Amber Archive Nov 2020: by author

Aashish Shivkumar
- [AMBER] Saving pdb as parm7/prmtop file with boundary conditions (Thu Nov 05 2020 - 00:11:04 PST)
Abdul-Rashid III Sampaco
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 10:32:27 PST)
- Re: [AMBER] MMGBSA/MMPBSA Help (Sun Nov 01 2020 - 21:07:56 PST)
Abhilash J
- [AMBER] PCA with multiple peaks (Tue Nov 03 2020 - 13:34:42 PST)
accuratefreeenergy.gmail.com
- Re: [AMBER] AMBER 18 cuda installation error (Mon Nov 30 2020 - 05:06:20 PST)
Adrian Roitberg
- Re: [AMBER] AMBER20 TI calculations (Fri Nov 27 2020 - 09:21:09 PST)
aishen
- Re: [AMBER] Ubuntu version compatible for gpu installation of AMBER 18 (Thu Nov 19 2020 - 03:57:12 PST)
- [AMBER] jupyter notebook (Wed Nov 18 2020 - 23:18:17 PST)
- Re: [AMBER] Help for building cross linking polymer using graphic antechamber (Wed Nov 11 2020 - 00:27:39 PST)
Alexander Izvorski
- [AMBER] Tail-to-tail peptide linker? (Sat Nov 21 2020 - 21:53:50 PST)
Amit Sharma (Asstt. Prof., MCARS)
- [AMBER] Fwd: System blows up when simulating under npt (Wed Nov 25 2020 - 09:15:47 PST)
- Re: [AMBER] System blows up when simulating under npt (Tue Nov 24 2020 - 03:44:21 PST)
- [AMBER] System blows up when simulating under npt (Tue Nov 24 2020 - 03:04:38 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Wed Nov 04 2020 - 08:22:54 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Wed Nov 04 2020 - 01:30:31 PST)
Ankita Tripathi
- Re: [AMBER] TI-Amber (Tue Nov 17 2020 - 04:27:45 PST)
- Re: [AMBER] TI-Amber (Sun Nov 15 2020 - 11:31:58 PST)
- Re: [AMBER] TI-Amber (Sat Nov 14 2020 - 11:51:10 PST)
- [AMBER] TI-Amber (Thu Nov 12 2020 - 05:19:31 PST)
Athena N
- [AMBER] Protein-nucleic acid interactions (Mon Nov 02 2020 - 21:20:10 PST)
Ayesha Fatima
- Re: [AMBER] Protein preparation error (Fri Nov 06 2020 - 10:31:20 PST)
- Re: [AMBER] Protein preparation error (Fri Nov 06 2020 - 09:02:26 PST)
- [AMBER] Protein preparation error (Fri Nov 06 2020 - 08:05:23 PST)
- Re: [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 03:21:18 PST)
- Re: [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 03:14:36 PST)
- Re: [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 03:02:13 PST)
- [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 00:23:22 PST)
Bill Ross
- Re: [AMBER] Fwd: System blows up when simulating under npt (Wed Nov 25 2020 - 18:12:04 PST)
- Re: [AMBER] Addition of polyatomic ions in Leap (Mon Nov 09 2020 - 06:54:22 PST)
- Re: [AMBER] Discrepancy between interaction energy of amber coordinate trajectories of a system (Sat Nov 07 2020 - 05:28:00 PST)
- Re: [AMBER] MMPBSA/GBSA (Fri Nov 06 2020 - 03:18:14 PST)
- Re: [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 03:06:43 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 03:03:02 PST)
- Re: [AMBER] Protein-nucleic acid interactions (Mon Nov 02 2020 - 22:23:00 PST)
- Re: [AMBER] Tri-coordination environment in zinc (Sun Nov 01 2020 - 10:35:31 PST)
Bruno Cramer
- [AMBER] antechamber error -sqm.out missing (Sat Nov 21 2020 - 04:58:27 PST)
- [AMBER] Amber 20 make install problem (Fri Nov 20 2020 - 06:13:41 PST)
Carlos
- Re: [AMBER] fail when run pmem.cuda (Sun Nov 29 2020 - 21:56:43 PST)
- [AMBER] fail when run pmem.cuda (Sat Nov 28 2020 - 01:04:07 PST)
Carlos Simmerling
- Re: [AMBER] Effective Way To Perform Molecular Dynamics Simulation (Sun Nov 29 2020 - 03:32:53 PST)
- Re: [AMBER] Fwd: System blows up when simulating under npt (Wed Nov 25 2020 - 09:21:19 PST)
- Re: [AMBER] System blows up when simulating under npt (Wed Nov 25 2020 - 07:18:07 PST)
- Re: [AMBER] System blows up when simulating under npt (Tue Nov 24 2020 - 04:41:13 PST)
- Re: [AMBER] System blows up when simulating under npt (Tue Nov 24 2020 - 03:09:42 PST)
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Mon Nov 23 2020 - 04:43:06 PST)
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Fri Nov 20 2020 - 14:29:53 PST)
- Re: [AMBER] AMBER20, ff19SB and OPC (Fri Nov 20 2020 - 04:24:18 PST)
- Re: [AMBER] AMBER20, ff19SB and OPC (Sat Nov 14 2020 - 10:38:52 PST)
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 10:47:23 PST)
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 05:45:39 PST)
- Re: [AMBER] error input (Wed Nov 11 2020 - 08:35:16 PST)
- Re: [AMBER] Discrepancy between interaction energy of amber coordinate trajectories of a system (Mon Nov 09 2020 - 06:51:55 PST)
- Re: [AMBER] Discrepancy between interaction energy of amber coordinate trajectories of a system (Sat Nov 07 2020 - 06:44:44 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 04:12:02 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Thu Nov 05 2020 - 10:04:43 PST)
- Re: [AMBER] protein folding (Thu Nov 05 2020 - 08:38:04 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Wed Nov 04 2020 - 08:58:12 PST)
Charo del Genio
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Fri Nov 13 2020 - 04:17:28 PST)
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Sun Nov 08 2020 - 13:26:56 PST)
Daniel Roe
- Re: [AMBER] phi cremer (Fri Nov 27 2020 - 12:05:00 PST)
- Re: [AMBER] NOE analysis with cpptraj (Wed Nov 25 2020 - 07:24:11 PST)
- Re: [AMBER] Using the rep.C0.pdb as a reference structure in RMSD analysis (Wed Nov 25 2020 - 07:18:33 PST)
- Re: [AMBER] System blows up when simulating under npt (Wed Nov 25 2020 - 07:12:26 PST)
- Re: [AMBER] phi cremer (Wed Nov 25 2020 - 07:09:20 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 06:56:08 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 05:50:11 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Fri Nov 20 2020 - 08:13:27 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Wed Nov 18 2020 - 06:06:44 PST)
- Re: [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Tue Nov 10 2020 - 06:26:32 PST)
- Re: [AMBER] CPPTRAJ returns 'Warning: Box center specified but no box information' (Tue Nov 10 2020 - 06:20:54 PST)
- Re: [AMBER] iwrap/autoimage - analyses (Tue Nov 10 2020 - 06:19:32 PST)
- Re: [AMBER] using bridgebyatom keyword (Sat Nov 07 2020 - 04:54:43 PST)
- Re: [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Fri Nov 06 2020 - 05:53:37 PST)
David A Case
- Re: [AMBER] TI electrostatic free energy (Mon Nov 30 2020 - 10:10:18 PST)
- Re: [AMBER] How can I solve the high RMS problem? (Sun Nov 29 2020 - 10:45:07 PST)
- Re: [AMBER] An error during NPT/production (GPU run) (Sun Nov 29 2020 - 10:39:39 PST)
- Re: [AMBER] fail when run pmem.cuda (Sun Nov 29 2020 - 10:35:13 PST)
- Re: [AMBER] question about gaps (Sun Nov 29 2020 - 10:26:03 PST)
- Re: [AMBER] md simulation error (Sun Nov 29 2020 - 10:19:59 PST)
- Re: [AMBER] md simulation error (Fri Nov 27 2020 - 14:14:23 PST)
- Re: [AMBER] Antechamber permissions issue (Fri Nov 27 2020 - 14:10:34 PST)
- Re: [AMBER] AMBER 18 cuda installation error (Fri Nov 27 2020 - 05:14:08 PST)
- Re: [AMBER] An error during NPT/production (GPU run) (Fri Nov 27 2020 - 05:04:41 PST)
- Re: [AMBER] Antechamber permissions issue (Fri Nov 27 2020 - 04:57:29 PST)
- Re: [AMBER] MMPBSA.py: "fork()" system call to create a child process (Tue Nov 24 2020 - 07:52:02 PST)
- Re: [AMBER] Installing AmberTools20 compile error (Tue Nov 24 2020 - 05:13:11 PST)
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Sun Nov 22 2020 - 18:17:23 PST)
- Re: [AMBER] Tail-to-tail peptide linker? (Sun Nov 22 2020 - 05:57:30 PST)
- Re: [AMBER] antechamber error -sqm.out missing (Sat Nov 21 2020 - 05:53:17 PST)
- Re: [AMBER] Amber 20 make install problem (Sat Nov 21 2020 - 05:39:53 PST)
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Fri Nov 20 2020 - 04:58:36 PST)
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Thu Nov 19 2020 - 18:24:01 PST)
- Re: [AMBER] molecule twisted in QM/MM simulation (Thu Nov 19 2020 - 08:00:25 PST)
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Wed Nov 18 2020 - 06:30:05 PST)
- Re: [AMBER] thermal averaging of properties (Wed Nov 18 2020 - 06:19:19 PST)
- Re: [AMBER] Antechamber: Charge and dihedral issues (Mon Nov 16 2020 - 05:17:02 PST)
- Re: [AMBER] error input (Thu Nov 12 2020 - 05:34:03 PST)
- Re: [AMBER] Changes in DNA sugar chilarity at NMR volume restrained simulation (Thu Nov 12 2020 - 05:27:06 PST)
- Re: [AMBER] error input (Wed Nov 11 2020 - 19:30:32 PST)
- Re: [AMBER] error input (Wed Nov 11 2020 - 05:44:02 PST)
- Re: [AMBER] Addition of polyatomic ions in Leap (Mon Nov 09 2020 - 05:40:09 PST)
- Re: [AMBER] Protein preparation error (Fri Nov 06 2020 - 08:50:04 PST)
- Re: [AMBER] Ambertools20 installation (Thu Nov 05 2020 - 13:56:47 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Thu Nov 05 2020 - 05:37:10 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Wed Nov 04 2020 - 05:15:40 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Wed Nov 04 2020 - 05:09:15 PST)
- Re: [AMBER] Error while running MMGBSA (Tue Nov 03 2020 - 06:01:37 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Tue Nov 03 2020 - 05:57:32 PST)
- Re: [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference (Mon Nov 02 2020 - 17:58:54 PST)
- Re: [AMBER] Understanding restraint files generated from CHARMM-GUI (Mon Nov 02 2020 - 13:19:20 PST)
- Re: [AMBER] Screenshots for publications (Mon Nov 02 2020 - 04:23:34 PST)
- Re: [AMBER] RESTARTED DUE TO LINMIN FAILURE ... (Mon Nov 02 2020 - 04:22:52 PST)
- Re: [AMBER] NMR restraints (Mon Nov 02 2020 - 04:19:40 PST)
David Cerutti
- Re: [AMBER] Partial Charge with RESP (antechamber) (Thu Nov 26 2020 - 18:24:54 PST)
Debarati DasGupta
- [AMBER] FW: AMBER20 TI calculations (Fri Nov 27 2020 - 09:52:37 PST)
- [AMBER] AMBER20 TI calculations (Fri Nov 27 2020 - 09:15:49 PST)
- [AMBER] TI lambda scheduling file examples (Mon Nov 16 2020 - 13:12:38 PST)
- Re: [AMBER] NMR restraints (Mon Nov 02 2020 - 14:21:27 PST)
- Re: [AMBER] NMR restraints (Mon Nov 02 2020 - 14:19:50 PST)
- Re: [AMBER] NMR restraints (Sun Nov 01 2020 - 06:19:14 PST)
Delwakkada Liyanage, Senal Dinuka
- [AMBER] Help in amber TI automation script (Tue Nov 24 2020 - 12:29:52 PST)
Demian Riccardi
- [AMBER] installation issues with cuda 11.1 (Tue Nov 03 2020 - 10:16:57 PST)
Dr. Anselm Horn
- Re: [AMBER] Partial Charge with RESP (antechamber) (Fri Nov 27 2020 - 00:36:54 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 08:05:07 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 03:49:45 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 03:03:22 PST)
- Re: [AMBER] Help on understanding the errors (Fri Nov 06 2020 - 02:48:47 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Fri Nov 06 2020 - 02:15:24 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Thu Nov 05 2020 - 03:50:06 PST)
Elvis Martis
- Re: [AMBER] jupyter notebook (Thu Nov 19 2020 - 00:35:30 PST)
- Re: [AMBER] MM/PBSA after minimization (Mon Nov 02 2020 - 17:35:08 PST)
Emmett Leddin
- Re: [AMBER] tinker_to_amber (Wed Nov 25 2020 - 12:37:14 PST)
Erdem Yeler
- [AMBER] Effective Way To Perform Molecular Dynamics Simulation (Sat Nov 28 2020 - 15:20:56 PST)
Franz Waibl
- [AMBER] TI electrostatic free energy (Mon Nov 30 2020 - 06:34:44 PST)
Giorgos Lambrinidis
- Re: [AMBER] TI-Amber (Mon Nov 16 2020 - 00:18:42 PST)
- Re: [AMBER] TI-Amber (Sun Nov 15 2020 - 11:21:24 PST)
Goetz, Andreas
- Re: [AMBER] molecule twisted in QM/MM simulation (Sat Nov 21 2020 - 12:49:42 PST)
Gordon Richard Chalmers
- Re: [AMBER] question about gaps (Sun Nov 29 2020 - 10:41:30 PST)
- [AMBER] question about gaps (Sat Nov 28 2020 - 19:43:05 PST)
Gustaf Olsson
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 08:22:49 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 06:51:37 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 06:25:26 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Mon Nov 23 2020 - 00:11:56 PST)
- Re: [AMBER] cpptraj donor/acceptor definitions (Thu Nov 19 2020 - 02:46:00 PST)
- [AMBER] cpptraj donor/acceptor definitions (Wed Nov 18 2020 - 04:42:45 PST)
- Re: [AMBER] iwrap/autoimage - analyses (Wed Nov 11 2020 - 00:27:10 PST)
- Re: [AMBER] Help for building cross linking polymer using graphic antechamber (Tue Nov 10 2020 - 23:56:21 PST)
- Re: [AMBER] Query about generated (.pdb) files from GLYCAM Carbo builder (Tue Nov 10 2020 - 23:51:49 PST)
- Re: [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Tue Nov 10 2020 - 23:46:37 PST)
- [AMBER] iwrap/autoimage - analyses (Tue Nov 10 2020 - 03:13:26 PST)
- Re: [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Mon Nov 09 2020 - 00:45:26 PST)
- Re: [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Mon Nov 09 2020 - 00:40:53 PST)
- [AMBER] CPPTRAJ printout auto-detected hbond donor/acceptor (Fri Nov 06 2020 - 01:24:28 PST)
- Re: [AMBER] Saving pdb as parm7/prmtop file with boundary conditions (Thu Nov 05 2020 - 03:17:09 PST)
- [AMBER] Screenshots for publications (Mon Nov 02 2020 - 02:05:28 PST)
Gustavo Seabra
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 10:50:15 PST)
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 10:42:49 PST)
h.jolon.icloud.com
- Re: [AMBER] mdgx 'File not found' on macOS (Thu Nov 19 2020 - 06:52:32 PST)
- [AMBER] mdgx 'File not found' on macOS (Thu Nov 19 2020 - 06:44:22 PST)
h_sahakyan.mb.sci.am
- [AMBER] Fwd: Re: protein folding (Fri Nov 06 2020 - 06:02:34 PST)
- [AMBER] protein folding (Thu Nov 05 2020 - 08:20:43 PST)
- [AMBER] MM/PBSA after minimization (Mon Nov 02 2020 - 11:12:00 PST)
Hai Nguyen
- Re: [AMBER] jupyter notebook (Mon Nov 23 2020 - 17:59:56 PST)
- Re: [AMBER] pytraj (Mon Nov 23 2020 - 10:47:07 PST)
- Re: [AMBER] pytraj (Mon Nov 23 2020 - 10:28:51 PST)
- Re: [AMBER] pytraj (Thu Nov 19 2020 - 06:43:48 PST)
- Re: [AMBER] pytraj (Wed Nov 18 2020 - 16:26:28 PST)
Hrvoje Brkić
- [AMBER] Ambertools20 installation (Thu Nov 05 2020 - 07:31:41 PST)
Ikuo KURISAKI
- [AMBER] CPPTRAJ returns 'Warning: Box center specified but no box information' (Mon Nov 09 2020 - 22:35:21 PST)
Jason Swails
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Thu Nov 19 2020 - 16:34:20 PST)
Jenny 148
- [AMBER] Ubuntu version compatible for gpu installation of AMBER 18 (Thu Nov 19 2020 - 02:26:57 PST)
- [AMBER] Aqvist force field for magnesium (Sun Nov 01 2020 - 00:09:52 PDT)
Jordi Bujons
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Wed Nov 11 2020 - 05:47:18 PST)
- [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Sun Nov 08 2020 - 10:20:17 PST)
Juraj Dobias
- Re: [AMBER] System blows up when simulating under npt (Tue Nov 24 2020 - 03:35:06 PST)
Kanin Wichapong
- [AMBER] AMBER20, ff19SB and OPC (Fri Nov 13 2020 - 02:57:49 PST)
Kehinde Idowu
- Re: [AMBER] md simulation error (Sat Nov 28 2020 - 11:34:22 PST)
- [AMBER] md simulation error (Fri Nov 27 2020 - 08:41:08 PST)
koushik kasavajhala
- Re: [AMBER] protein domain "broken" (Mon Nov 09 2020 - 01:00:20 PST)
- Re: [AMBER] protein domain "broken"m (Mon Nov 09 2020 - 00:59:00 PST)
- Re: [AMBER] protein domain "broken" (Mon Nov 09 2020 - 00:53:57 PST)
Lennart Gundelach
- Re: [AMBER] Installing AmberTools20 compile error (Wed Nov 25 2020 - 04:47:32 PST)
- [AMBER] MMPBSA.py: "fork()" system call to create a child process (Mon Nov 23 2020 - 23:02:44 PST)
- [AMBER] Installing AmberTools20 compile error (Mon Nov 23 2020 - 22:55:45 PST)
Liao
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Sun Nov 22 2020 - 22:20:25 PST)
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Sun Nov 22 2020 - 16:20:43 PST)
- Re: [AMBER] vlimit=10 compromise for Amber 20 error: "an illegal memory access was encountered launching kernel kClearForces"? (Fri Nov 20 2020 - 13:18:33 PST)
- Re: [AMBER] AMBER20, ff19SB and OPC (Sat Nov 14 2020 - 11:07:40 PST)
lomzov
- [AMBER] Changes in DNA sugar chilarity at NMR volume restrained simulation (Wed Nov 11 2020 - 21:45:02 PST)
Lucy Yang
- Re: [AMBER] installing pmemd.cuda (Amber20, WSL2) (Thu Nov 05 2020 - 23:35:54 PST)
- [AMBER] installing pmemd.cuda (Amber20, WSL2) (Thu Nov 05 2020 - 20:46:31 PST)
M RCC
- [AMBER] FEW: Linear interaction energy calculations. (Fri Nov 06 2020 - 03:55:46 PST)
MADHUSMITA DEVI
- [AMBER] Addition of polyatomic ions in Leap (Sun Nov 08 2020 - 20:57:21 PST)
Maghsoud, Yazdan
- [AMBER] FES (Ferredoxin) Amber Parameters (Tue Nov 10 2020 - 06:50:46 PST)
Manisha
- [AMBER] FINAL RESULT MMPBSA QUERY (Tue Nov 17 2020 - 23:57:31 PST)
- [AMBER] MMPBSA/GBSA (Fri Nov 06 2020 - 03:11:36 PST)
Mariangela Dametto
- Re: [AMBER] AMBER 18 cuda installation error (Mon Nov 30 2020 - 04:25:25 PST)
- [AMBER] AMBER 18 cuda installation error (Wed Nov 25 2020 - 11:24:35 PST)
Michael Sonny Miller
- [AMBER] tinker_to_amber (Thu Nov 19 2020 - 13:47:09 PST)
Michele Vanini
- Re: [AMBER] Partial Charge with RESP (antechamber) (Fri Nov 27 2020 - 01:12:37 PST)
- [AMBER] Partial Charge with RESP (antechamber) (Thu Nov 26 2020 - 09:53:57 PST)
MYRIAN TORRES RICO
- Re: [AMBER] phi cremer (Wed Nov 25 2020 - 08:20:50 PST)
- [AMBER] phi angle puckering (Tue Nov 24 2020 - 00:45:52 PST)
- [AMBER] phi cremer (Mon Nov 23 2020 - 04:26:51 PST)
- Re: [AMBER] error input (Thu Nov 12 2020 - 01:16:32 PST)
- Re: [AMBER] error input (Wed Nov 11 2020 - 08:23:59 PST)
- [AMBER] error input (Wed Nov 11 2020 - 04:31:12 PST)
- Re: [AMBER] protein domain "broken" (Mon Nov 09 2020 - 00:52:22 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 04:39:16 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 04:11:56 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 03:21:48 PST)
- Re: [AMBER] protein domain "broken" (Fri Nov 06 2020 - 03:20:18 PST)
- [AMBER] protein domain "broken" (Fri Nov 06 2020 - 02:45:06 PST)
Nagakumar Bharatham
- Re: [AMBER] Amber 18 GPU installation error (Sun Nov 22 2020 - 23:13:30 PST)
- [AMBER] Amber 18 GPU installation error (Thu Nov 19 2020 - 00:56:13 PST)
Paul Keller
- [AMBER] Question again (Thu Nov 19 2020 - 23:42:28 PST)
Pengfei Li
- Re: [AMBER] Problem with acpype (Fri Nov 20 2020 - 08:37:36 PST)
- Re: [AMBER] Aqvist force field for magnesium (Fri Nov 20 2020 - 08:32:28 PST)
- Re: [AMBER] Help with parameterization of non-standard amino acid (Fri Nov 20 2020 - 08:24:41 PST)
- Re: [AMBER] MCBP.py errors (Fri Nov 20 2020 - 08:13:53 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Fri Nov 20 2020 - 08:02:16 PST)
- Re: [AMBER] Tri-coordination environment in zinc (Fri Nov 20 2020 - 07:42:47 PST)
- Re: [AMBER] a metal bound Met (Fri Nov 20 2020 - 07:25:39 PST)
- Re: [AMBER] Prmtop for protein + 2 identical ligands has wrong dihedral parameters for the second ligand. LEaP bug? (Fri Nov 20 2020 - 07:14:22 PST)
Pietro ARONICA
- Re: [AMBER] pytraj (Mon Nov 23 2020 - 02:16:28 PST)
- Re: [AMBER] pytraj (Wed Nov 18 2020 - 20:22:27 PST)
- [AMBER] pytraj (Wed Nov 18 2020 - 09:03:45 PST)
Piia Kokkonen
- Re: [AMBER] Amber20 and RNA simulations (Tue Nov 10 2020 - 04:38:25 PST)
Pinky Mazumder
- Re: [AMBER] Help for building cross linking polymer using graphic antechamber (Tue Nov 10 2020 - 19:06:02 PST)
- [AMBER] Query about generated (.pdb) files from GLYCAM Carbo builder (Tue Nov 10 2020 - 11:51:59 PST)
- [AMBER] AMORPHOUS HEMICELLULOSE (Sat Nov 07 2020 - 10:22:44 PST)
Prathit Chatterjee
- Re: [AMBER] Discrepancy between interaction energy of amber coordinate trajectories of a system (Sun Nov 08 2020 - 19:41:40 PST)
- [AMBER] Discrepancy between interaction energy of amber coordinate trajectories of a system (Sat Nov 07 2020 - 05:19:17 PST)
Qinghua Liao
- Re: [AMBER] molecule twisted in QM/MM simulation (Sat Nov 21 2020 - 12:32:04 PST)
- [AMBER] molecule twisted in QM/MM simulation (Thu Nov 19 2020 - 04:26:01 PST)
Raman Preet Singh
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Sun Nov 08 2020 - 23:20:57 PST)
Ray Luo
- Re: [AMBER] FINAL RESULT MMPBSA QUERY (Wed Nov 18 2020 - 21:47:25 PST)
Robert Konecny
- Re: [AMBER] Amber 20 on AMD ryzen + Nvidia 30XX (Sun Nov 08 2020 - 13:08:59 PST)
Sadaf Rani
- [AMBER] RESTARTED DUE TO LINMIN FAILURE ... (Sun Nov 01 2020 - 07:21:01 PST)
Salman Zarrini
- [AMBER] Fwd: Antechamber: Charge and dihedral issues (Sun Nov 15 2020 - 10:46:12 PST)
- [AMBER] Antechamber: Charge and dihedral issues (Fri Nov 13 2020 - 11:44:43 PST)
Sam Walsworth (Researcher)
- Re: [AMBER] Antechamber permissions issue (Mon Nov 30 2020 - 03:23:56 PST)
- Re: [AMBER] Antechamber permissions issue (Mon Nov 30 2020 - 02:48:13 PST)
- Re: [AMBER] Antechamber permissions issue (Mon Nov 30 2020 - 02:22:36 PST)
- Re: [AMBER] Antechamber permissions issue (Fri Nov 27 2020 - 06:37:44 PST)
- [AMBER] Antechamber permissions issue (Thu Nov 26 2020 - 09:37:18 PST)
Samuel Holmes
- [AMBER] using bridgebyatom keyword (Thu Nov 05 2020 - 10:22:47 PST)
Sarah Jane
- [AMBER] Program received signal SIGSEGV: Segmentation fault - invalid memory reference (Mon Nov 02 2020 - 16:39:05 PST)
SATYAJIT KHATUA
- Re: [AMBER] Tri-coordination environment in zinc (Sat Nov 21 2020 - 02:01:29 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Wed Nov 04 2020 - 23:08:48 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Tue Nov 03 2020 - 21:49:38 PST)
- Re: [AMBER] System preparation for MMPBSA.py (Mon Nov 02 2020 - 21:53:40 PST)
- Re: [AMBER] Tri-coordination environment in zinc (Mon Nov 02 2020 - 21:06:14 PST)
- Re: [AMBER] Tri-coordination environment in zinc (Sun Nov 01 2020 - 09:38:42 PST)
Seibold, Steve Allan
- [AMBER] MCBP.py errors (Mon Nov 16 2020 - 14:57:00 PST)
Setyanto Md
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Fri Nov 20 2020 - 06:59:42 PST)
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Thu Nov 19 2020 - 20:08:29 PST)
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Thu Nov 19 2020 - 15:35:15 PST)
- [AMBER] Unsupported Cuda Version on Amber 20 Installation (Wed Nov 18 2020 - 03:57:36 PST)
Soheila Shokrollahzade
- [AMBER] Using the rep.C0.pdb as a reference structure in RMSD analysis (Tue Nov 24 2020 - 07:56:42 PST)
Song, Lin
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 08:47:44 PST)
Souvik Dey
- [AMBER] Understanding restraint files generated from CHARMM-GUI (Mon Nov 02 2020 - 11:05:45 PST)
Stephan Schott
- Re: [AMBER] AMBER20, ff19SB and OPC (Sat Nov 14 2020 - 10:20:43 PST)
- Re: [AMBER] GAFF.dat format: what does the second numeric column mean? (Sat Nov 14 2020 - 09:46:35 PST)
Suchetana Gupta
- [AMBER] Error while running MMGBSA (Mon Nov 02 2020 - 22:26:07 PST)
Tru Huynh
- Re: [AMBER] AMBER 18 cuda installation error (Wed Nov 25 2020 - 14:40:24 PST)
Vaibhav Dixit
- Re: [AMBER] thermal averaging of properties (Wed Nov 18 2020 - 06:24:34 PST)
- [AMBER] thermal averaging of properties (Tue Nov 17 2020 - 18:58:11 PST)
- [AMBER] MMPBSA.py bad atom type: M1 error (Mon Nov 16 2020 - 01:23:00 PST)
- Re: [AMBER] how find Es from mdout to estimate vertical energy gap (Sat Oct 31 2020 - 23:05:54 PDT)
Victor Jun Yu Lim
- [AMBER] ABMD NFE queries (Wed Nov 18 2020 - 01:40:38 PST)
viktor
- Re: [AMBER] Unsupported Cuda Version on Amber 20 Installation (Wed Nov 18 2020 - 06:31:08 PST)
wangjianing_mail
- [AMBER] Question about the 'softcore part' of outputfile in pmemd (Wed Nov 04 2020 - 03:09:37 PST)
- [AMBER] Question about the outfile of 'softcore part' (Wed Nov 04 2020 - 03:08:36 PST)
Wu Xu
- Re: [AMBER] a metal bound Met (Fri Nov 20 2020 - 07:55:42 PST)
Zhu Liang
- Re: [AMBER] GAFF.dat format: what does the second numeric column mean? (Sat Nov 14 2020 - 10:58:05 PST)
- [AMBER] GAFF.dat format: what does the second numeric column mean? (Sat Nov 14 2020 - 09:35:40 PST)
Женя Елизарова
- Re: [AMBER] An error during NPT/production (GPU run) (Sun Nov 29 2020 - 22:09:24 PST)
- Re: [AMBER] An error during NPT/production (GPU run) (Sat Nov 28 2020 - 00:10:09 PST)
- [AMBER] An error during NPT/production (GPU run) (Thu Nov 26 2020 - 10:05:33 PST)
辛志宏
- [AMBER] Regarding to the parameters setup in SMD simulation (Sat Nov 21 2020 - 00:35:00 PST)
- Re: [AMBER] How to correct the H atom direction in the HIE residue? (Sat Nov 14 2020 - 05:24:07 PST)
- [AMBER] How to correct the H atom direction in the HIE residue? (Fri Nov 13 2020 - 05:41:02 PST)
钟海洋
- [AMBER] How to introduce repulsive force between ligands during simulation? (Fri Nov 13 2020 - 23:49:58 PST)
변진영
- [AMBER] How can I solve the high RMS problem? (Wed Nov 18 2020 - 22:50:09 PST)

Amber Archive Nov 2020 by author