Amber Archive Apr 2020: by date

Tuesday, 31 March 2020
- [AMBER] sum of charges from parm file Lenka
- Re: [AMBER] sum of charges from parm file Lenka
Wednesday, 1 April 2020
- Re: [AMBER] RTX 2020 Super GPU Random Memory Errors Giorgos Lambrinidis
- Re: [AMBER] NPT equilibration is crashing Sunita Patel
- [AMBER] Remove restraint mohamed marzouk
- Re: [AMBER] Remove restraint Ahmed Elrashedy
- Re: [AMBER] NPT equilibration is crashing Carlos Simmerling
- Re: [AMBER] NPT equilibration is crashing David Sáez
- Re: [AMBER] Remove restraint David A Case
- [AMBER] Running Steered MD Simulations using GPU Souvik Dey
- Re: [AMBER] Running Steered MD Simulations using GPU Gerardo Zerbetto De Palma
- Re: [AMBER] NPT equilibration is crashing Sunita Patel
- Re: [AMBER] NPT equilibration is crashing Carlos Simmerling
- [AMBER] Problem in configuring Sapna Shedge
Thursday, 2 April 2020
- Re: [AMBER] Problem in configuring David A Case
- Re: [AMBER] [External] Re: AmberTools19 update.8 fails to install mark.bergman.uphs.upenn.edu
- [AMBER] AMBER 18 cuda installation: error: redefinition of ‘simulationConst cSim’ Sapna Shedge
- [AMBER] pyramidal amide nitrogen Arnaud Bondon
- [AMBER] cellulose chain Pinky Mazumder
- [AMBER] Incorrect results when running MMPBSA example. Shum, Ho Hin
Friday, 3 April 2020
- Re: [AMBER] Error: Could not find angle parameter Rosellen, Martin
- [AMBER] Amber force field for SDS and DPC detergents Ricky Nencini
- Re: [AMBER] Amber force field for SDS and DPC detergents ABEL Stephane
- Re: [AMBER] Amber force field for SDS and DPC detergents Ricky Nencini
- [AMBER] nmode entropy calculations gets stuck way too often Liao
- Re: [AMBER] nmode entropy calculations gets stuck way too often Roitberg,Adrian E
- Re: [AMBER] NPT equilibration is crashing Sunita Patel
- Re: [AMBER] nmode entropy calculations gets stuck way too often Liao
- Re: [AMBER] NPT equilibration is crashing David Sáez
Saturday, 4 April 2020
- Re: [AMBER] Contents of Amber Digest Pinky Mazumder
- [AMBER] ff_amber_to_viparr.py Error iraklis litinas
- Re: [AMBER] Abasic Site and Leap Polymerization Robert Molt
- Re: [AMBER] Abasic Site and Leap Polymerization Christina Bergonzo
- Re: [AMBER] ff_amber_to_viparr.py Error David A Case
- Re: [AMBER] nmode entropy calculations gets stuck way too often David A Case
- Re: [AMBER] NPT equilibration is crashing Sunita Patel
- Re: [AMBER] NPT equilibration is crashing Carlos Simmerling
- [AMBER] 12-6-4LJ for thermodynamic integration on PMEMD engine Paulius Kantakevicius
- Re: [AMBER] nmode entropy calculations gets stuck way too often Liao
- Re: [AMBER] Abasic Site and Leap Polymerization Robert Molt
- Re: [AMBER] Abasic Site and Leap Polymerization Christina Bergonzo
- Re: [AMBER] AMBER 18 cuda installation: error: redefinition of ???simulationConst cSim??? Scott Brozell
- [AMBER] Sequence command to build the 4 - O glucuronuxylans chain Pinky Mazumder
- Re: [AMBER] NPT equilibration is crashing Sunita Patel
- Re: [AMBER] AMBER 18 cuda installation: error: redefinition of ???simulationConst cSim??? David Cerutti
Sunday, 5 April 2020
- [AMBER] Help for the sequence of residue name Pinky Mazumder
- Re: [AMBER] Sequence command to build the 4 - O glucuronuxylans chain Karl Kirschner
- Re: [AMBER] NPT equilibration is crashing Carlos Simmerling
- Re: [AMBER] Differences in Lennard-Jones interactions in CPU vs GPU pmemd? David A Case
- Re: [AMBER] cellulose chain David A Case
- [AMBER] PrmtopError: Inconsistent charge definition for atom DHEERAJ CHITARA
- Re: [AMBER] Abasic Site and Leap Polymerization Robert Molt
- Re: [AMBER] cellulose chain Raman Preet Singh
- Re: [AMBER] Sequence command to build the 4 - O glucuronuxylans chain Hector A. Baldoni
- Re: [AMBER] Abasic Site and Leap Polymerization Christina Bergonzo
- Re: [AMBER] Sequence command to build the 4 - O glucuronuxylans chain Pinky Mazumder
- Re: [AMBER] Sequence command to build the 4 - O glucuronuxylans chain Pinky Mazumder
- Re: [AMBER] PrmtopError: Inconsistent charge definition for atom David A Case
- [AMBER] Installation of ambertools on 32 bit linux system Prasanth G, Research Scholar
Monday, 6 April 2020
- [AMBER] ERROR: Calculation halted. Periodic box dimensions have changed too much from their initial values. Gallo, Angelo
- Re: [AMBER] ERROR: Calculation halted. Periodic box dimensions have changed too much from their initial values. Carlos Simmerling
- Re: [AMBER] Installation of ambertools on 32 bit linux system David A Case
- Re: [AMBER] ERROR: Calculation halted. Periodic box dimensions have changed too much from their initial values. David A Case
- [AMBER] command for building composite of cellulose microfibrils and hemicelullose Pinky Mazumder
- [AMBER] Penalty score in frcmod file Sruthi Sudhakar
Tuesday, 7 April 2020
- [AMBER] topology problems Seibold, Steve Allan
- Re: [AMBER] topology problems Matias Machado
Wednesday, 8 April 2020
- Re: [AMBER] topology problems David A Case
- [AMBER] Ligand leaving binding site at high lambdas using TI softcore Juraj Dobias
- [AMBER] peek_ewald_inpcrd: Box info not found in inpcrd Sunita Patel
Thursday, 9 April 2020
- Re: [AMBER] peek_ewald_inpcrd: Box info not found in inpcrd David A Case
- Re: [AMBER] peek_ewald_inpcrd: Box info not found in inpcrd Sunita Patel
- Re: [AMBER] 12-6-4LJ for thermodynamic integration on PMEMD engine Pengfei Li
- Re: [AMBER] Weird error with antechamber for metal ion / MCPB tutorial Pengfei Li
- Re: [AMBER] peek_ewald_inpcrd: Box info not found in inpcrd David A Case
- Re: [AMBER] 12-6-4LJ for thermodynamic integration on PMEMD engine Song, Lin
- Re: [AMBER] sum of charges from parm file Pengfei Li
- Re: [AMBER] tleap for Mg2+ data type Pengfei Li
- [AMBER] ImportError: Could not import Amber Python modules Renato Araujo
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Juraj Dobias
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Dickson, Callum
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Juraj Dobias
- Re: [AMBER] ImportError: Could not import Amber Python modules David A Case
- Re: [AMBER] tleap for Mg2+ data type Sunita Patel
- [AMBER] Installing nglview Jatin Kashyap
- [AMBER] Acetylated the truncated N- terminal Lod King
- [AMBER] questions about paramfit ttz
- Re: [AMBER] Acetylated the truncated N- terminal David Sáez
- Re: [AMBER] Acetylated the truncated N- terminal Lod King
- Re: [AMBER] Acetylated the truncated N- terminal Abdul-Rashid III Sampaco
- Re: [AMBER] Acetylated the truncated N- terminal David Sáez
- Re: [AMBER] Acetylated the truncated N- terminal Lod King
Friday, 10 April 2020
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Debarati DasGupta
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Qinghua Liao
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Debarati DasGupta
- [AMBER] Very low MMPBSA result Nada Afiva
- Re: [AMBER] Very low MMPBSA result Ray Luo
- [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Erdem Yeler
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Ilyas Yildirim
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests Cong Liu
- [AMBER] Partial charge for ligand Lod King
- Re: [AMBER] Installing nglview Hai Nguyen
- Re: [AMBER] Installing nglview Jatin Kashyap
- Re: [AMBER] Installing nglview Hai Nguyen
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- [AMBER] Can I use paramfit for MM scan? Elif Çiğdem Calvin
- Re: [AMBER] Very low MMPBSA result Ray Luo
- Re: [AMBER] peek_ewald_inpcrd: Box info not found in inpcrd Sunita Patel
Saturday, 11 April 2020
- [AMBER] Help for building lignin chain Pinky Mazumder
- Re: [AMBER] Help for building lignin chain Karl Kirschner
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Juraj Dobias
- Re: [AMBER] Can I use paramfit for MM scan? David Cerutti
- Re: [AMBER] Very low MMPBSA result David A Case
- Re: [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests David A Case
- Re: [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests Cong Liu
- [AMBER] examination of ligand binding energy as a function of simulation time with MMPBSA calculations Billiot, Eugene
- [AMBER] Amber install CUDA truble ChenXingqiang
- Re: [AMBER] AMBER 18 cuda installation ChenXingqiang
- Re: [AMBER] Ligand leaving binding site at high lambdas using TI softcore Brian Radak
- Re: [AMBER] AMBER 18 cuda installation Ray Luo
- [AMBER] Antechamber/acpype for ligand parametrization and usage of yasara autosmiles Prasanth G, Research Scholar
- Re: [AMBER] nmode entropy calculations gets stuck way too often Liao
- Re: [AMBER] Can I use paramfit for MM scan? Erdem Yeler
- Re: [AMBER] AMBER 18 cuda installation ChenXingqiang
- Re: [AMBER] Very low MMPBSA result Nada Afiva
Sunday, 12 April 2020
- Re: [AMBER] Antechamber/acpype for ligand parametrization and usage of yasara autosmiles David A Case
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Lorenzo Gontrani
- Re: [AMBER] Very low MMPBSA result Ray Luo
- Re: [AMBER] examination of ligand binding energy as a function of simulation time with MMPBSA calculations Ray Luo
- Re: [AMBER] Can I use paramfit for MM scan? David Cerutti
Monday, 13 April 2020
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- Re: [AMBER] Can I use paramfit for MM scan? Erdem Yeler
- [AMBER] integration algorithm of sander? And reference of sander? Erdem Yeler
- Re: [AMBER] integration algorithm of sander? And reference of sander? Carlos Simmerling
- Re: [AMBER] integration algorithm of sander? And reference of sander? Erdem Yeler
- Re: [AMBER] integration algorithm of sander? And reference of sander? Carlos Simmerling
- Re: [AMBER] integration algorithm of sander? And reference of sander? Erdem Yeler
- [AMBER] Reg:MMPB(GB)SA Error Lara rajam
- Re: [AMBER] Reg:MMPB(GB)SA Error Elvis Martis
- Re: [AMBER] Reg:MMPB(GB)SA Error David A Case
- Re: [AMBER] integration algorithm of sander? And reference of sander? David A Case
- Re: [AMBER] Very low MMPBSA result Ray Luo
- Re: [AMBER] Amber install CUDA truble Sapna Shedge
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- [AMBER] geometry of amino Song Hu
Tuesday, 14 April 2020
- [AMBER] Simulating magnetite surfaces with AMBER Casalini Tommaso
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Gustavo Seabra
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Steven M. Graham
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Hector A. Baldoni
- Re: [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests Cong Liu
- Re: [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests Kellon Belfon
- [AMBER] RST File Corrupt Czarny,Ryan
- [AMBER] CPPtraj PCA error Rana Rehan Khalid
- Re: [AMBER] RST File Corrupt Carlos Simmerling
- Re: [AMBER] Amber18 compiled with GCC/8.3.0 fails some DPFP tests Cong Liu
- Re: [AMBER] CPPtraj PCA error Elvis Martis
- Re: [AMBER] CPPtraj PCA error Rana Rehan Khalid
- Re: [AMBER] RST File Corrupt Czarny,Ryan
- Re: [AMBER] integration algorithm of sander? And reference of sander? Erdem Yeler
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Erdem Yeler
- [AMBER] 1 chain-1chain interactions between carbohydrates Pinky Mazumder
- Re: [AMBER] Help for building lignin chain Pinky Mazumder
Wednesday, 15 April 2020
- Re: [AMBER] Help for building lignin chain Carlos Simmerling
- Re: [AMBER] Clustering analysis Debarati DasGupta
- Re: [AMBER] Very low MMPBSA result Nada Afiva
- Re: [AMBER] Why is 360 degree is not equal to 0 degree in PES Scan? Erdem Yeler
- Re: [AMBER] Can I use paramfit for MM scan? Erdem Yeler
- Re: [AMBER] Can I use paramfit for MM scan? David Cerutti
- [AMBER] Generating an asymmetric box for Steered MD Souvik Dey
- [AMBER] miniconda3 AmberTools MMPBSA.py ERROR 15501908560.163.com>
- [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
Thursday, 16 April 2020
- Re: [AMBER] 1 chain-1chain interactions between carbohydrates Lachele Foley
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
- Re: [AMBER] simulations of proteins with 2 domains connected by a linker Vlad Cojocaru
- Re: [AMBER] Generating an asymmetric box for Steered MD David A Case
- [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation Carlos Simmerling
- Re: [AMBER] protein-protein complex dissociation ABEL Stephane
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation Carlos Simmerling
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation Carlos Simmerling
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation Carlos Simmerling
- [AMBER] Error when installing miniconda through AmberTools19 Gardezi,Shahbaz
- Re: [AMBER] Error when installing miniconda through AmberTools19 Abdul-Rashid III Sampaco
- Re: [AMBER] Error when installing miniconda through AmberTools19 Gardezi,Shahbaz
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- Re: [AMBER] protein-protein complex dissociation David A Case
- Re: [AMBER] Error when installing miniconda through AmberTools19 David A Case
- Re: [AMBER] Generating an asymmetric box for Steered MD Souvik Dey
- Re: [AMBER] Error when installing miniconda through AmberTools19 Gardezi,Shahbaz
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
Friday, 17 April 2020
- Re: [AMBER] Generating an asymmetric box for Steered MD Souvik Dey
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- Re: [AMBER] protein-protein complex dissociation Dr. Anselm Horn
- Re: [AMBER] protein-protein complex dissociation Núbia Toman
- [AMBER] Request for help in solving installation errors of Amber dhruvi.iiar.res.in
- [AMBER] Force Field for small molecule ligands Sruthi Sudhakar
- Re: [AMBER] Force Field for small molecule ligands Carlos Simmerling
- Re: [AMBER] Force Field for small molecule ligands Sruthi Sudhakar
- [AMBER] thanks for the GB/SA section of the manual Antoine MARION
- Re: [AMBER] thanks for the GB/SA section of the manual Carlos Simmerling
- Re: [AMBER] thanks for the GB/SA section of the manual Antoine MARION
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- Re: [AMBER] examination of ligand binding energy as a function of simulation time with MMPBSA calculations Eugene.Billiot.tamucc.edu
- [AMBER] Probable bug in tleap. Hector A. Baldoni
- Re: [AMBER] examination of ligand binding energy as a function of simulation time with MMPBSA calculations Preeti Pandey
- Re: [AMBER] Probable bug in tleap. Scott Brozell
- Re: [AMBER] Probable bug in tleap. Daniel Roe
- Re: [AMBER] examination of ligand binding energy as a function of simulation time with MMPBSA calculations Eugene.Billiot.tamucc.edu
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- [AMBER] Amber18 PIMD tutorial Sapna Shedge
Saturday, 18 April 2020
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
- Re: [AMBER] Amber18 PIMD tutorial David A Case
- [AMBER] Request for help in solving installation errors of Amber dhruvi.iiar.res.in
- [AMBER] FRCMOD file Sruthi Sudhakar
- Re: [AMBER] FRCMOD file Carlos Simmerling
- Re: [AMBER] Amber18 PIMD tutorial Sapna Shedge
- Re: [AMBER] Request for help in solving installation errors of Amber Hai Nguyen
- Re: [AMBER] Request for help in solving installation errors of Amber Hai Nguyen
Sunday, 19 April 2020
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
- Re: [AMBER] Request for help in solving installation errors of Amber dhruvi.iiar.res.in
Monday, 20 April 2020
- [AMBER] pytraj error Ravi Abrol
- Re: [AMBER] Request for help in solving installation errors of Amber David A Case
- Re: [AMBER] pytraj error David A Case
- Re: [AMBER] RTX 2020 Super GPU Random Memory Errors Dow Hurst
- [AMBER] restraining many individual atoms Ignacio General
- Re: [AMBER] restraining many individual atoms James Kress
- Re: [AMBER] restraining many individual atoms Ignacio J. General
- Re: [AMBER] restraining many individual atoms David A Case
- Re: [AMBER] restraining many individual atoms Ignacio J. General
- Re: [AMBER] pytraj error Ravi Abrol
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- [AMBER] Sander can't calculate MBAR energy swjjin0015.163.com
- Re: [AMBER] pytraj error Hai Nguyen
- [AMBER] Energy values from mdout (excluding solvent molecules) Eduardo R. Almeida
Tuesday, 21 April 2020
- [AMBER] Problem in calculating pairwise interaction with CPPTRAJ Prathit Chatterjee
- Re: [AMBER] pytraj error Ravi Abrol
- [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] pytraj error Hai Nguyen
- Re: [AMBER] Restraint on certain atoms during MD David A Case
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] pytraj error Ravi Abrol
- [AMBER] Sander can't calculate Mbar energy swjjin0015.163.com
- [AMBER] Targeted MD Hector A. Baldoni
Wednesday, 22 April 2020
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD David A Case
- [AMBER] Amber18, tools19, cuda 10.2 Christopher Benjamin Coffey
- [AMBER] implicit water Fabian Glaser
- Re: [AMBER] Restraint on certain atoms during MD Daniel Roe
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Carlos Simmerling
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- Re: [AMBER] Restraint on certain atoms during MD Debarati DasGupta
- [AMBER] Sander can not calculate Mbar energy Gini
Thursday, 23 April 2020
- [AMBER] How to change charge value for 1 residue for MD simulation? Devashish_Das
- [AMBER] FATAL: allocation failure in ivector() error while running 3D-RISM calculations Leena Aggarwal
- Re: [AMBER] How to change charge value for 1 residue for MD simulation? David A Case
- Re: [AMBER] FATAL: allocation failure in ivector() error while running 3D-RISM calculations David A Case
- [AMBER] Energy values from mdout files (excluding solvent molecules) Eduardo R. Almeida
- Re: [AMBER] Amber18, tools19, cuda 10.2 David A Case
- Re: [AMBER] Amber18, tools19, cuda 10.2 accuratefreeenergy.gmail.com
- [AMBER] Run Amber as a job array Anna Sekuła
- Re: [AMBER] Amber18, tools19, cuda 10.2 Christopher Benjamin Coffey
- [AMBER] Fwd: FATAL: allocation failure in ivector() error while running 3D-RISM calculations Leena Aggarwal
Friday, 24 April 2020
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
- [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] wrong geometry amide nitrogen David A Case
- [AMBER] unsubscribe Christopher Benjamin Coffey
Saturday, 25 April 2020
- [AMBER] minimizing a pyridine in water Debarati DasGupta
- Re: [AMBER] minimizing a pyridine in water Carlos Simmerling
- [AMBER] DNA-RNA duplex Sruthi Sudhakar
- [AMBER] Ligand lose planarity Jenny 148
- Re: [AMBER] minimizing a pyridine in water Debarati DasGupta
- Re: [AMBER] minimizing a pyridine in water David A Case
- Re: [AMBER] minimizing a pyridine in water Debarati DasGupta
- Re: [AMBER] minimizing a pyridine in water Debarati DasGupta
- Re: [AMBER] minimizing a pyridine in water James Kress
- [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- [AMBER] NAB to create DNA/RNA hybrid? Jisha B
Sunday, 26 April 2020
- Re: [AMBER] Recurring problem: Ligand lose planarity Sruthi Sudhakar
- Re: [AMBER] Recurring problem: Ligand lose planarity Carlos Simmerling
- Re: [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- Re: [AMBER] Recurring problem: Ligand lose planarity Carlos Simmerling
- Re: [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- Re: [AMBER] Recurring problem: Ligand lose planarity Carlos Simmerling
- Re: [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- Re: [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- [AMBER] cylindrical Simulation mohamed marzouk
- Re: [AMBER] Interaction of cellulose-hemicellulose Pinky Mazumder
Monday, 27 April 2020
- Re: [AMBER] Interaction of cellulose-hemicellulose Dr. Anselm Horn
- [AMBER] Tsolute and Tsolvent Eduardo R. Almeida
- Re: [AMBER] NAB to create DNA/RNA hybrid? David A Case
- Re: [AMBER] Recurring problem: Ligand lose planarity David A Case
- Re: [AMBER] Recurring problem: Ligand lose planarity David A Case
- [AMBER] AMBER leap issues constructing non-standard residue Siddharth marwaha
- Re: [AMBER] Recurring problem: Ligand lose planarity Jenny 148
- Re: [AMBER] minimizing a pyridine in water Debarati DasGupta
- [AMBER] How to get the eigenvalues from PCA SUNITA MUDULI
- Re: [AMBER] DNA-RNA duplex Satyaseelan C
- Re: [AMBER] NAB to create DNA/RNA hybrid? Satyaseelan C
Tuesday, 28 April 2020
- [AMBER] error tleap MYRIAN TORRES RICO
- [AMBER] tlea MYRIAN TORRES RICO
- [AMBER] Using tleap tho have the .inpcrd and crd file ABEL Stephane
- [AMBER] Unavailability of AMBER tutorial on PCA Abhilash J
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang
- [AMBER] adding hydrogen to pdbqt ligand files Marawan Hussien
- Re: [AMBER] Unavailability of AMBER tutorial on PCA James Kress
- Re: [AMBER] adding hydrogen to pdbqt ligand files David A Case
- Re: [AMBER] cylindrical Simulation mohamed marzouk
- [AMBER] nativecontacts mohamed marzouk
Wednesday, 29 April 2020
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- [AMBER] tleap error MYRIAN TORRES RICO
- Re: [AMBER] Using tleap tho have the .inpcrd and crd file David A Case
- Re: [AMBER] nativecontacts Gustavo Seabra
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] Unavailability of AMBER tutorial on PCA Abhilash J
- Re: [AMBER] Unavailability of AMBER tutorial on PCA Rodrigo Galindo-Murillo
- [AMBER] Question about PCA tutorial Abhilash J
- [AMBER] tMD and pmemd Francesco Gentile
- Re: [AMBER] tMD and pmemd Carlos Simmerling
- Re: [AMBER] tlea Lachele Foley
- Re: [AMBER] Interaction of cellulose-hemicellulose Lachele Foley
- Re: [AMBER] Question about PCA tutorial Thomas Cheatham
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang
Thursday, 30 April 2020
- Re: [AMBER] tlea MYRIAN TORRES RICO
- Re: [AMBER] wrong geometry amide nitrogen Arnaud Bondon
- Re: [AMBER] Using tleap tho have the .inpcrd and crd file ABEL Stephane
- [AMBER] Mutations in existing DNA PDB file Jisha B
- [AMBER] TI simulations Debarati DasGupta
- Re: [AMBER] SHAKE ALgorithm and frcmod file Carlos Simmerling
- Re: [AMBER] Question about PCA tutorial Abhilash J
- Re: [AMBER] wrong geometry amide nitrogen Junmei Wang

Last message date: Thu Apr 30 2020 - 20:30:02 PDT
Archived on: Wed Apr 17 2024 - 05:55:49 PDT

Amber Archive Apr 2020 by date