Amber Archive Oct 2005 by subject
- AMBER: (no subject)
- AMBER: again: F, Cl, Br, I in MMPBSA
- AMBER: AMBER compilation - RH Enterprise 4, Xeon EM64T
- AMBER: AMBER compilation error
- AMBER: amber file formats.
- AMBER: AMBER goes in a Loop
- AMBER: AMBER tests (x86-64, PGI / Intel)
- AMBER: amber7.0: F,Br,radius in MMPBSA
- AMBER: amber8 parallel sander
- AMBER: antechamber -- missing improper torsions
- AMBER: antechamber dimesion size, again
- AMBER: Antechamber error
- AMBER: atmtypenumbers
- AMBER: Can I trust ANAL result?
- AMBER: Cluster analysis by MMTSB or ptraj
- AMBER: compiling amber with pgi 5.2.4
- AMBER: Cu++ and RED
- AMBER: cut-offs in non-periodic simulations
- AMBER: Cyclohexane solvent Box
- AMBER: delphi and surface in MMPBSA
- AMBER: Dipolar coupling refinement
- AMBER: Energy output problem!
- AMBER: Error check COM velocity!!
- AMBER: error in safe
- AMBER: F,Cl,Br,I in MMPBSA
- AMBER: Free energy calculation for protein-protein complex usingMM_PBSA
- AMBER: Free energy for L and D amino acids
- AMBER: GBSA simulation problem
- AMBER: GNU Autotool integration for Amber8!
- AMBER: Hi..I am new to AMBER.(compilation with MPICH-G2 libraries)...
- AMBER: how can I constitute T-phosphotyrosine group ?
- AMBER: How to calculate binding free energy of ligand bound to complex with two active-site water molecules?
- AMBER: how to constitute T-phosphotyrosine group?
- AMBER: How to get PDB structures optimized for RED-II
- AMBER: How to simulate a crystal structure?
- AMBER: I am looking forward to hearing from you.
- AMBER: Improper Torsional Parameters
- AMBER: Increase the runtime of Amber benchmarks
- AMBER: Installation error - icc: command not found
- AMBER: Is AMBER package suitable for simulating multiple molecule in solvent?
- AMBER: Is MM-PBSA doable for transition metals ?
- AMBER: Manganese ion parameter
- AMBER: maxgrp error
- AMBER: Metals with Amber
- AMBER: Minimization in sander and nmode
- AMBER: Neutral C-terminal residue
- AMBER: oxidised methionine residue
- AMBER: Parameters and topology for Diacylglycerol (DAG)
- AMBER: parameters for pyridoxal phosphate
- AMBER: parmchk error : Cannot open CONNECT.TPL, exit
- AMBER: PCA
- AMBER: pca with ptraj
- AMBER: porblem in ptraj
- AMBER: Problem during production!!
- AMBER: problem with temperature weights
- AMBER: Problem with the QMMM example in AMBER 2004 tutorial
- AMBER: problem with xleap
- AMBER: problems installing amber 7 on a RH Linux 8 machine
- AMBER: program to visualize crystal symmetries
- AMBER: ptraj hbond analysis
- AMBER: QMMM for copper complexes!
- AMBER: QMMM question
- AMBER: question about grid in ptraj
- AMBER: Question about NVE simulation.
- AMBER: question temperature coupling tautp value for RNA
- AMBER: R factors in NMR intensity refinement
- AMBER: rdparm: a parameter array overflowed
- AMBER: REMD error!!!
- AMBER: REMD trajectory error!!!
- AMBER: restart file and crd file
- AMBER: rounding in xleap when using saveoff command...
- AMBER: sander error
- AMBER: Scaling factor of NMR restraint
- AMBER: seg fault error in resp
- AMBER: Simple 3D Molecule Visualization
- AMBER: Simulating transition metals in amber
- AMBER: some questions when using ATP
- AMBER: Targeted MD
- AMBER: The default of HIS in leaprc : HID or HIE ?
- AMBER: tkbc2
- AMBER: trouble in calculating the distance between O atom of water molecule and atom of residue
- AMBER: troubleshooting replica exchange
- AMBER: Unknown atomtypes in amber
- AMBER: using constraints with QM/MM
- AMBER: using position restraints in target MD?
- AMBER: Using RED to calculate partial charges of new amino acid
- AMBER: vdw of h atoms
- AMBER: warning in leap
- AMBER: with two water molecules in active site, how to calculate the free energy of ligand bound to complex?
- AMBER: xleap with modified residue
- AMBER: xleap, opteron, pgi and segmentation fault.
- AW: AMBER: compiling amber with pgi 5.2.4
- pca with ptraj
- restraints
- The default of HIS in leaprc : HID or HIE ?
- Last message date: Mon Oct 31 2005 - 23:53:01 PST
- Archived on: Fri Dec 27 2024 - 05:53:28 PST
