AMBER Archive (2003) - Mar 2003 By Subject222 messages sorted by:
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Starting: Mon Mar 03 2003 - 07:54:48 CST
Ending: Mon Mar 31 2003 - 17:42:35 CST
- (no subject)
- [Fwd: MPI problem in modi4.ncsa.uiuc.edu]
- a perl question for Hbond occupancies analysis
- a question about simulation at high temperature
- about maxium number of residues read by xleap (fwd)
- abt. Plastocyanin tutorial
- Algorithm for the motion equations?
- amber
- amber installation problems (fwd)
- Amber web page
- AMBER/FEP: RESP charges
- AMBER6 in Solaris 8
- amber7 & mpich on sgi (fwd)
- amber7 on sgi
- ambpdb
- Analysis of Curves program output
- antechamber -rn keyword
- Antechamber atom types
- Antechamber Manual
- Antechamber questions
- atom type
- barium
- Carnal processing of binary mdcrd files (IOUTFM=1) Sander 7
- charge neutralization in DNA
- CHARMm force field for AMBER
- CMC/MD
- Compiling Amber7 for linux
- DelphiLinux V. 4 Segmentation Fault
- Diferences in gibbs
- Disulphide bridges
- doubts
- EWALD
- Extracting structures
- format of 'mask' in ptraj
- Forwarded mail....
- Forwarded mail.... (fwd)
- Fourth European Workshop in Drug Design
- GB simulation on protein (fwd)
- GB vs. explicit solvent calculations
- GIBBS - Non periodic simulations.
- Glycerol Parameters
- GRASP (fwd)
- Hbond analysis with Carnal
- Helical Drift
- how to convert the amber force field files to any proper format that can be used by gaussian98
- How to do with two MG2+ ions?
- how to generate FF of DNA complex?
- hydration site
- hydrogen bonding
- improper torsion for X -CB-CB-X
- Install Amber 7
- install amber7 on Linux (fwd)
- installing AMBER 7
- intel ifc amber5 and mpich-1.2.5
- intra-perturbed group (fwd)
- lanes when solvating in LEAP (fwd)
- leap remove command
- Leap to prep
- Lipids
- Machine for IBM Horizon
- Max residues (fwd)
- Maximum molecular size for Amber?
- Mg2+ ion parameters
- MM-PBSA results
- MM_PBSA (Amber7) and delphi
- Move the atom with specific velosity
- mpirun problem!
- namelist read: variable not in namelist
- nasty npt md problem (fwd)
- Neutral Arginine
- Notes: Compiling Amber 7 on Mac OS X (fwd)
- NTX / INIT inconsistency
- Parameters for Cy3 and Fluorescein
- Parameters for Hyddantoin derivatives?
- parameters GB/SA
- Parameters: additive, lone pair
- PBC without solvent
- PME cutoff box size
- Polarization simulation
- Preparation of RESP input from GAUSSIAN output
- pressure variation control
- pressure variation control (fwd)
- problem of mass center
- problem with "Example 3" tutorials
- profec
- Protein Reorientation
- Protein Reorientation (fwd)
- Protein-Inhibitor binding afinity
- ptraj html documentation still available?
- question about dummy atoms? (fwd)
- question about mm_pbsa
- question about mm_pbsa?
- reflector text - please ignore
- reg. problem with SM and ICE libraries
- Regarding the quotation for AMBER 7 Programme
- Resp Charges for large ligand.
- RMS in carnal
- sander outputs
- SANDER vs GIBBS equilibration
- Script and MPICH
- sequence
- Solaris Benchmark for Amber7
- Summary: Protein-Inhibitor binding affinity
- surface accesible area
- tautp in gibbs
- teleap
- The gblambda parameter
- three digits in the charges of extPDB
- tip5p water model
- tleap in large systems
- unit of energy
- using antechamber
- using xleap
- velocities
- Water density and force output questions
- waterbox
- Why the NMA discrepancies?
- writing mol2 files using antechamber
Last message date: Fri Feb 06 2004 - 10:15:04 CST
Archived on: Thu May 05 2005 - 14:17:44 CDT
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