Amber Archive Mar 2021: by date

Sunday, 28 February 2021
- Re: [AMBER] atom number difference in topology and simulated trajectory Ayesha Fatima
- Re: [AMBER] atom number difference in topology and simulated trajectory Elvis A F Martis
Monday, 1 March 2021
- [AMBER] Amber-forcefield for QM/MM calculation Rinsha Chk
- [AMBER] Superimpose mohamed marzouk
- [AMBER] Effect of different gamma_ln values Liao
- Re: [AMBER] Effect of different gamma_ln values Adrian Roitberg
- [AMBER] positional and NMR distance restraints together Qinghua Liao
Tuesday, 2 March 2021
- [AMBER] use orca in amber wangjianing_mail
- [AMBER] Free Energy Calculations using LIE and FEW Helena Damtoft Tjørnelund
- [AMBER] Using DFT-D3(BJ) during QM/MM calculations Zhiyi Wu
- Re: [AMBER] use orca in amber wangjianing_mail
- Re: [AMBER] positional and NMR distance restraints together David A Case
- Re: [AMBER] Using DFT-D3(BJ) during QM/MM calculations Goetz, Andreas
- Re: [AMBER] Using DFT-D3(BJ) during QM/MM calculations Zhiyi Wu
- Re: [AMBER] use orca in amber James Kress
- [AMBER] How to plot the Phi-Psi picture in Section 7 of “Tutorial 6.6 Nudged Elastic Band (NEB) simulations”? Li Dailin
- [AMBER] MMPBSA/ Parmed error Jenny 148
Wednesday, 3 March 2021
- [AMBER] Simulation of optimized ligand without docking Ramanathan Rajesh
- Re: [AMBER] MMPBSA/ Parmed error David A Case
- Re: [AMBER] Simulation of optimized ligand without docking David A Case
- Re: [AMBER] How to plot the Phi-Psi picture in Section 7 of “Tutorial 6.6 Nudged Elastic Band (NEB) simulations”? Christina Bergonzo
- Re: [AMBER] MMPBSA/ Parmed error Jenny 148
- Re: [AMBER] How to plot the Phi-Psi picture in Section 7 of “Tutorial 6.6 Nudged Elastic Band (NEB) simulations”? Carlos Simmerling
- Re: [AMBER] MMPBSA/ Parmed error Sruthi Sudhakar
- [AMBER] Practical questions on NMR-refinment Gustavo Seabra
- Re: [AMBER] MMPBSA/ Parmed error Hai Nguyen
- Re: [AMBER] Practical questions on NMR-refinment David A Case
- [AMBER] makeDIST_RST Ming Tang
Thursday, 4 March 2021
- Re: [AMBER] makeDIST_RST David A Case
- Re: [AMBER] makeDIST_RST Daniel Roe
- Re: [AMBER] Practical questions on NMR-refinment Gustavo Seabra
- Re: [AMBER] Superimpose Daniel Roe
- Re: [AMBER] Practical questions on NMR-refinment David A Case
- [AMBER] Problem Running E-REMD on GPUs Matthew Guberman-Pfeffer
- Re: [AMBER] gcc9 aishen.free.fr
- Re: [AMBER] gcc9 Gustaf Olsson
Friday, 5 March 2021
- Re: [AMBER] Interaction energy by MM-PBSA for a superantigen with important Zn(II) center SATYAJIT KHATUA
- Re: [AMBER] Parametrization of Virtual sites in Halogens David Cerutti
- [AMBER] Pending deprecation of paramfit: Amber21 or Amber22? David Cerutti
- [AMBER] Ambertools20 with amber18 Pinky Mazumder
- Re: [AMBER] Ambertools20 with amber18 David A Case
- [AMBER] 答复: How to plot the Phi-Psi picture in Section 7 of “Tutorial 6.6 Nudged Elastic Band (NEB) simulations”? Li Dailin
- [AMBER] 答复: How to plot the Phi-Psi picture in Section 7 of “Tutorial 6.6 Nudged Elastic Band (NEB) simulations”? Li Dailin
- Re: [AMBER] MMPBSA/ Parmed error Jenny 148
Saturday, 6 March 2021
- [AMBER] How to define COM for groups in ASMD Matthew Guberman-Pfeffer
- Re: [AMBER] MMPBSA/ Parmed error David A Case
- Re: [AMBER] makeDIST_RST Ming Tang
Sunday, 7 March 2021
- Re: [AMBER] makeDIST_RST David A Case
- Re: [AMBER] atom number difference in topology and simulated trajectory Ayesha Fatima
- Re: [AMBER] atom number difference in topology and simulated trajectory Elvis A F Martis
- [AMBER] Error when compiling AMBER20 fmying.xmu.edu.cn
Monday, 8 March 2021
- [AMBER] Is it possible to obtain vacuum charges (and only vacuum charges) with mdgx? Luis Simon
- [AMBER] The issue regarding to list index out of range 辛志宏
- Re: [AMBER] The issue regarding to list index out of range Mariano Curti
- Re: [AMBER] Error when compiling AMBER20 David A Case
- Re: [AMBER] MMPBSA/ Parmed error Jenny 148
- [AMBER] Generating library from cif file. sriram raghavan
- [AMBER] Single Point QM/MM energy using Amber-Q-Chem interface Bowleg, Jerrano
- Re: [AMBER] Generating library from cif file. David A Case
- Re: [AMBER] Single Point QM/MM energy using Amber-Q-Chem interface Clorice Reinhardt
- Re: [AMBER] Single Point QM/MM energy using Amber-Q-Chem interface Bowleg, Jerrano
- [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Samuel Mohan Dass, Premila
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Samuel Mohan Dass, Premila
- Re: [AMBER] Single Point QM/MM energy using Amber-Q-Chem interface Clorice Reinhardt
- Re: [AMBER] The issue regarding to list index out of range (???) 辛志宏
Tuesday, 9 March 2021
- [AMBER] Pair interaction energy Eduardo R. Almeida
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler David A Case
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Samuel Mohan Dass, Premila
- [AMBER] Turning initial velocity off for continuous MD runs Aanshi Gandhi
- Re: [AMBER] Pair interaction energy Dr. Anselm Horn
- Re: [AMBER] Pair interaction energy Eduardo R. Almeida
- Re: [AMBER] Turning initial velocity off for continuous MD runs David A Case
- Re: [AMBER] Pair interaction energy Eduardo R. Almeida
- Re: [AMBER] makeDIST_RST Ming Tang
- Re: [AMBER] makeDIST_RST Daniel Roe
- Re: [AMBER] makeDIST_RST David A Case
- Re: [AMBER] How to define COM for groups in ASMD Kellon Belfon
Wednesday, 10 March 2021
- Re: [AMBER] Pair interaction energy Dr. Anselm Horn
- Re: [AMBER] Pair interaction energy Eduardo R. Almeida
- [AMBER] LJ parameters LOZANO ORDOÑEZ, HECTOR
- Re: [AMBER] LJ parameters Luis Simon
- Re: [AMBER] LJ parameters LOZANO ORDOÑEZ, HECTOR
- Re: [AMBER] LJ parameters Anthony Cruz-Balberdy
- [AMBER] Problem with CG minimization in implicit solvent Alejandro Gil Ley
- [AMBER] pmemd.cuda unstable with ff19SB+OPC and HMassRepartition Tucker Burgin
- Re: [AMBER] pmemd.cuda unstable with ff19SB+OPC and HMassRepartition Carlos Simmerling
- Re: [AMBER] makeDIST_RST Ming Tang
- [AMBER] Secstruct error Kodituwakku,Dimuthu Nirmani
- [AMBER] sander/orca/xtb ：Low parallel efficiency wangjianing_mail
Thursday, 11 March 2021
- Re: [AMBER] pmemd.cuda unstable with ff19SB+OPC and HMassRepartition Gerald Monard
- [AMBER] GPU installation error amber18 Renato Araujo
- Re: [AMBER] pmemd.cuda unstable with ff19SB+OPC and HMassRepartition David A Case
- Re: [AMBER] GPU installation error amber18 David A Case
- Re: [AMBER] sander/orca/xtb ：Low parallel efficiency Adrian Roitberg
- Re: [AMBER] Problem with CG minimization in implicit solvent Adrian Roitberg
- [AMBER] constant ph md Abhik Ghosh Moulick
- Re: [AMBER] constant ph md Adrian Roitberg
- Re: [AMBER] Problem with CG minimization in implicit solvent David A Case
- Re: [AMBER] Problem with CG minimization in implicit solvent Alejandro Gil Ley
- [AMBER] Why a target ion failed to move along the pathway in the simulated annealing version of Nudged Elastic Band (NEB) calculations? Li Dailin
- Re: [AMBER] Problem with CG minimization in implicit solvent Chris Neale
Friday, 12 March 2021
- [AMBER] Error in tleap richa anand
- [AMBER] Tleap Fatal error richa anand
- Re: [AMBER] Tleap Fatal error David A Case
- Re: [AMBER] Why a target ion failed to move along the pathway in the simulated annealing version of Nudged Elastic Band (NEB) calculations? Adrian Roitberg
- [AMBER] 答复: Why a target ion failed to move along the pathway in the simulated annealing version of Nudged Elastic Band (NEB) calculations? Li Dailin
- [AMBER] Ligand moving out of active site after 250ns Sruthi Sudhakar
- Re: [AMBER] Tleap Fatal error Kenneth Huang
Saturday, 13 March 2021
- Re: [AMBER] AMBER Digest, Vol 3300, Issue 1 richa anand
- [AMBER] Request for the sha256sum od amber20 Hector Martinez-Seara
- Re: [AMBER] Secstruct error Daniel Roe
- Re: [AMBER] Ligand moving out of active site after 250ns Kenneth Huang
- [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Chuck is Busy
- [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) Charo del Genio
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) aishen.free.fr
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) David A Case
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI David A Case
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Chuck is Busy
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Ray Luo
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Chuck is Busy
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) David A Case
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI David A Case
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Ray Luo
- Re: [AMBER] Running MMPBSA on protein membrane system built using CHARMMGUI Chuck is Busy
Sunday, 14 March 2021
- [AMBER] Energy minimization problem richa anand
- Re: [AMBER] makeDIST_RST Ming Tang
- [AMBER] About the extract snapshop as input files from a trajectory files 辛志宏
- Re: [AMBER] Energy minimization problem David A Case
- [AMBER] Installation Ambertools20 Mac M1 (arm64) Mailing list
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) Charo del Genio
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) David A Case
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) Carlos Simmerling
Monday, 15 March 2021
- [AMBER] x=sequence aishen.free.fr
- Re: [AMBER] Installation Ambertools20 Mac M1 (arm64) Gould, Ian R
- Re: [AMBER] Installation Ambertools20 Mac M1 (arm64) Mailing list
- Re: [AMBER] x=sequence Christina Bergonzo
- Re: [AMBER] AmberTools20 fails to compile with gcc10 (with workaround) Charo del Genio
- [AMBER] hbond cpptraj Jon Uranga
- Re: [AMBER] x=sequence aishen.free.fr
- [AMBER] MCPB.py ZINC Mediated interactions parameterization Rana Rehan Khalid
- Re: [AMBER] hbond cpptraj Clorice Reinhardt
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
- [AMBER] Visualizing NetCDF in VMD - ERROR Jatin Kashyap
Tuesday, 16 March 2021
- [AMBER] Missing atom types for ligand with chlorine atoms Aliakbartehrani Zahra
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Gustaf Olsson
- Re: [AMBER] Missing atom types for ligand with chlorine atoms Juraj Dobias
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR aishen.free.fr
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR ışılay öztürk
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Gustaf Olsson
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR ışılay öztürk
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Gustaf Olsson
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Carlos Simmerling
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR ışılay öztürk
- Re: [AMBER] Apply Lennar-Jones potential between small molecules David A Case
- Re: [AMBER] Missing atom types for ligand with chlorine atoms David A Case
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Carlos Simmerling
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Jatin Kashyap
- [AMBER] segmentation fault error richa anand
Wednesday, 17 March 2021
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Gustaf Olsson
- [AMBER] saving pdb and rst at specific frames in trajectory Sadaf Rani
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Gustaf Olsson
- Re: [AMBER] segmentation fault error David A Case
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Sadaf Rani
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Hai Nguyen
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Daniel Roe
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Jatin Kashyap
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR aishen.free.fr
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Jatin Kashyap
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR David A Case
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Hai Nguyen
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
Thursday, 18 March 2021
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Sadaf Rani
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Gustaf Olsson
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Gustaf Olsson
- Re: [AMBER] Visualizing NetCDF in VMD - ERROR Gustaf Olsson
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Carlos Simmerling
- [AMBER] Unit of Electric Field Frequency Shakir Ali Siddiqui
- Re: [AMBER] Apply Lennar-Jones potential between small molecules David A Case
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Carlos Simmerling
- [AMBER] New In CPPTRAJ Daniel Roe
- Re: [AMBER] New In CPPTRAJ Gustavo Seabra
Friday, 19 March 2021
- Re: [AMBER] New In CPPTRAJ aishen.free.fr
- [AMBER] AMBER 18 Installation error Rituparna Roy
- [AMBER] MMPBSA per residue decomposition - Calculation speed Jatin Kashyap
- Re: [AMBER] New In CPPTRAJ An Ta
- Re: [AMBER] New In CPPTRAJ Jatin Kashyap
- Re: [AMBER] AMBER 18 Installation error David A Case
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed David A Case
- Re: [AMBER] AMBER 18 Installation error Rituparna Roy
- Re: [AMBER] New in CPPTRAJ Nikolay N. Kuzmich
- [AMBER] How to assess mutant-induced instability with MM-GBSA Matthew Guberman-Pfeffer
- [AMBER] Loading Topology & Trajectory Files Jatin Kashyap
- Re: [AMBER] AMBER 18 Installation error David A Case
Saturday, 20 March 2021
- [AMBER] Unknown PB option use_sav=0 Lennart Gundelach
- Re: [AMBER] How to assess mutant-induced instability with MM-GBSA David A Case
- [AMBER] Solvating my box with specified number of water molecules 库米尔
- [AMBER] SIRAH CG Protein with Implicit Solvent Leung, Jeremy
Sunday, 21 March 2021
- Re: [AMBER] SIRAH CG Protein with Implicit Solvent Carlos Simmerling
- Re: [AMBER] SIRAH CG Protein with Implicit Solvent Matias Machado
- Re: [AMBER] Solvating my box with specified number of water molecules Matias Machado
- Re: [AMBER] Unknown PB option use_sav=0 Ray Luo
- [AMBER] 3D-RISM solvent placement with MoFT He, Amy
Monday, 22 March 2021
- [AMBER] cpptraj killed MYRIAN TORRES RICO
- Re: [AMBER] Solvating my box with specified number of water molecules Daniel Roe
- Re: [AMBER] cpptraj killed Daniel Roe
- Re: [AMBER] Loading Topology & Trajectory Files Daniel Roe
- Re: [AMBER] saving pdb and rst at specific frames in trajectory Daniel Roe
- Re: [AMBER] pmemd.cuda unstable with ff19SB+OPC and HMassRepartition Tucker Burgin
- Re: [AMBER] SIRAH CG Protein with Implicit Solvent Leung, Jeremy
- Re: [AMBER] cpptraj killed MYRIAN TORRES RICO
- Re: [AMBER] 3D-RISM solvent placement with MoFT He, Amy
- [AMBER] Pmemd to run TI on protein mutations zz sheng
- Re: [AMBER] Pmemd to run TI on protein mutations Carlos Simmerling
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
Tuesday, 23 March 2021
- Re: [AMBER] cpptraj killed Gustaf Olsson
- Re: [AMBER] cpptraj killed Mariano Curti
- [AMBER] Seeking suggestions for breaking a covalent link between atoms Amit Sharma (Asstt. Prof., MCARS)
- Re: [AMBER] Loading Topology & Trajectory Files Gustaf Olsson
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Carlos Simmerling
- Re: [AMBER] Seeking suggestions for breaking a covalent link between atoms David A Case
- [AMBER] Benchmarks for new RTX3060 Игорь Злотников
- Re: [AMBER] Benchmarks for new RTX3060 Игорь Злотников
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
- Re: [AMBER] 3D-RISM solvent placement with MoFT George M. Giambasu
Wednesday, 24 March 2021
- [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered David A Case
- [AMBER] CpHMD with structurally different protonation states? Dr. Anselm Horn
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- [AMBER] Discrepancy in pb binding energy (MMPBSA.py tutorial) Ali Saad Kusay
- Re: [AMBER] Loading Topology & Trajectory Files Daniel Roe
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Shawn Brown
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Daniel Roe
- Re: [AMBER] Loading Topology & Trajectory Files Gustaf Olsson
- Re: [AMBER] Seeking suggestions for breaking a covalent link between atoms Amit Sharma (Asstt. Prof., MCARS)
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered David A Case
- [AMBER] GB-HCP Example File and Setup Richard Kullmann
- Re: [AMBER] Seeking suggestions for breaking a covalent link between atoms David A Case
- Re: [AMBER] CpHMD with structurally different protonation states? Cruzeiro, Vinicius
- Re: [AMBER] CpHMD with structurally different protonation states? Adrian Roitberg
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler David A Case
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Samuel Mohan Dass, Premila
- Re: [AMBER] Apply Lennar-Jones potential between small molecules Ming Tang
- Re: [AMBER] 3D-RISM solvent placement with MoFT He, Amy
Thursday, 25 March 2021
- Re: [AMBER] CpHMD with structurally different protonation states? Dr. Anselm Horn
- [AMBER] MMPBSA errors A. Bakheit
- [AMBER] Electric Field Gradient Mani Radh
- Re: [AMBER] Problem with AMBER20 compilation using Intel/20.4 compiler Shawn Brown
- Re: [AMBER] MMPBSA errors David A Case
- Re: [AMBER] Electric Field Gradient David A Case
- Re: [AMBER] Pmemd to run TI on protein mutations zz sheng
- Re: [AMBER] Electric Field Gradient James Kress
- [AMBER] Addition of hydrogens - isoelectric point of protein Prasanth G, Research Scholar
- Re: [AMBER] Addition of hydrogens - isoelectric point of protein Adrian Roitberg
- [AMBER] Selection of forcefield for protein-ligand simulations Prasanth G, Research Scholar
- Re: [AMBER] Selection of forcefield for protein-ligand simulations Carlos Simmerling
- [AMBER] Clustering based on predefined centroids Abhilash J
Friday, 26 March 2021
- [AMBER] Problem with packmol-memgen when I try to installing Amber20 in GPU Dr. Gerardo Pérez Hernández
- Re: [AMBER] Problem with packmol-memgen when I try to installing Amber20 in GPU David A Case
- Re: [AMBER] Problem with packmol-memgen when I try to installing Amber20 in GPU Stephan Schott
- Re: [AMBER] Clustering based on predefined centroids Christina Bergonzo
- [AMBER] Conversion of CHARMM optimized pdb to AMBER compatible pdb Cato, Lee
- Re: [AMBER] Conversion of CHARMM optimized pdb to AMBER compatible pdb Carlos Simmerling
- [AMBER] Distance tolerance for identifying common atoms in thermodynamics integration zz sheng
- [AMBER] Force field parameters for TYS ? Dr. Anselm Horn
- Re: [AMBER] Problem with packmol-memgen when I try to installing Amber20 in GPU Dr. Gerardo Pérez Hernández
- Re: [AMBER] Conversion of CHARMM optimized pdb to AMBER compatible pdb David A Case
- Re: [AMBER] Distance tolerance for identifying common atoms in thermodynamics integration David A Case
- Re: [AMBER] Problem with packmol-memgen when I try to installing Amber20 in GPU David A Case
- Re: [AMBER] Distance tolerance for identifying common atoms in thermodynamics integration zz sheng
- [AMBER] Calculation halted on pmemd.cuda 库米尔
- [AMBER] Selection of forcefield for protein-ligand simulations Prasanth G, Research Scholar
- Re: [AMBER] Selection of forcefield for protein-ligand simulations Thomas Cheatham
- Re: [AMBER] Addition of hydrogens - isoelectric point of protein Prasanth G, Research Scholar
- Re: [AMBER] Calculation halted on pmemd.cuda Carlos Simmerling
Saturday, 27 March 2021
- Re: [AMBER] Superimpose mohamed marzouk
- [AMBER] Using average frame for nmode entropy calculation? Liao
Sunday, 28 March 2021
- Re: [AMBER] Calculation halted on pmemd.cuda 库米尔
- Re: [AMBER] Selection of forcefield for protein-ligand simulations Jaime Rubio Martinez
- Re: [AMBER] Calculation halted on pmemd.cuda Carlos Simmerling
- Re: [AMBER] Calculation halted on pmemd.cuda David A Case
- Re: [AMBER] Using average frame for nmode entropy calculation? David A Case
- Re: [AMBER] Using average frame for nmode entropy calculation? Liao
- [AMBER] Is it possible to create a deb for ubuntu or a pypi one ? aishen.free.fr
- [AMBER] Unit of Electric field frequency Shakir Ali Siddiqui
- Re: [AMBER] Using average frame for nmode entropy calculation? David A Case
- Re: [AMBER] Is it possible to create a deb for ubuntu or a pypi one ? David A Case
- Re: [AMBER] 3D-RISM solvent placement with MoFT George Madalin Giambasu
Monday, 29 March 2021
- Re: [AMBER] Is it possible to create a deb for ubuntu or a pypi one ? Hrishikesh Dhondge
- Re: [AMBER] Is it possible to create a deb for ubuntu or a pypi one ? David A Case
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- [AMBER] CHARMM Output - Empty Restraint File Aanshi Gandhi
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered David A Case
- Re: [AMBER] CHARMM Output - Empty Restraint File Carlos Simmerling
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- Re: [AMBER] CHARMM Output - Empty Restraint File Aanshi Gandhi
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Song, Lin
- Re: [AMBER] erro: cudaMemcpy GpuBuffer::Download failed an illegal memory access was encountered Renato Araujo
- Re: [AMBER] Using average frame for nmode entropy calculation? Liao
- Re: [AMBER] CHARMM Output - Empty Restraint File Carlos Simmerling
- Re: [AMBER] Is it possible to create a deb for ubuntu or a pypi one ? aishen.free.fr
- [AMBER] Calculating SASA using Surf and Molsurf Loo Kang
- Re: [AMBER] 3D-RISM solvent placement with MoFT He, Amy
Tuesday, 30 March 2021
- Re: [AMBER] Using average frame for nmode entropy calculation? Adrian Roitberg
- [AMBER] Calculating displacement from PMF Pinky Mazumder
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed Jatin Kashyap
- [AMBER] Convert SIRAH coarse-grained model back to all-atomic pdb file format? Michael Shokhen
Wednesday, 31 March 2021
- [AMBER] Antechamber and mol2 file with .<TRIPOS>UNITY_ATOM_ATTR Alan
- Re: [AMBER] Convert SIRAH coarse-grained model back to all-atomic pdb file format? Charo del Genio
- Re: [AMBER] Convert SIRAH coarse-grained model back to all-atomic pdb file format? Dr. Anselm Horn
- Re: [AMBER] Convert SIRAH coarse-grained model back to all-atomic pdb file format? Carlos Simmerling
- Re: [AMBER] MMPBSA per residue decomposition - Calculation speed David A Case
- Re: [AMBER] Antechamber and mol2 file with .<TRIPOS>UNITY_ATOM_ATTR David A Case
- [AMBER] Calculating displacement from PMF Pinky Mazumder
- Re: [AMBER] Convert SIRAH coarse-grained model back to all-atomic pdb file format? Matias Machado
- Re: [AMBER] Using average frame for nmode entropy calculation? Liao

Last message date: Wed Mar 31 2021 - 20:30:02 PDT
Archived on: Fri Apr 19 2024 - 05:55:51 PDT

Amber Archive Mar 2021 by date