Amber Archive Sep 2020 by thread
398 messages
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Starting
Tue Sep 01 2020 - 00:00:02 PDT,
Ending
Wed Sep 30 2020 - 22:30:02 PDT
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[AMBER] How to use the ntb options in amber-cuda-version
neildancer.sina.com
(Mon Aug 31 2020 - 23:32:32 PDT)
Re: [AMBER] How to use the ntb options in amber-cuda-version
David Cerutti
(Tue Sep 01 2020 - 00:38:48 PDT)
Re: [AMBER] How to use the ntb options in amber-cuda-version
neildancer.sina.com
(Tue Sep 01 2020 - 01:34:08 PDT)
Re: [AMBER] How to use the ntb options in amber-cuda-version
Daniel Roe
(Fri Sep 04 2020 - 10:49:14 PDT)
Re: [AMBER] How to use the ntb options in amber-cuda-version
neildancer.sina.com
(Sun Sep 06 2020 - 03:35:05 PDT)
Re: [AMBER] Attention: All CPPTRAJ Questions
Gustaf Olsson
(Tue Sep 01 2020 - 00:29:42 PDT)
[AMBER] Enquiry
Kehinde Idowu
(Tue Sep 01 2020 - 02:12:22 PDT)
Re: [AMBER] Enquiry
Bill Ross
(Tue Sep 01 2020 - 02:40:28 PDT)
Re: [AMBER] Enquiry
Kehinde Idowu
(Tue Sep 01 2020 - 06:12:25 PDT)
Re: [AMBER] Enquiry
Gustaf Olsson
(Tue Sep 01 2020 - 23:51:28 PDT)
[AMBER] Amber 18 generates error: an illegal memory access was encountered launching kernel kNLSkinTest
Lucas, Xavier
(Tue Sep 01 2020 - 05:52:51 PDT)
Re: [AMBER] Amber 18 generates error: an illegal memory access was encountered launching kernel kNLSkinTest
David A Case
(Fri Sep 04 2020 - 06:21:36 PDT)
Re: [AMBER] Questions (and a small bug report) about SIRAH in Amber
Matias Machado
(Tue Sep 01 2020 - 07:38:41 PDT)
Re: [AMBER] Questions (and a small bug report) about SIRAH in Amber
Charo del Genio
(Tue Sep 01 2020 - 08:06:44 PDT)
[AMBER] Questions on deriving charges for aromatic compounds using The RESP Method
Lucas Bandeira
(Tue Sep 01 2020 - 16:37:54 PDT)
Re: [AMBER] Questions on deriving charges for aromatic compounds using The RESP Method
David A Case
(Wed Sep 02 2020 - 06:12:47 PDT)
Re: [AMBER] Questions on deriving charges for aromatic compounds using The RESP Method
Lucas Bandeira
(Wed Sep 02 2020 - 11:47:45 PDT)
[AMBER] Generating topology using tleap
Lucas Bandeira
(Tue Sep 01 2020 - 16:52:03 PDT)
Re: [AMBER] Generating topology using tleap
Gustaf Olsson
(Tue Sep 01 2020 - 23:55:12 PDT)
Re: [AMBER] Generating topology using tleap
Lucas Bandeira
(Fri Sep 04 2020 - 10:47:41 PDT)
[AMBER] Two problems about Amber's TI totorial
ecnu_wangbo
(Tue Sep 01 2020 - 22:43:32 PDT)
[AMBER] MCPB parametrization for an RNA systems
Claire Claire
(Wed Sep 02 2020 - 02:43:38 PDT)
Re: [AMBER] MCPB parametrization for an RNA systems
Pengfei Li
(Thu Sep 10 2020 - 13:49:28 PDT)
[AMBER] best way to umbrella-sample a pseudo-dihedral angle Collective Variable
Akshay Prabhakant
(Wed Sep 02 2020 - 04:18:17 PDT)
Re: [AMBER] best way to umbrella-sample a pseudo-dihedral angle Collective Variable
Bill Ross
(Wed Sep 02 2020 - 04:57:22 PDT)
Re: [AMBER] best way to umbrella-sample a pseudo-dihedral angle Collective Variable
David A Case
(Wed Sep 02 2020 - 06:10:40 PDT)
Re: [AMBER] best way to umbrella-sample a pseudo-dihedral angle Collective Variable
Kellon Belfon
(Wed Sep 02 2020 - 07:27:23 PDT)
Re: [AMBER] best way to umbrella-sample a pseudo-dihedral angle Collective Variable
Akshay Prabhakant
(Thu Sep 03 2020 - 10:49:13 PDT)
[AMBER] [MicrosoftExchange329e71ec88ae4615bbc36ab6ce41109e@rutgegetting a nucleic acid helix structure
David A Case
(Wed Sep 02 2020 - 06:03:58 PDT)
Re: [AMBER] [MicrosoftExchange329e71ec88ae4615bbc36ab6ce41109e@rutgegetting a nucleic acid helix structure
aishen
(Wed Sep 02 2020 - 07:55:22 PDT)
Re: [AMBER] executable names from nab
David A Case
(Thu Sep 03 2020 - 07:26:30 PDT)
Re: [AMBER] executable names from nab
aishen
(Thu Sep 03 2020 - 10:16:39 PDT)
[AMBER] Fw: prepare_ligand4.py converts CA carbons to calcium atoms when doing the mol2 to pdbqt format conversion
Esposito Carmen
(Wed Sep 02 2020 - 06:17:09 PDT)
Re: [AMBER] Fw: prepare_ligand4.py converts CA carbons to calcium atoms when doing the mol2 to pdbqt format conversion
David A Case
(Thu Sep 03 2020 - 13:36:59 PDT)
Re: [AMBER] Fw: prepare_ligand4.py converts CA carbons to calcium atoms when doing the mol2 to pdbqt format conversion
Charo del Genio
(Fri Sep 04 2020 - 01:17:31 PDT)
Re: [AMBER] Fw: prepare_ligand4.py converts CA carbons to calcium atoms when doing the mol2 to pdbqt format conversion
Esposito Carmen
(Fri Sep 04 2020 - 01:26:43 PDT)
[AMBER] umbrella protein-protein
Fabian Glaser
(Wed Sep 02 2020 - 08:02:55 PDT)
[AMBER] cPHMD: how to define residues with two pkas
Kolattukudy P. Santo
(Wed Sep 02 2020 - 19:35:40 PDT)
Re: [AMBER] cPHMD: how to define residues with two pkas
Cruzeiro,Vinicius Wilian D
(Wed Sep 02 2020 - 20:28:41 PDT)
Re: [AMBER] cPHMD: how to define residues with two pkas
Kolattukudy P. Santo
(Mon Sep 07 2020 - 08:45:31 PDT)
[AMBER] 30 Series GPUs from Nvidia
Homeo Morphism
(Thu Sep 03 2020 - 07:20:02 PDT)
Re: [AMBER] 30 Series GPUs from Nvidia
Hashemi, Mohtadin
(Thu Sep 03 2020 - 12:22:39 PDT)
[AMBER] MCPB with OPC water?
Gustavo Seabra
(Thu Sep 03 2020 - 07:24:43 PDT)
Re: [AMBER] MCPB with OPC water?
Gustavo Seabra
(Tue Sep 08 2020 - 06:09:55 PDT)
Re: [AMBER] MCPB with OPC water?
David Cerutti
(Tue Sep 08 2020 - 06:32:11 PDT)
Re: [AMBER] MCPB with OPC water?
Casalini Tommaso
(Tue Sep 08 2020 - 06:34:43 PDT)
Re: [AMBER] MCPB with OPC water?
Gustavo Seabra
(Tue Sep 08 2020 - 06:41:28 PDT)
Re: [AMBER] MCPB with OPC water?
Pengfei Li
(Thu Sep 10 2020 - 14:06:17 PDT)
Re: [AMBER] MCPB with OPC water?
Gustavo Seabra
(Fri Sep 11 2020 - 05:46:22 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Thu Sep 03 2020 - 08:21:03 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
David A Case
(Thu Sep 03 2020 - 13:29:03 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Mon Sep 07 2020 - 04:20:19 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
David A Case
(Mon Sep 07 2020 - 05:47:49 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Mon Sep 07 2020 - 08:09:36 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
David A Case
(Mon Sep 07 2020 - 08:57:45 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Wed Sep 09 2020 - 05:22:21 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Sun Sep 27 2020 - 17:15:48 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
David A Case
(Mon Sep 28 2020 - 05:23:12 PDT)
Re: [AMBER] Fw: covalent molecule and modified residue parameters
Sarah Jane
(Mon Sep 28 2020 - 05:51:58 PDT)
[AMBER] Cpptraj pucker amplitude units?
Kenneth Huang
(Thu Sep 03 2020 - 11:09:40 PDT)
Re: [AMBER] Cpptraj pucker amplitude units?
Daniel Roe
(Fri Sep 04 2020 - 10:26:23 PDT)
[AMBER] Molecular creations rather than annihilations in AMBER18/20
Debarati DasGupta
(Thu Sep 03 2020 - 15:17:29 PDT)
[AMBER] Molecular creations rather than annihilations in AMBER18/20
Debarati DasGupta
(Thu Sep 03 2020 - 15:18:43 PDT)
[AMBER] | ERROR: I could not find enough velocities in 1346.rst7
Lod King
(Thu Sep 03 2020 - 18:03:47 PDT)
Re: [AMBER] | ERROR: I could not find enough velocities in 1346.rst7
Bill Ross
(Thu Sep 03 2020 - 19:19:21 PDT)
Re: [AMBER] | ERROR: I could not find enough velocities in 1346.rst7
Lod King
(Thu Sep 03 2020 - 19:45:13 PDT)
Re: [AMBER] | ERROR: I could not find enough velocities in 1346.rst7
Bill Ross
(Thu Sep 03 2020 - 22:49:55 PDT)
Re: [AMBER] | ERROR: I could not find enough velocities in 1346.rst7
Daniel Roe
(Fri Sep 04 2020 - 10:21:10 PDT)
Re: [AMBER] "After the fact" lifetime analysis with CPPTRAJ
Daniel Roe
(Fri Sep 04 2020 - 10:41:59 PDT)
Re: [AMBER] How to select groups for energy calculations-CPPtraj
Daniel Roe
(Fri Sep 04 2020 - 10:45:54 PDT)
Re: [AMBER] Stripping Protocol in Cpptraj
Daniel Roe
(Fri Sep 04 2020 - 10:55:31 PDT)
Re: [AMBER] Stripping Protocol in Cpptraj
An Ta
(Fri Sep 04 2020 - 12:40:12 PDT)
Re: [AMBER] Stripping Protocol in Cpptraj
Daniel Roe
(Fri Sep 04 2020 - 16:33:25 PDT)
Re: [AMBER] Confusion regarding Center of mass coordinates for protein, with CPPTRAJ
Daniel Roe
(Fri Sep 04 2020 - 11:00:41 PDT)
Re: [AMBER] Change covar matrix precision when crdaction is used
Daniel Roe
(Fri Sep 04 2020 - 11:07:00 PDT)
Re: [AMBER] Unable to complete heating stage
Daniel Roe
(Fri Sep 04 2020 - 11:08:24 PDT)
[AMBER] Cyclic peptides in Amber?
Alexander Izvorski
(Fri Sep 04 2020 - 22:52:52 PDT)
Re: [AMBER] Cyclic peptides in Amber?
Bill Ross
(Sat Sep 05 2020 - 00:59:26 PDT)
Re: [AMBER] Cyclic peptides in Amber?
Alexander Izvorski
(Sat Sep 05 2020 - 01:05:14 PDT)
Re: [AMBER] Cyclic peptides in Amber?
Bill Ross
(Sat Sep 05 2020 - 01:06:59 PDT)
Re: [AMBER] Cyclic peptides in Amber?
Bill Ross
(Sat Sep 05 2020 - 01:10:55 PDT)
Re: [AMBER] Cyclic peptides in Amber?
David A Case
(Sat Sep 05 2020 - 11:40:52 PDT)
Re: [AMBER] Cyclic peptides in Amber?
Alexander Izvorski
(Sun Sep 06 2020 - 15:14:29 PDT)
[AMBER] constant pH MD in explicit solvent
SATYAJIT KHATUA
(Sat Sep 05 2020 - 00:15:59 PDT)
Re: [AMBER] constant pH MD in explicit solvent
Cruzeiro,Vinicius Wilian D
(Sat Sep 05 2020 - 10:22:53 PDT)
[AMBER] RMSD do not increase with the increase of temperature
ali akbar
(Sat Sep 05 2020 - 01:00:37 PDT)
Re: [AMBER] RMSD do not increase with the increase of temperature
Bill Ross
(Sat Sep 05 2020 - 01:05:12 PDT)
[AMBER] finding number of atoms within a radius
Saikat Pal
(Sun Sep 06 2020 - 22:25:51 PDT)
Re: [AMBER] finding number of atoms within a radius
Elvis Martis
(Mon Sep 07 2020 - 00:05:26 PDT)
Re: [AMBER] finding number of atoms within a radius
Saikat Pal
(Mon Sep 07 2020 - 01:50:06 PDT)
Re: [AMBER] finding number of atoms within a radius
Daniel Roe
(Fri Sep 25 2020 - 10:58:39 PDT)
[AMBER] Parametrization of GTP and terminal phosphate of DNA
Jenny 148
(Mon Sep 07 2020 - 02:35:31 PDT)
Re: [AMBER] Parametrization of GTP and terminal phosphate of DNA
David A Case
(Mon Sep 07 2020 - 05:31:56 PDT)
Re: [AMBER] Parametrization of GTP and terminal phosphate of DNA
Jenny 148
(Mon Sep 07 2020 - 06:45:54 PDT)
Re: [AMBER] Parametrization of GTP and terminal phosphate of DNA
Jenny 148
(Mon Sep 07 2020 - 09:18:03 PDT)
Re: [AMBER] Parametrization of GTP and terminal phosphate of DNA
Jenny 148
(Mon Sep 28 2020 - 09:31:44 PDT)
Re: [AMBER] Parametrization of GTP and terminal phosphate of DNA
David A Case
(Mon Sep 28 2020 - 18:50:49 PDT)
[AMBER] Simulation of 10 ns DNA - ligand intercalation
Erdem Yeler
(Mon Sep 07 2020 - 02:42:23 PDT)
Re: [AMBER] Simulation of 10 ns DNA - ligand intercalation
David A Case
(Mon Sep 07 2020 - 05:37:07 PDT)
Re: [AMBER] Simulation of 10 ns DNA - ligand intercalation
Erdem Yeler
(Mon Sep 07 2020 - 06:03:47 PDT)
[AMBER] Just for info
aishen
(Mon Sep 07 2020 - 03:03:09 PDT)
Re: [AMBER] Just for info
Bill Ross
(Mon Sep 07 2020 - 03:17:18 PDT)
Re: [AMBER] Just for info
David A Case
(Mon Sep 07 2020 - 05:40:20 PDT)
Re: [AMBER] Just for info
aishen
(Mon Sep 07 2020 - 08:55:31 PDT)
[AMBER] Cluster representation over trajectory
Hector A. Baldoni
(Mon Sep 07 2020 - 06:57:22 PDT)
Re: [AMBER] Cluster representation over trajectory
Hector A. Baldoni
(Mon Sep 07 2020 - 08:36:42 PDT)
[AMBER] Combining repeated MD trajectories
Nada Afiva
(Mon Sep 07 2020 - 16:59:25 PDT)
Re: [AMBER] Combining repeated MD trajectories
Song, Lin
(Mon Sep 07 2020 - 18:23:06 PDT)
Re: [AMBER] Combining repeated MD trajectories
Nada Afiva
(Mon Sep 07 2020 - 18:56:43 PDT)
Re: [AMBER] Combining repeated MD trajectories
Rodrigo Galindo-Murillo
(Mon Sep 07 2020 - 19:51:33 PDT)
Re: [AMBER] Combining repeated MD trajectories
Nada Afiva
(Mon Sep 07 2020 - 23:46:05 PDT)
Re: [AMBER] Combining repeated MD trajectories
Clorice Reinhardt
(Tue Sep 08 2020 - 02:26:18 PDT)
Re: [AMBER] Combining repeated MD trajectories
Setyanto Md
(Tue Sep 08 2020 - 02:53:16 PDT)
Re: [AMBER] Combining repeated MD trajectories
Nada Afiva
(Tue Sep 08 2020 - 03:42:05 PDT)
[AMBER] AmberHub down ?
Setyanto Md
(Mon Sep 07 2020 - 17:24:59 PDT)
Re: [AMBER] AmberHub down ?
Rodrigo Galindo-Murillo
(Mon Sep 07 2020 - 17:34:35 PDT)
Re: [AMBER] AmberHub down ?
Setyanto Md
(Mon Sep 07 2020 - 17:39:14 PDT)
[AMBER] free binding energy
Kehinde Idowu
(Mon Sep 07 2020 - 22:44:34 PDT)
Re: [AMBER] free binding energy
Song, Lin
(Tue Sep 08 2020 - 01:33:04 PDT)
[AMBER] "nan" appeared in mmpbsa result
Xinye Wang
(Tue Sep 08 2020 - 03:32:44 PDT)
Re: [AMBER] "nan" appeared in mmpbsa result
Ray Luo
(Tue Sep 08 2020 - 11:46:43 PDT)
[AMBER] Strange RMSD tower appearing in simulation
Jorge da Rocha
(Tue Sep 08 2020 - 08:42:51 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
Carlos Simmerling
(Tue Sep 08 2020 - 08:58:47 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
David Cerutti
(Tue Sep 08 2020 - 09:20:49 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
David A Case
(Tue Sep 08 2020 - 11:23:42 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
Dr. Anselm Horn
(Wed Sep 09 2020 - 01:12:56 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
Jorge da Rocha
(Wed Sep 09 2020 - 05:09:15 PDT)
Re: [AMBER] Strange RMSD tower appearing in simulation
David Cerutti
(Wed Sep 09 2020 - 08:04:06 PDT)
Re: [AMBER] Cartesian restraints on Production phase
David A Case
(Tue Sep 08 2020 - 11:18:28 PDT)
[AMBER] OE Tool kit
Debarati DasGupta
(Tue Sep 08 2020 - 11:31:21 PDT)
Re: [AMBER] OE Tool kit
Raman Preet Singh
(Wed Sep 09 2020 - 02:48:36 PDT)
[AMBER] protein-protein interaction plot
Kehinde Idowu
(Tue Sep 08 2020 - 13:51:13 PDT)
[AMBER] antechamber & parmck2
Lod King
(Tue Sep 08 2020 - 18:25:38 PDT)
Re: [AMBER] antechamber & parmck2
Gustaf Olsson
(Wed Sep 09 2020 - 00:20:13 PDT)
Re: [AMBER] antechamber & parmck2
Lod King
(Wed Sep 09 2020 - 07:12:30 PDT)
Re: [AMBER] antechamber & parmck2
Gustaf Olsson
(Wed Sep 09 2020 - 23:49:53 PDT)
Re: [AMBER] antechamber & parmck2
Lod King
(Thu Sep 10 2020 - 00:09:58 PDT)
Re: [AMBER] antechamber & parmck2
Gustaf Olsson
(Thu Sep 10 2020 - 00:31:35 PDT)
[AMBER] Adding ions at a particular position
Athena N
(Tue Sep 08 2020 - 21:14:17 PDT)
Re: [AMBER] Adding ions at a particular position
Gustaf Olsson
(Wed Sep 09 2020 - 00:08:27 PDT)
Re: [AMBER] Adding ions at a particular position
Dr. Anselm Horn
(Wed Sep 09 2020 - 00:57:05 PDT)
[AMBER] The status of GAFF2
Gustaf Olsson
(Wed Sep 09 2020 - 01:26:00 PDT)
[AMBER] PLUMED masterclass
David A Case
(Wed Sep 09 2020 - 05:20:09 PDT)
Re: [AMBER] error tleap
Gustaf Olsson
(Wed Sep 09 2020 - 05:21:37 PDT)
Re: [AMBER] error tleap
MYRIAN TORRES RICO
(Wed Sep 09 2020 - 11:52:24 PDT)
Re: [AMBER] error tleap
Gustaf Olsson
(Thu Sep 10 2020 - 00:19:27 PDT)
Re: [AMBER] error tleap
MYRIAN TORRES RICO
(Thu Sep 10 2020 - 02:38:29 PDT)
Re: [AMBER] error tleap
Gustaf Olsson
(Thu Sep 10 2020 - 04:28:17 PDT)
[AMBER] SHAKEH hydrogen clusters
Pietro Aronica
(Thu Sep 10 2020 - 05:19:39 PDT)
Re: [AMBER] SHAKEH hydrogen clusters
David A Case
(Thu Sep 10 2020 - 10:07:01 PDT)
Re: [AMBER] SHAKEH hydrogen clusters
pietroa.bii.a-star.edu.sg
(Thu Sep 10 2020 - 19:16:20 PDT)
Re: [AMBER] SHAKEH hydrogen clusters
David A Case
(Fri Sep 11 2020 - 08:27:15 PDT)
Re: [AMBER] SHAKEH hydrogen clusters
pietroa.bii.a-star.edu.sg
(Fri Sep 11 2020 - 22:30:55 PDT)
Re: [AMBER] SHAKEH hydrogen clusters
David A Case
(Thu Sep 17 2020 - 06:24:55 PDT)
Re: [AMBER] error tleap
MYRIAN TORRES RICO
(Fri Sep 11 2020 - 03:46:31 PDT)
Re: [AMBER] error tleap
Gustaf Olsson
(Tue Sep 15 2020 - 05:27:44 PDT)
Re: [AMBER] error tleap
MYRIAN TORRES RICO
(Wed Sep 16 2020 - 01:17:40 PDT)
Re: [AMBER] error tleap
Gustaf Olsson
(Wed Sep 16 2020 - 02:05:01 PDT)
[AMBER] OE tools help
Debarati DasGupta
(Wed Sep 09 2020 - 05:41:04 PDT)
Re: [AMBER] OE tools help
Raman Preet Singh
(Thu Sep 10 2020 - 02:36:25 PDT)
Re: [AMBER] OE tools help
Raman Preet Singh
(Thu Sep 10 2020 - 02:58:58 PDT)
Re: [AMBER] AMBER Digest, Vol 3114, Issue 1
SATYAJIT KHATUA
(Wed Sep 09 2020 - 09:09:06 PDT)
[AMBER] Growing of small molecules instead of annihilation of molecules in amber TI simulations
Debarati DasGupta
(Wed Sep 09 2020 - 15:35:40 PDT)
Re: [AMBER] Growing of small molecules instead of annihilation of molecules in amber TI simulations
David A Case
(Thu Sep 10 2020 - 06:23:14 PDT)
Re: [AMBER] Growing of small molecules instead of annihilation of molecules in amber TI simulations
Debarati DasGupta
(Sat Sep 12 2020 - 06:31:01 PDT)
[AMBER] Normal Model Analysis with AmberTools20
Harley Wilson
(Wed Sep 09 2020 - 16:09:46 PDT)
Re: [AMBER] Normal Model Analysis with AmberTools20
David A Case
(Thu Sep 10 2020 - 06:31:19 PDT)
Re: [AMBER] azobenzene atoms name in amber format
Aashish Bhatt
(Thu Sep 10 2020 - 04:14:30 PDT)
[AMBER] Fwd: azobenzene atoms name in amber format
Aashish Bhatt
(Fri Sep 11 2020 - 07:58:40 PDT)
Re: [AMBER] Fwd: azobenzene atoms name in amber format
David A Case
(Fri Sep 11 2020 - 08:24:26 PDT)
[AMBER] problem with cpptraj
Marko Sever
(Thu Sep 10 2020 - 05:57:49 PDT)
Re: [AMBER] problem with cpptraj
Daniel Roe
(Thu Sep 10 2020 - 06:13:48 PDT)
Re: [AMBER] problem with cpptraj
Marko Sever
(Thu Sep 10 2020 - 06:26:52 PDT)
Re: [AMBER] problem with cpptraj
Daniel Roe
(Thu Sep 10 2020 - 09:10:34 PDT)
[AMBER] Regarding help in installation (LINUX ubuntu)
swapnil singh
(Thu Sep 10 2020 - 08:13:16 PDT)
Re: [AMBER] Regarding help in installation (LINUX ubuntu)
David A Case
(Thu Sep 10 2020 - 11:57:29 PDT)
Re: [AMBER] Regarding help in installation (LINUX ubuntu)
Raman Preet Singh
(Fri Sep 11 2020 - 01:19:04 PDT)
Re: [AMBER] Regarding help in installation (LINUX ubuntu)
aishen
(Fri Sep 11 2020 - 02:04:03 PDT)
Re: [AMBER] Regarding help in installation (LINUX ubuntu)
Daniel Roe
(Wed Sep 23 2020 - 03:53:43 PDT)
Re: [AMBER] Refitting charges with MCPB destabilizes the active site
Pengfei Li
(Thu Sep 10 2020 - 13:19:01 PDT)
Re: [AMBER] How to deal with oxygen atom on Fe=O of Compound I (heme enzyme, P450)
Pengfei Li
(Thu Sep 10 2020 - 13:25:21 PDT)
Re: [AMBER] How to deal with oxygen atom on Fe=O of Compound I (heme enzyme, P450)
Pengfei Li
(Thu Sep 10 2020 - 13:27:39 PDT)
Re: [AMBER] How to deal with oxygen atom on Fe=O of Compound I (heme enzyme, P450)
Vaibhav Dixit
(Fri Sep 11 2020 - 19:21:07 PDT)
Re: [AMBER] How to deal with oxygen atom on Fe=O of Compound I (heme enzyme, P450)
Vaibhav Dixit
(Sat Sep 12 2020 - 04:29:46 PDT)
Re: [AMBER] How to deal with oxygen atom on Fe=O of Compound I (heme enzyme, P450)
Vaibhav Dixit
(Sat Sep 19 2020 - 23:54:31 PDT)
[AMBER] Visualizing the system trajectory from .nc file
Jatin Kashyap
(Thu Sep 10 2020 - 21:36:21 PDT)
Re: [AMBER] Visualizing the system trajectory from .nc file
Emmett Leddin
(Thu Sep 10 2020 - 22:29:18 PDT)
Re: [AMBER] Visualizing the system trajectory from .nc file
Jatin Kashyap
(Mon Sep 14 2020 - 14:08:14 PDT)
[AMBER] Dextrins
zmatovic.kg.ac.rs
(Fri Sep 11 2020 - 02:24:20 PDT)
[AMBER] Dynamic cross correlation between the center of mass of two groups of atoms
Jorden Cabal
(Fri Sep 11 2020 - 03:56:32 PDT)
Re: [AMBER] Dynamic cross correlation between the center of mass of two groups of atoms
David A Case
(Fri Sep 11 2020 - 11:22:32 PDT)
[AMBER] AQUA-DUCT Webinar 23rd September 2020
Maria Bzówka
(Fri Sep 11 2020 - 06:14:52 PDT)
[AMBER] constant pH MD in explicit solvent
SATYAJIT KHATUA
(Mon Sep 14 2020 - 00:13:17 PDT)
Re: [AMBER] constant pH MD in explicit solvent
Cruzeiro,Vinicius Wilian D
(Mon Sep 14 2020 - 08:48:45 PDT)
[AMBER] pymsmt.exp.pymsmtError: MOL is required in naa_mol2files but not provided.
CHENTOUF Sara
(Mon Sep 14 2020 - 07:25:09 PDT)
[AMBER] Of possible interest: Chem Faiss
Bill Ross
(Tue Sep 15 2020 - 04:33:28 PDT)
[AMBER] preparing parameter files for a ligand
Siavoush Dastmalchi
(Tue Sep 15 2020 - 09:34:27 PDT)
Re: [AMBER] preparing parameter files for a ligand
David A Case
(Wed Sep 16 2020 - 05:26:30 PDT)
Re: [AMBER] preparing parameter files for a ligand
Siavoush Dastmalchi
(Wed Sep 16 2020 - 06:07:22 PDT)
[AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Vaibhav Dixit
(Tue Sep 15 2020 - 11:57:54 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
David A Case
(Wed Sep 16 2020 - 05:59:05 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Vaibhav Dixit
(Wed Sep 16 2020 - 08:39:41 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
David A Case
(Thu Sep 17 2020 - 05:58:08 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Vaibhav Dixit
(Thu Sep 17 2020 - 10:07:44 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Adrian Roitberg
(Thu Sep 17 2020 - 10:20:47 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Vaibhav Dixit
(Fri Sep 18 2020 - 02:24:46 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
David A Case
(Fri Sep 18 2020 - 04:58:57 PDT)
Re: [AMBER] expected average fluctuations in amino acid covalent bond distances, angle and torsion during typical md simulations
Vaibhav Dixit
(Fri Sep 18 2020 - 09:37:38 PDT)
[AMBER] Is it possible to run QM/MM-PIMD simulations with sander?
proszx
(Wed Sep 16 2020 - 02:10:52 PDT)
[AMBER] adding lysyl-phosphatidylglycerol and cardiolipin
Chetna Tyagi
(Wed Sep 16 2020 - 05:11:05 PDT)
Re: [AMBER] adding lysyl-phosphatidylglycerol and cardiolipin
Stephan Schott
(Wed Sep 23 2020 - 08:33:07 PDT)
Re: [AMBER] adding lysyl-phosphatidylglycerol and cardiolipin
Chetna Tyagi
(Thu Sep 24 2020 - 04:30:37 PDT)
[AMBER] Query on nucleic acid force fields
Jenny 148
(Wed Sep 16 2020 - 06:11:38 PDT)
Re: [AMBER] Query on nucleic acid force fields
David Cerutti
(Wed Sep 16 2020 - 20:35:21 PDT)
Re: [AMBER] Query on nucleic acid force fields
Jenny 148
(Wed Sep 16 2020 - 21:15:16 PDT)
Re: [AMBER] Query on nucleic acid force fields
David Cerutti
(Wed Sep 16 2020 - 21:28:20 PDT)
Re: [AMBER] Query on nucleic acid force fields
Jiri Sponer
(Thu Sep 17 2020 - 01:47:13 PDT)
Re: [AMBER] Query on nucleic acid force fields
Jenny 148
(Thu Sep 17 2020 - 01:53:11 PDT)
Re: [AMBER] Query on nucleic acid force fields
Jiri Sponer
(Thu Sep 17 2020 - 02:42:20 PDT)
[AMBER] Generate deleted .rst file from coordinates?
Alysia Mandato
(Wed Sep 16 2020 - 06:54:41 PDT)
Re: [AMBER] Generate deleted .rst file from coordinates?
Daniel Roe
(Wed Sep 16 2020 - 08:05:32 PDT)
Re: [AMBER] Generate deleted .rst file from coordinates?
Alysia Mandato
(Thu Sep 17 2020 - 07:36:34 PDT)
[AMBER] Advice on calculating binding energies of enantiomers
Billiot, Eugene
(Wed Sep 16 2020 - 07:05:50 PDT)
[AMBER] Tleap creates only one residue
Farkhad Maksudov
(Wed Sep 16 2020 - 18:43:58 PDT)
Re: [AMBER] Tleap creates only one residue
Bill Ross
(Wed Sep 16 2020 - 20:10:42 PDT)
Re: [AMBER] Tleap creates only one residue
David A Case
(Thu Sep 17 2020 - 05:45:26 PDT)
Re: [AMBER] Tleap creates only one residue
Farkhad Maksudov
(Thu Sep 17 2020 - 13:25:11 PDT)
[AMBER] constant pH error
Kolattukudy P. Santo
(Wed Sep 16 2020 - 20:18:13 PDT)
Re: [AMBER] constant pH error
Cruzeiro,Vinicius Wilian D
(Thu Sep 17 2020 - 08:05:19 PDT)
Re: [AMBER] constant pH error
Kolattukudy P. Santo
(Thu Sep 17 2020 - 10:34:55 PDT)
Re: [AMBER] constant pH error
Cruzeiro,Vinicius Wilian D
(Fri Sep 18 2020 - 15:43:03 PDT)
Re: [AMBER] constant pH error
Kolattukudy P. Santo
(Sat Sep 19 2020 - 20:02:17 PDT)
[AMBER] BR atom moved out
Nisha Amarnath Jonniya
(Thu Sep 17 2020 - 03:46:19 PDT)
[AMBER] Perturbing charges
Delwakkada Liyanage, Senal Dinuka
(Thu Sep 17 2020 - 15:30:08 PDT)
Re: [AMBER] Perturbing charges
David A Case
(Thu Sep 17 2020 - 19:12:15 PDT)
Re: [AMBER] Perturbing charges
Delwakkada Liyanage, Senal Dinuka
(Fri Sep 18 2020 - 05:57:58 PDT)
Re: [AMBER] Perturbing charges
David A Case
(Fri Sep 18 2020 - 08:02:40 PDT)
Re: [AMBER] Perturbing charges
Delwakkada Liyanage, Senal Dinuka
(Fri Sep 18 2020 - 14:25:23 PDT)
Re: [AMBER] Perturbing charges
David A Case
(Sun Sep 20 2020 - 06:01:40 PDT)
Re: [AMBER] Perturbing charges
Debarati DasGupta
(Sun Sep 20 2020 - 13:00:24 PDT)
Re: [AMBER] Perturbing charges
Delwakkada Liyanage, Senal Dinuka
(Mon Sep 21 2020 - 11:34:56 PDT)
Re: [AMBER] Perturbing charges
Debarati DasGupta
(Mon Sep 21 2020 - 12:54:35 PDT)
Re: [AMBER] Perturbing charges
Delwakkada Liyanage, Senal Dinuka
(Mon Sep 21 2020 - 13:16:49 PDT)
[AMBER] RMSD of nucleic acid bases
Sruthi Sudhakar
(Thu Sep 17 2020 - 21:05:18 PDT)
Re: [AMBER] RMSD of nucleic acid bases
Saikat Pal
(Thu Sep 17 2020 - 23:10:42 PDT)
[AMBER] antechamber problem with negatively charged nitrogen
Giorgos Lambrinidis
(Fri Sep 18 2020 - 04:57:24 PDT)
Re: [AMBER] antechamber problem with negatively charged nitrogen
David A Case
(Fri Sep 18 2020 - 07:58:30 PDT)
Re: [AMBER] antechamber problem with negatively charged nitrogen
Giorgos Lambrinidis
(Fri Sep 18 2020 - 08:29:42 PDT)
Re: [AMBER] antechamber problem with negatively charged nitrogen
David A Case
(Sun Sep 20 2020 - 07:39:05 PDT)
Re: [AMBER] antechamber problem with negatively charged nitrogen
Giorgos Lambrinidis
(Mon Sep 21 2020 - 01:07:01 PDT)
Re: [AMBER] antechamber problem with negatively charged nitrogen
David A Case
(Mon Sep 21 2020 - 05:20:29 PDT)
[AMBER] constant pH MD in explicit solvent
SATYAJIT KHATUA
(Fri Sep 18 2020 - 06:43:58 PDT)
Re: [AMBER] constant pH MD in explicit solvent
Cruzeiro,Vinicius Wilian D
(Fri Sep 18 2020 - 15:24:03 PDT)
[AMBER] ddikick.x error during Fe3+ ion parameter derivation using Gamess
gagandeep singh
(Fri Sep 18 2020 - 06:47:15 PDT)
[AMBER] Prmtop for protein + 2 identical ligands has wrong dihedral parameters for the second ligand. LEaP bug?
Mariano Curti
(Fri Sep 18 2020 - 07:41:26 PDT)
[AMBER] Problem in AMBER18 Installation
Mariangela Dametto
(Fri Sep 18 2020 - 08:33:57 PDT)
Re: [AMBER] Problem in AMBER18 Installation
David A Case
(Fri Sep 18 2020 - 13:43:51 PDT)
[AMBER] Mimimization error
Renato Araujo
(Fri Sep 18 2020 - 14:29:10 PDT)
Re: [AMBER] Mimimization error
David A Case
(Fri Sep 18 2020 - 18:29:53 PDT)
[AMBER] Is RTX 3080 compatible with Amber18 ?
Setyanto Md
(Fri Sep 18 2020 - 20:36:59 PDT)
[AMBER] Tri-coordination environment in zinc
SATYAJIT KHATUA
(Fri Sep 18 2020 - 21:36:59 PDT)
Re: [AMBER] Tri-coordination environment in zinc
Zoran
(Fri Sep 18 2020 - 23:50:12 PDT)
[AMBER] Formation of a cyclic peptide
RIMJHIM MORAL
(Sat Sep 19 2020 - 00:58:07 PDT)
Re: [AMBER] Formation of a cyclic peptide
Bill Ross
(Sat Sep 19 2020 - 02:09:00 PDT)
Re: [AMBER] Formation of a cyclic peptide
Dr. Anselm Horn
(Tue Sep 22 2020 - 01:05:59 PDT)
Re: [AMBER] Formation of a cyclic peptide
David A Case
(Sat Sep 19 2020 - 05:17:46 PDT)
[AMBER] Stuck at the heating stage
Jisha B
(Sat Sep 19 2020 - 02:53:40 PDT)
Re: [AMBER] Stuck at the heating stage
Bill Ross
(Sat Sep 19 2020 - 03:01:29 PDT)
Re: [AMBER] Stuck at the heating stage
Jisha B
(Sat Sep 19 2020 - 03:09:09 PDT)
Re: [AMBER] Stuck at the heating stage
Bill Ross
(Sat Sep 19 2020 - 05:01:27 PDT)
Re: [AMBER] Stuck at the heating stage
David A Case
(Sat Sep 19 2020 - 05:21:51 PDT)
Re: [AMBER] Stuck at the heating stage
Daniel Roe
(Wed Sep 23 2020 - 03:47:47 PDT)
[AMBER] constant pH MD in explicit solvent
SATYAJIT KHATUA
(Sat Sep 19 2020 - 21:59:31 PDT)
[AMBER] Tri-coordination environment in zinc
SATYAJIT KHATUA
(Sat Sep 19 2020 - 22:07:15 PDT)
[AMBER] RMSF plot error
Fatemeh Arabi
(Sun Sep 20 2020 - 02:20:17 PDT)
Re: [AMBER] RMSF plot error
David A Case
(Sun Sep 20 2020 - 05:53:24 PDT)
[AMBER] MMPBSA binding energy was positive for charged ligand
Nada Afiva
(Sun Sep 20 2020 - 19:24:56 PDT)
Re: [AMBER] MMPBSA binding energy was positive for charged ligand
David A Case
(Mon Sep 21 2020 - 05:14:23 PDT)
Re: [AMBER] MMPBSA binding energy was positive for charged ligand
Nada Afiva
(Mon Sep 21 2020 - 05:45:28 PDT)
Re: [AMBER] MMPBSA binding energy was positive for charged ligand
neildancer
(Tue Sep 22 2020 - 06:11:08 PDT)
[AMBER] MMPBSA.py error
Asmi Mahmood
(Mon Sep 21 2020 - 03:37:35 PDT)
[AMBER] How to place oxygen molecules in tunnels of protein to calculate PMF
Muhammad tariq
(Mon Sep 21 2020 - 05:00:21 PDT)
[AMBER] [CPHMD] invalid reference to variable in NAMELIST input, CPIN file
cprivat.ub.edu
(Mon Sep 21 2020 - 07:36:48 PDT)
Re: [AMBER] [CPHMD] invalid reference to variable in NAMELIST input, CPIN file
Cruzeiro,Vinicius Wilian D
(Mon Sep 21 2020 - 08:34:32 PDT)
Re: [AMBER] [CPHMD] invalid reference to variable in NAMELIST input, CPIN file
cprivat.ub.edu
(Mon Sep 21 2020 - 23:47:51 PDT)
[AMBER] How to recopile with new version of CUDA
Camila Clemente
(Mon Sep 21 2020 - 14:24:39 PDT)
Re: [AMBER] How to recopile with new version of CUDA
David Cerutti
(Mon Sep 21 2020 - 15:05:11 PDT)
[AMBER] amber18 installation error
Nisha Amarnath Jonniya
(Mon Sep 21 2020 - 22:22:37 PDT)
Re: [AMBER] amber18 installation error
Gustaf Olsson
(Mon Sep 21 2020 - 23:54:22 PDT)
Re: [AMBER] amber18 installation error
Nisha Amarnath Jonniya
(Mon Sep 21 2020 - 23:59:00 PDT)
Re: [AMBER] amber18 installation error
Gustaf Olsson
(Tue Sep 22 2020 - 00:05:21 PDT)
Re: [AMBER] amber18 installation error
Nisha Amarnath Jonniya
(Tue Sep 22 2020 - 00:11:09 PDT)
Re: [AMBER] amber18 installation error
Gustaf Olsson
(Tue Sep 22 2020 - 00:36:14 PDT)
Re: [AMBER] amber18 installation error
David A Case
(Tue Sep 22 2020 - 05:41:59 PDT)
Re: [AMBER] amber18 installation error
Elvis Martis
(Tue Sep 22 2020 - 06:00:00 PDT)
Re: [AMBER] amber18 installation error
Nisha Amarnath Jonniya
(Tue Sep 22 2020 - 06:03:14 PDT)
Re: [AMBER] amber18 installation error
Elvis Martis
(Tue Sep 22 2020 - 06:00:30 PDT)
[AMBER] autoimage for grid analysis with cpptraj
Gustaf Olsson
(Tue Sep 22 2020 - 03:05:57 PDT)
Re: [AMBER] autoimage for grid analysis with cpptraj
David A Case
(Tue Sep 22 2020 - 05:45:02 PDT)
Re: [AMBER] autoimage for grid analysis with cpptraj
Gustaf Olsson
(Tue Sep 22 2020 - 06:10:27 PDT)
Re: [AMBER] autoimage for grid analysis with cpptraj
Daniel Roe
(Tue Sep 22 2020 - 06:38:08 PDT)
Re: [AMBER] autoimage for grid analysis with cpptraj
Gustaf Olsson
(Tue Sep 22 2020 - 23:54:44 PDT)
Re: [AMBER] autoimage for grid analysis with cpptraj
Daniel Roe
(Wed Sep 23 2020 - 03:24:16 PDT)
[AMBER] umbrella sampling protein
Ramin Mehrani
(Tue Sep 22 2020 - 07:02:42 PDT)
Re: [AMBER] umbrella sampling protein
David A Case
(Tue Sep 22 2020 - 08:22:11 PDT)
Re: [AMBER] umbrella sampling protein
Feng Pan
(Tue Sep 22 2020 - 12:44:23 PDT)
Re: [AMBER] umbrella sampling protein
Ramin Mehrani
(Wed Sep 23 2020 - 06:56:21 PDT)
Re: [AMBER] umbrella sampling protein
Feng Pan
(Fri Sep 25 2020 - 06:49:45 PDT)
[AMBER] How does tleap detect improper torsions?
Brian Radak
(Tue Sep 22 2020 - 13:57:46 PDT)
Re: [AMBER] How does tleap detect improper torsions?
David A Case
(Tue Sep 22 2020 - 18:07:01 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Brian Radak
(Wed Sep 23 2020 - 05:57:52 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Matias Machado
(Wed Sep 23 2020 - 07:24:06 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Brian Radak
(Thu Sep 24 2020 - 08:56:15 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Bill Ross
(Thu Sep 24 2020 - 10:19:51 PDT)
Re: [AMBER] How does tleap detect improper torsions?
David A Case
(Thu Sep 24 2020 - 12:20:56 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Matias Machado
(Thu Sep 24 2020 - 20:29:50 PDT)
Re: [AMBER] How does tleap detect improper torsions?
Bill Ross
(Thu Sep 24 2020 - 22:34:55 PDT)
[AMBER] how to keep Cl/Br/I ion in particular place
Nisha Amarnath Jonniya
(Tue Sep 22 2020 - 22:06:40 PDT)
[AMBER] tutorials restructured and ConstpH/redox tutorial pages not accessible
Vaibhav Dixit
(Tue Sep 22 2020 - 23:49:04 PDT)
Re: [AMBER] tutorials restructured and ConstpH/redox tutorial pages not accessible
Maria Nagan
(Wed Sep 23 2020 - 04:08:20 PDT)
Re: [AMBER] tutorials restructured and ConstpH/redox tutorial pages not accessible
Vaibhav Dixit
(Wed Sep 23 2020 - 04:46:37 PDT)
Re: [AMBER] tutorials restructured and ConstpH/redox tutorial pages not accessible
Daniel Roe
(Wed Sep 23 2020 - 06:26:59 PDT)
Re: [AMBER] tutorials restructured and ConstpH/redox tutorial pages not accessible
Vaibhav Dixit
(Wed Sep 23 2020 - 08:01:21 PDT)
[AMBER] french version
aishen
(Wed Sep 23 2020 - 00:59:00 PDT)
Re: [AMBER] french version
Dr. Anselm Horn
(Wed Sep 23 2020 - 06:25:41 PDT)
[AMBER] Coordinate resetting cannot be accomplished -reg
R A Jeyaram 16PHD0482
(Wed Sep 23 2020 - 03:38:09 PDT)
Re: [AMBER] Coordinate resetting cannot be accomplished -reg
Daniel Roe
(Wed Sep 23 2020 - 03:51:15 PDT)
Re: [AMBER] Coordinate resetting cannot be accomplished -reg
Bill Ross
(Wed Sep 23 2020 - 03:54:56 PDT)
[AMBER] Heme parameters
Siavoush Dastmalchi
(Wed Sep 23 2020 - 08:00:19 PDT)
Re: [AMBER] Heme parameters
David A Case
(Thu Sep 24 2020 - 08:05:35 PDT)
Re: [AMBER] Heme parameters
Siavoush Dastmalchi
(Thu Sep 24 2020 - 09:35:29 PDT)
[AMBER] Fwd: usage of nmr (between COMs) restraints with pmem.cuda
Dmitry Karlov
(Wed Sep 23 2020 - 08:28:43 PDT)
[AMBER] usage of nmr (between COMs) restraints with pmem.cuda
Dmitry Karlov
(Thu Sep 24 2020 - 14:50:48 PDT)
[AMBER] xleap
aishen
(Wed Sep 23 2020 - 13:19:02 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Thu Sep 24 2020 - 00:04:55 PDT)
Re: [AMBER] xleap
aishen
(Thu Sep 24 2020 - 00:52:29 PDT)
Re: [AMBER] xleap
aishen
(Thu Sep 24 2020 - 01:06:56 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Thu Sep 24 2020 - 01:16:39 PDT)
Re: [AMBER] xleap
David A Case
(Mon Sep 28 2020 - 19:06:32 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Tue Sep 29 2020 - 01:17:51 PDT)
Re: [AMBER] xleap
Bill Ross
(Tue Sep 29 2020 - 01:34:57 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Tue Sep 29 2020 - 02:43:34 PDT)
Re: [AMBER] xleap
Bill Ross
(Tue Sep 29 2020 - 03:05:37 PDT)
Re: [AMBER] xleap
aishen
(Tue Sep 29 2020 - 03:05:53 PDT)
Re: [AMBER] xleap
David A Case
(Tue Sep 29 2020 - 04:52:24 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Tue Sep 29 2020 - 05:22:08 PDT)
Re: [AMBER] xleap
aishen
(Tue Sep 29 2020 - 05:28:12 PDT)
Re: [AMBER] xleap
Gustaf Olsson
(Tue Sep 29 2020 - 05:45:19 PDT)
Re: [AMBER] xleap
aishen
(Tue Sep 29 2020 - 23:01:17 PDT)
Re: [AMBER] xleap
aishen
(Tue Sep 29 2020 - 05:34:35 PDT)
[AMBER] MMPBSA.py error for mismatch NATOMS
Asmi Mahmood
(Wed Sep 23 2020 - 23:28:10 PDT)
Re: [AMBER] MMPBSA.py error for mismatch NATOMS
Jason Swails
(Sat Sep 26 2020 - 11:50:12 PDT)
[AMBER] water strip -reg
R A Jeyaram 16PHD0482
(Thu Sep 24 2020 - 02:24:30 PDT)
Re: [AMBER] water strip -reg
Daniel Roe
(Thu Sep 24 2020 - 05:51:03 PDT)
[AMBER] Line minimizer aborted
Ramanathan Rajesh
(Thu Sep 24 2020 - 07:34:34 PDT)
[AMBER] Two sets of restraints on minimization?
Gustavo Seabra
(Thu Sep 24 2020 - 13:49:05 PDT)
Re: [AMBER] Two sets of restraints on minimization?
David A Case
(Thu Sep 24 2020 - 17:45:39 PDT)
Re: [AMBER] Two sets of restraints on minimization?
Gustavo Seabra
(Fri Sep 25 2020 - 05:22:03 PDT)
[AMBER] RESTARTED DUE TO LINMIN FAILURE
Xinye Wang
(Thu Sep 24 2020 - 20:06:32 PDT)
Re: [AMBER] RESTARTED DUE TO LINMIN FAILURE
Elvis Martis
(Thu Sep 24 2020 - 20:20:13 PDT)
Re: [AMBER] RESTARTED DUE TO LINMIN FAILURE
Xinye Wang
(Thu Sep 24 2020 - 20:38:41 PDT)
Re: [AMBER] RESTARTED DUE TO LINMIN FAILURE
Elvis Martis
(Thu Sep 24 2020 - 21:07:57 PDT)
Re: [AMBER] RESTARTED DUE TO LINMIN FAILURE
David A Case
(Fri Sep 25 2020 - 04:51:20 PDT)
[AMBER] Fwd: RESTARTED DUE TO LINMIN FAILURE
Maschietto, Federica
(Fri Sep 25 2020 - 16:52:50 PDT)
Re: [AMBER] Fwd: RESTARTED DUE TO LINMIN FAILURE
Hector A. Baldoni
(Fri Sep 25 2020 - 17:01:49 PDT)
Re: [AMBER] Fwd: RESTARTED DUE TO LINMIN FAILURE
David A Case
(Sat Sep 26 2020 - 05:21:38 PDT)
[AMBER] Netcdf trajectory in pymol?
Jenny 148
(Sat Sep 26 2020 - 12:48:53 PDT)
Re: [AMBER] Netcdf trajectory in pymol?
Kenneth Huang
(Sun Sep 27 2020 - 15:12:07 PDT)
[AMBER] A100 and RTX3090 Benchmarks
Ross Walker
(Sun Sep 27 2020 - 16:30:47 PDT)
Re: [AMBER] A100 and RTX3090 Benchmarks
xmgign.126.com
(Tue Sep 29 2020 - 02:29:46 PDT)
Re: [AMBER] A100 and RTX3090 Benchmarks
Hashemi, Mohtadin
(Wed Sep 30 2020 - 08:43:03 PDT)
[AMBER] Make some of RNA bases as DNA in leap
Athena N
(Mon Sep 28 2020 - 09:23:10 PDT)
Re: [AMBER] Make some of RNA bases as DNA in leap
David A Case
(Mon Sep 28 2020 - 09:56:03 PDT)
Re: [AMBER] Make some of RNA bases as DNA in leap
Athena N
(Mon Sep 28 2020 - 09:57:57 PDT)
Re: [AMBER] Make some of RNA bases as DNA in leap
David A Case
(Mon Sep 28 2020 - 18:47:12 PDT)
[AMBER] Polyproline abmd tutorial gives vlimit error
SHAUNAK BADANI
(Mon Sep 28 2020 - 09:32:28 PDT)
[AMBER] PMF calculation
somdev pahari
(Tue Sep 29 2020 - 01:25:15 PDT)
Re: [AMBER] PMF calculation
Dickson, Callum
(Mon Sep 28 2020 - 13:37:53 PDT)
Re: [AMBER] PMF calculation
somdev pahari
(Tue Sep 29 2020 - 11:20:19 PDT)
[AMBER] MMPBSA.py.MPI installation problem in Amber20
Liao
(Tue Sep 29 2020 - 00:22:19 PDT)
Re: [AMBER] MMPBSA.py.MPI installation problem in Amber20
Elvis Martis
(Tue Sep 29 2020 - 00:36:16 PDT)
[AMBER] REMD Trajectory Processing
Aravind R
(Tue Sep 29 2020 - 00:25:32 PDT)
Re: [AMBER] REMD Trajectory Processing
Daniel Roe
(Tue Sep 29 2020 - 04:42:44 PDT)
Re: [AMBER] REMD Trajectory Processing
Carlos Simmerling
(Tue Sep 29 2020 - 06:18:19 PDT)
[AMBER] Query regarding Dialanine peptide 2d ABMD tutorial in the NFE category
SHAUNAK BADANI
(Tue Sep 29 2020 - 02:15:46 PDT)
[AMBER] Problem with metalpdb2mol2.py script
Siavoush Dastmalchi
(Wed Sep 30 2020 - 00:56:02 PDT)
[AMBER] Query regarding Dialanine peptide 2d ABMD tutorial in the NFE category
Madhur Aggarwal
(Wed Sep 30 2020 - 02:41:02 PDT)
[AMBER] AmberMdPrep github cpptraj not sourced
Vaibhav Dixit
(Tue Sep 29 2020 - 23:49:25 PDT)
Re: [AMBER] AmberMdPrep github cpptraj not sourced
Vaibhav Dixit
(Wed Sep 30 2020 - 04:54:05 PDT)
Re: [AMBER] AmberMdPrep github cpptraj not sourced
Daniel Roe
(Wed Sep 30 2020 - 06:34:19 PDT)
Re: [AMBER] AmberMdPrep github cpptraj not sourced
Vaibhav Dixit
(Wed Sep 30 2020 - 06:53:10 PDT)
Re: [AMBER] AmberMdPrep github cpptraj not sourced
Vaibhav Dixit
(Wed Sep 30 2020 - 09:00:53 PDT)
[AMBER] Modification of dihedral torsion potential
h_sahakyan.mb.sci.am
(Wed Sep 30 2020 - 03:47:07 PDT)
[AMBER] controversy in PBSA and GBSA results
h_sahakyan.mb.sci.am
(Wed Sep 30 2020 - 04:42:30 PDT)
Re: [AMBER] controversy in PBSA and GBSA results
Ray Luo
(Wed Sep 30 2020 - 15:57:45 PDT)
Re: [AMBER] controversy in PBSA and GBSA results
Ray Luo
(Wed Sep 30 2020 - 22:10:53 PDT)
[AMBER] Conversion of Gromacs [atomtypes] and [nonbond_params] to Amber NONBON and LJEDIT
Nick Palmer
(Wed Sep 30 2020 - 09:40:08 PDT)
[AMBER] Conversion of Gromacs [atomtypes] and [nonbond_params] to Amber NONBON and LJEDIT
Nick Palmer
(Wed Sep 30 2020 - 11:46:28 PDT)
Last message date
:
Wed Sep 30 2020 - 22:30:02 PDT
Archived on
: Mon Nov 25 2024 - 05:55:54 PST
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