbsa (Wed Feb 19 2020 - 08:25:43 PST)
- Re: [AMBER] Doubt in running mmpbsa (Wed Feb 19 2020 - 07:27:28 PST)
- Re: [AMBER] install amber (Mon Feb 17 2020 - 08:13:56 PST)
- Re: [AMBER] DOCKED LIGAND CONFORMATION INTO AMBER MD (Mon Feb 10 2020 - 04:13:14 PST)
- Re: [AMBER] MMPBSA calculations (Thu Feb 06 2020 - 20:54:18 PST)
- Re: [AMBER] counterions present in topology files for the MMPSA calculation (Wed Feb 05 2020 - 05:51:33 PST)
- Re: [AMBER] installation of amber 18 failed - CUDA_HOME not set (although not true) (Sat Feb 01 2020 - 20:17:56 PST)
- Re: [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 20:16:16 PST)
- Re: [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 20:15:41 PST)
- Re: [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 18:56:38 PST)
emanuele falbo
- Re: [AMBER] QM/MM AMBER/ORCA: output (Wed Feb 19 2020 - 08:27:15 PST)
- Re: [AMBER] QM/MM AMBER/ORCA: output (Thu Feb 13 2020 - 06:25:39 PST)
- [AMBER] QM/MM AMBER/ORCA: output (Thu Feb 13 2020 - 01:21:40 PST)
Erdem Yeler
- [AMBER] What Can I do for Mixture of Solutions simulation and what should I assign epsilon value for this? (Tue Feb 18 2020 - 02:19:47 PST)
Fabian Glaser
- Re: [AMBER] vmd progress time (Wed Feb 26 2020 - 05:52:39 PST)
- Re: [AMBER] vmd progress time (Wed Feb 26 2020 - 01:44:05 PST)
- Re: [AMBER] vmd progress time (Tue Feb 25 2020 - 23:50:03 PST)
- [AMBER] frcmod.urea Parameters for urea (or urea-water mixtures). (Mon Feb 24 2020 - 07:25:41 PST)
- [AMBER] vmd progress time (Sun Feb 23 2020 - 07:11:53 PST)
- [AMBER] Amber 16 or 20 (Sat Feb 22 2020 - 00:32:22 PST)
Frederico Henrique
- [AMBER] Versions of AMBER (Wed Feb 19 2020 - 11:17:57 PST)
Gerardo Zerbetto De Palma
- Re: [AMBER] installing (Tue Feb 18 2020 - 04:08:44 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 04:04:43 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 03:44:33 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 16:17:17 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 16:10:45 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 15:20:54 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 13:32:30 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 13:07:11 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 12:49:28 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 12:48:29 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 12:38:31 PST)
- Re: [AMBER] installation of amber 18 failed - CUDA_HOME not set (although not true) (Sat Feb 01 2020 - 20:31:17 PST)
Goetz, Andreas
- Re: [AMBER] Unexpected reaction occurred in QM/MM umbrella sampling (Wed Feb 19 2020 - 18:41:06 PST)
- Re: [AMBER] QM/MM AMBER/ORCA: output (Wed Feb 19 2020 - 09:11:20 PST)
- Re: [AMBER] QM/MM AMBER/ORCA: output (Thu Feb 13 2020 - 23:07:09 PST)
- Re: [AMBER] QM/MM AMBER/ORCA: output (Thu Feb 13 2020 - 02:20:45 PST)
Gordon Richard Chalmers
- Re: [AMBER] BMRB Chemical shift values (Thu Feb 13 2020 - 07:07:49 PST)
- Re: [AMBER] question about pressure and sensible MD trajectories (Fri Feb 07 2020 - 19:53:39 PST)
- [AMBER] question about pressure and sensible MD trajectories (Fri Feb 07 2020 - 19:38:43 PST)
Gustaf Olsson
- Re: [AMBER] make test MPI don't continue (Thu Feb 27 2020 - 05:15:40 PST)
- Re: [AMBER] make test MPI don't continue (Thu Feb 27 2020 - 04:48:26 PST)
- Re: [AMBER] vmd progress time (Wed Feb 26 2020 - 02:58:04 PST)
- Re: [AMBER] vmd progress time (Wed Feb 26 2020 - 00:59:45 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 14:56:12 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 14:47:26 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 06:35:45 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 03:11:51 PST)
Gustavo Seabra
- [AMBER] MCPB.py with mixed valence di-iron system? (Thu Feb 27 2020 - 14:11:06 PST)
- Re: [AMBER] Weird error with antechamber for metal ion / MCPB tutorial (Thu Feb 27 2020 - 06:10:03 PST)
- [AMBER] Weird error with antechamber for metal ion / MCPB tutorial (Wed Feb 26 2020 - 14:01:03 PST)
- [AMBER] Representative structures from `clusterdihedral`? (Wed Feb 12 2020 - 13:43:52 PST)
- Re: [AMBER] [LEaP] Atom does not have a type (Fri Feb 07 2020 - 08:02:01 PST)
- Re: [AMBER] Help building a model of a 2F-2S protein with MDPB.py (Mon Feb 03 2020 - 11:46:12 PST)
Himanshu Joshi
- Re: [AMBER] tleap/xleap performance enhancement (Fri Feb 07 2020 - 12:12:44 PST)
- Re: [AMBER] tleap/xleap performance enhancement (Fri Feb 07 2020 - 09:08:39 PST)
- [AMBER] tleap/xleap performance enhancement (Thu Feb 06 2020 - 14:48:58 PST)
Hosein Geraili Daronkola
- Re: [AMBER] TI on pmemd CUDA, AMBER18 (Fri Feb 21 2020 - 01:57:41 PST)
- [AMBER] TI on pmemd CUDA, AMBER18 (Mon Feb 10 2020 - 02:13:48 PST)
James Kress
- Re: [AMBER] vmd progress time (Sun Feb 23 2020 - 10:19:33 PST)
Johannes Blaschke
- [AMBER] "Bad inpcrd file!" when running pmemd.MPI but not pmemd (Sun Feb 02 2020 - 09:09:13 PST)
Johannes Kalliauer
- [AMBER] [LEaP] Atom does not have a type (Fri Feb 07 2020 - 06:09:29 PST)
Josh Berryman
- Re: [AMBER] counter ions in TI calculations (Wed Feb 12 2020 - 23:45:58 PST)
- Re: [AMBER] Shaw DE RNA ff in Amber format (Thu Feb 06 2020 - 05:34:00 PST)
Junmei Wang
- Re: [AMBER] sulfonamide parameters for correct geometry (Mon Feb 03 2020 - 10:01:45 PST)
Karl Kirschner
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Mon Feb 17 2020 - 11:33:30 PST)
Kellon Belfon
- Re: [AMBER] Dihedral restraint problems in AMBER16/18 (Fri Feb 14 2020 - 19:12:52 PST)
Lachele Foley
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Wed Feb 19 2020 - 19:27:03 PST)
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Tue Feb 18 2020 - 08:20:41 PST)
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Fri Feb 14 2020 - 16:24:55 PST)
Lod King
- [AMBER] Compatibility issue of Atom type naming in AMBER (Thu Feb 13 2020 - 14:57:38 PST)
- Re: [AMBER] BMRB Chemical shift values (Thu Feb 13 2020 - 08:05:15 PST)
- [AMBER] BMRB Chemical shift values (Wed Feb 12 2020 - 15:21:29 PST)
- Re: [AMBER] cpptraj_clucster (Sat Feb 01 2020 - 10:47:56 PST)
Madhur Aggarwal
- [AMBER] generate ligand frcmod and lib files (Fri Feb 28 2020 - 03:44:33 PST)
Maier, Sarah
- [AMBER] counter ions in TI calculations (Wed Feb 12 2020 - 16:03:49 PST)
Manish Kumar Mohanty
- [AMBER] Regarding RMSD calculation and Clustering (Sat Feb 08 2020 - 21:10:09 PST)
Marcelo Andrade Chagas
- Re: [AMBER] MCPB.py with mixed valence di-iron system? (Thu Feb 27 2020 - 17:47:58 PST)
- Re: [AMBER] Weird error with antechamber for metal ion / MCPB tutorial (Thu Feb 27 2020 - 00:49:37 PST)
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Mon Feb 17 2020 - 08:56:37 PST)
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Sun Feb 16 2020 - 09:49:41 PST)
- [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Fri Feb 14 2020 - 12:41:32 PST)
mario
- [AMBER] Amber and Domains Conformational Dynamics (Sat Feb 29 2020 - 11:00:01 PST)
Markowska
- [AMBER] AQUA-DUCT Summer School 22-25 June, Gliwice, Poland (Wed Feb 05 2020 - 07:08:02 PST)
Matias Machado
- [AMBER] Shearing useful tips for adding ions to biomolecular simulations (Tue Feb 18 2020 - 10:13:54 PST)
- Re: [AMBER] Simulation of an asymmetric membrane model (Thu Feb 13 2020 - 11:37:33 PST)
- Re: [AMBER] tleap/xleap performance enhancement (Mon Feb 10 2020 - 07:35:05 PST)
Ming Tang
- Re: [AMBER] Force field for terminal phosphorylated residues (Tue Feb 18 2020 - 21:37:23 PST)
- Re: [AMBER] Force field for terminal phosphorylated residues (Tue Feb 18 2020 - 14:50:33 PST)
- [AMBER] Force field for terminal phosphorylated residues (Mon Feb 17 2020 - 23:11:57 PST)
mirzo
- Re: [AMBER] [LEaP] Atom does not have a type (Fri Feb 07 2020 - 08:32:54 PST)
- Re: [AMBER] (no subject) (Wed Feb 05 2020 - 05:11:50 PST)
MYRIAN TORRES RICO
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 07:37:17 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 06:26:53 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 04:57:09 PST)
- Re: [AMBER] .crd error (Tue Feb 04 2020 - 01:12:18 PST)
- [AMBER] .crd error (Mon Feb 03 2020 - 01:16:16 PST)
Nicolas Feldman
- [AMBER] Tutorial A08 (Fri Feb 28 2020 - 08:23:16 PST)
- [AMBER] make test MPI don't continue (Tue Feb 25 2020 - 05:51:17 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 07:07:31 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 06:55:15 PST)
- Re: [AMBER] installing (Tue Feb 18 2020 - 06:33:55 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 16:20:38 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 16:14:09 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 15:28:13 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 14:53:36 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 13:11:07 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 13:10:08 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 12:56:45 PST)
- Re: [AMBER] installing (Mon Feb 17 2020 - 12:41:02 PST)
- [AMBER] installing (Mon Feb 17 2020 - 12:35:38 PST)
- Re: [AMBER] install amber (Mon Feb 17 2020 - 08:19:47 PST)
- [AMBER] install amber (Mon Feb 17 2020 - 08:07:51 PST)
Oliver Grant
- Re: [AMBER] GLYCAM Topology for alfa-cyclodextrin, beta-cyclodextrin and gama-cyclodextrin. (Mon Feb 17 2020 - 08:20:04 PST)
Pengfei Li
- Re: [AMBER] parameters for Si3N4 (Mon Feb 03 2020 - 18:13:34 PST)
- Re: [AMBER] About utilities to convert Amber input files for MD into the Tinker, NAMD, Genesis, or Desmond input files (Mon Feb 03 2020 - 18:09:05 PST)
- Re: [AMBER] Help building a model of a 2F-2S protein with MDPB.py (Mon Feb 03 2020 - 18:02:20 PST)
Petro
- Re: [AMBER] pdb4amber strips atoms (Tue Feb 04 2020 - 04:58:19 PST)
- Re: [AMBER] Resolving overlapping atoms. (Tue Feb 04 2020 - 04:50:23 PST)
- [AMBER] pdb4amber strips atoms (Tue Feb 04 2020 - 04:47:23 PST)
Pietro Amodeo
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Sat Feb 29 2020 - 12:26:38 PST)
- [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Sat Feb 22 2020 - 05:05:32 PST)
Pietro Aronica
- Re: [AMBER] kindly guide me (Wed Feb 19 2020 - 03:43:27 PST)
- Re: [AMBER] MMPBSA.py error (Mon Feb 17 2020 - 02:42:44 PST)
PRAGYA PRIYADARSHINI
- [AMBER] heme B parameter by mcpb (Mon Feb 03 2020 - 20:39:48 PST)
Qing Lv
- Re: [AMBER] Unexpected reaction occurred in QM/MM umbrella sampling (Thu Feb 20 2020 - 02:59:38 PST)
- [AMBER] Unexpected reaction occurred in QM/MM umbrella sampling (Wed Feb 19 2020 - 17:56:18 PST)
Rakesh Srivastava
- [AMBER] Query regarding 3DRISM in Amber with CHARMM force field (Tue Feb 11 2020 - 22:46:07 PST)
Ramu Anandakrishnan
- Re: [AMBER] H++ processing non-standard amino acids: Atom does not have a type (Fri Feb 14 2020 - 05:27:16 PST)
Rana Rehan Khalid
- Re: [AMBER] CalcError: /truba/sw/centos6.4/app/amber/amber14/bin/sander failed with prmtop gas.complex.prmtop! (Tue Feb 04 2020 - 12:24:37 PST)
Ray Luo
- Re: [AMBER] mmpbsa.py (Tue Feb 18 2020 - 07:03:05 PST)
Rebecca Twidale
- [AMBER] Dihedral restraint problems in AMBER16/18 (Fri Feb 14 2020 - 04:33:56 PST)
Ross Walker
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 09:45:36 PST)
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 09:42:18 PST)
- Re: [AMBER] Are benchmarks/tests on NVidia RTX 2080 Super available? (Thu Feb 27 2020 - 09:13:47 PST)
Rui Chen
- Re: [AMBER] CPPTRAJ hydrogen bond analysis (Tue Feb 04 2020 - 12:45:54 PST)
- [AMBER] CPPTRAJ hydrogen bond analysis (Tue Feb 04 2020 - 07:21:53 PST)
- Re: [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 20:26:33 PST)
- Re: [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 19:02:53 PST)
- [AMBER] ante-MMPBSA.py (Sat Feb 01 2020 - 13:20:17 PST)
SATYAJIT KHATUA
- [AMBER] Regarding compatibility of PLUMED with the MPI and CUDA versions of pmemd (Sat Feb 22 2020 - 21:58:43 PST)
- [AMBER] facing problem in installation of Amber18 with CUDA (Thu Feb 20 2020 - 22:56:34 PST)
- [AMBER] facing problem in installation of Amber18 with CUDA support (Wed Feb 19 2020 - 22:56:48 PST)
- [AMBER] facing problem in installation of Amber18 with CUDA support (Wed Feb 19 2020 - 06:12:21 PST)
Shilpa Gupta
- [AMBER] counterions present in topology files for the MMPSA calculation (Wed Feb 05 2020 - 05:43:46 PST)
Sruthi Sudhakar
- Re: [AMBER] G quadruplex simulation (Sat Feb 29 2020 - 02:02:22 PST)
- [AMBER] G quadruplex simulation (Fri Feb 28 2020 - 22:13:16 PST)
- Re: [AMBER] Doubt in running mmpbsa (Wed Feb 19 2020 - 08:30:35 PST)
- Re: [AMBER] Doubt in running mmpbsa (Wed Feb 19 2020 - 08:23:03 PST)
- [AMBER] Doubt in running mmpbsa (Wed Feb 19 2020 - 07:32:11 PST)
- Re: [AMBER] mmpbsa.py (Tue Feb 18 2020 - 07:05:35 PST)
- Re: [AMBER] mmpbsa.py (Tue Feb 18 2020 - 07:07:14 PST)
- [AMBER] mmpbsa.py (Tue Feb 18 2020 - 05:34:27 PST)
- [AMBER] MMPBSA.py error (Mon Feb 17 2020 - 02:57:54 PST)
- [AMBER] DOCKED LIGAND CONFORMATION INTO AMBER MD (Mon Feb 10 2020 - 02:56:43 PST)
Taisung Lee
- Re: [AMBER] TI on pmemd CUDA, AMBER18 (Tue Feb 11 2020 - 06:39:33 PST)
Tyler Luchko (Lists)
- Re: [AMBER] Single ion solvation free energy calculations. (Thu Feb 27 2020 - 10:07:01 PST)
- Re: [AMBER] Query regarding 3DRISM in Amber with CHARMM force field (Wed Feb 12 2020 - 10:05:06 PST)
Vaibhav Dixit
- Re: [AMBER] Amber 16 or 20 (Sat Feb 22 2020 - 19:17:27 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Thu Feb 20 2020 - 18:15:29 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Thu Feb 20 2020 - 17:48:32 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Thu Feb 20 2020 - 00:52:16 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Wed Feb 19 2020 - 16:16:46 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Tue Feb 18 2020 - 18:19:28 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 16:08:48 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 01:48:10 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 01:41:12 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Mon Feb 17 2020 - 00:45:45 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 18:25:51 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 08:27:52 PST)
- Re: [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 08:14:51 PST)
- [AMBER] no bonds formed between AA and non-standard residue (Sun Feb 16 2020 - 03:30:32 PST)
- Re: [AMBER] how to locate all parameters for specific AA in parm directory (Fri Feb 14 2020 - 08:21:20 PST)
- Re: [AMBER] how to locate all parameters for specific AA in parm directory (Fri Feb 14 2020 - 00:38:11 PST)
- [AMBER] how to locate all parameters for specific AA in parm directory (Thu Feb 13 2020 - 23:41:12 PST)
- [AMBER] how to treat capped non-standard AA residue (Tue Feb 11 2020 - 02:07:04 PST)
Vlad Cojocaru
- [AMBER] combination of MD simulations with NMR (Fri Feb 14 2020 - 01:07:33 PST)
wangjianing_mail
- [AMBER] Question about LSC-IVR keep running without any output information after PIMD sampling (Thu Feb 06 2020 - 05:51:55 PST)
Wei-Tse Hsu
- [AMBER] tLEaP error of the N-terminal OXT atom (Sat Feb 15 2020 - 11:55:04 PST)
- [AMBER] H++ processing non-standard amino acids: Atom does not have a type (Thu Feb 13 2020 - 21:16:35 PST)
wijaya.t.aa.m.titech.ac.jp
- [AMBER] Gas phase simulation for heat of vaporization calculation (Wed Feb 05 2020 - 00:18:20 PST)
Yingang Feng
- [AMBER] lack scripts for Continuous constant pH molecular dynamics (Thu Feb 27 2020 - 01:23:04 PST)
zmatovic.kg.ac.rs
- [AMBER] Several FAILED tests for AmberTools19 and Amber18 (Wed Feb 05 2020 - 06:12:02 PST)

Amber Archive Feb 2020 by author