Amber Archive Jan 2026: by thread

Re: [AMBER] Error while running MMPBSA using Amber16 input script on BRaF cluster David A Case via AMBER (Fri Jan 02 2026 - 09:07:24 PST)
[AMBER] Query regarding DNA sequence generation in latest AMBER versions MAMTA YADAV via AMBER (Sat Jan 03 2026 - 07:43:58 PST)
- Re: [AMBER] Query regarding DNA sequence generation in latest AMBER versions James Kress via AMBER (Sat Jan 03 2026 - 10:39:44 PST)
  - Re: [AMBER] Query regarding DNA sequence generation in latest AMBER versions Adrian Roitberg via AMBER (Sun Jan 04 2026 - 10:03:02 PST)
    - Re: [AMBER] Query regarding DNA sequence generation in latest AMBER versions James Kress via AMBER (Sun Jan 04 2026 - 11:57:35 PST)
    - Re: [AMBER] Query regarding DNA sequence generation in latest AMBER versions David A Case via AMBER (Sun Jan 04 2026 - 12:51:17 PST)
[AMBER] Identify catalytic water using cpptraj Abhilash J via AMBER (Mon Jan 05 2026 - 13:22:00 PST)
[AMBER] Request for Guidance on Generating DCCM YASHIKA . via AMBER (Mon Jan 05 2026 - 22:26:23 PST)
[AMBER] GAMESS RESP Mandar Kulkarni via AMBER (Tue Jan 06 2026 - 00:50:00 PST)
- Re: [AMBER] GAMESS RESP David A Case via AMBER (Tue Jan 06 2026 - 08:50:50 PST)
[AMBER] Query regarding CUDA and Amber24 installation. Manasa Bharath ic44158 via AMBER (Tue Jan 06 2026 - 21:55:40 PST)
[AMBER] Mg2+ parameters: Optimized or CM Mandar Kulkarni via AMBER (Wed Jan 07 2026 - 04:00:37 PST)
- Re: [AMBER] Mg2+ parameters: Optimized or CM Li, Zhen via AMBER (Wed Jan 07 2026 - 08:27:43 PST)
  - Re: [AMBER] Mg2+ parameters: Optimized or CM Mandar Kulkarni via AMBER (Wed Jan 07 2026 - 09:05:19 PST)
    - Re: [AMBER] Mg2+ parameters: Optimized or CM David A Case via AMBER (Wed Jan 07 2026 - 09:30:35 PST)
[AMBER] 3DNA fiber PDB compatibility with AMBER tleap MANVENDRA SINGH via AMBER (Thu Jan 08 2026 - 02:27:35 PST)
- Re: [AMBER] 3DNA fiber PDB compatibility with AMBER tleap David A Case via AMBER (Thu Jan 08 2026 - 20:48:29 PST)
[AMBER] How to obtain a Z-DNA structure from NAB? Manasa Bharath ic44158 via AMBER (Thu Jan 08 2026 - 02:40:14 PST)
- Re: [AMBER] How to obtain a Z-DNA structure from NAB? David A Case via AMBER (Thu Jan 08 2026 - 21:00:38 PST)
Re: [AMBER] Looking at gaff2 Téletchéa Stéphane via AMBER (Fri Jan 09 2026 - 00:59:13 PST)
[AMBER] tleap solvation box does not enclose all molecules (aggregation system) Sree Gouri Menon via AMBER (Sun Jan 11 2026 - 22:59:34 PST)
- Re: [AMBER] tleap solvation box does not enclose all molecules (aggregation system) Arun Srikanth via AMBER (Sun Jan 11 2026 - 23:23:56 PST)
  - Re: [AMBER] tleap solvation box does not enclose all molecules (aggregation system) Arun Srikanth via AMBER (Mon Jan 12 2026 - 01:00:26 PST)
    - Re: [AMBER] tleap solvation box does not enclose all molecules (aggregation system) Dr. Anselm Horn via AMBER (Mon Jan 12 2026 - 06:00:48 PST)
[AMBER] RNA chi angle definition AMBER vs Gromacs Mandar Kulkarni via AMBER (Tue Jan 13 2026 - 03:56:09 PST)

Amber Archive Jan 2026 by thread