AMBER Archive (2002) - Nov 2002 By Subject238 messages sorted by:
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Starting: Fri Nov 01 2002 - 03:08:20 CST
Ending: Fri Nov 29 2002 - 15:06:36 CST
- (no subject)
- .top files read into xLeap?
- a second question
- Amber on PC-Linux
- amber on RH8
- Amber Perl module
- Amber7/CYGWIN compiling
- Are posters to the Amber list being spammed?
- atom type not recognized by GB
- average and runningaverage in ptraj
- averaging with ptraj and carnal
- belly and EWALD in amber7
- belly and ivcap conflict in gibbs
- Break down energy contributions
- Bugfixes
- Bulk Email Sending & Bullet Proof Web Hosting
- C60 parameter
- Calculating atomic charges for AMBER with Gaussian98W
- carnal
- carnal output trajectory
- carnal7 produces memory fault and a core
- CCl4 as solvent
- choose dt in gibbs
- CMM method
- Conterions
- creating a pdb trajectory with carnal
- defining groups on dif. sets in carnal
- drifting from average structure
- entropy calcs in mm_pbsa
- Equilibration output Amber7
- equilibrium problem about cut and belly
- Error in Equilibration
- error in reading .crd file with GIBBS
- Error running AMBER6 on Beowulf cluster
- esp.sh problem
- Ewald
- EWALD crash
- external electric field
- external electric field/another try
- FEP/Gibbs question
- flag TREE_CHAIN_CLASSIFICATION in topology file from amber7
- Forwarded mail....
- Frictional forces in gB
- GIBBS - Error message.
- GIBBS - ERROR: Restraint read error from RSTIN; Check format:
- help on VMD movie
- help! Non bond list overflow!
- How Amber calculates electrostatic energy?
- Hydrophobic protein in water
- input format for gibbs restraints
- Inquiry
- intdiel & extdiel
- ion distances
- leap for peptide
- limit of RMSD value
- Linmin question...
- makeDIST_RST?
- MEP g98_option
- molsurf reference
- more about averaging
- NATOM mismatch in coord and topology files.
- nbflag
- NMR restraints on a 10-mer DNA in Sander
- non-zero 10-12 coefficient
- nonpeoridic boundary + mm/gbsa
- ntx=7, irest=0
- ntx=7, irest=0, redux
- Nz-Acetyllysine parameters
- P.3 in antechamber
- P4_GLOBMEMSIZE problem
- parameters for cyclic nucleotides
- parmchk -p option
- PARMSET
- pdb file
- periodic box
- Please help. Energy suddenly increase. Protein jump out
- polarizabitlity
- Problem
- problem about cut and cap
- problem in PME
- problem in restrt
- Problem in run
- procheck
- pseudoatoms and NMR restraints
- question
- ramdomized start velocities
- residue cross-correlation
- restart
- restart mm_pbsa
- restarting simulation
- restrain a residue as center of mass
- Restraint Ambiguities
- restrt format problem
- Roar capabilities
- RUNMIN
- Sander: check COM velocity, temp: 0.000000 0.00(Removed)
- saveAmberParm of leap
- simulating dna
- Snapshot stuff
- solvateOct
- surface
- targeted MD for more than 2 groups
- the removal of global motion
- the tree name?
- time-averaged restraint developer
- torsion restraints in GIBBS
- total energies during MM-PBSA
- using SHAKE for solvent only
- Visualizing AMBER coordinates trajectory in VMD
- your mail
Last message date: Tue Dec 31 2002 - 15:51:31 CST
Archived on: Thu May 05 2005 - 14:17:27 CDT
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