AMBER Archive (2009)

Subject: [AMBER] Can I do DNA bending with AMBER?

• Previous message: Catein Catherine: "RE: [AMBER] MM-GBSA nmode error for explicit solvent system only but not for implicit solvent system. Why?"
• In reply to: Catein Catherine: "RE: [AMBER] MM-GBSA nmode error for explicit solvent system only but not for implicit solvent system. Why?"
• Next in thread: Catein Catherine: "[AMBER] What is the parameters for Mg2+?"
• Reply: Catein Catherine: "[AMBER] What is the parameters for Mg2+?"
• Reply: case: "Re: [AMBER] Can I do DNA bending with AMBER?"
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Dear Sir/Madam,

I am trying to study the DNA bending due to DNA modifications. I wonder if it is typically feasible to do the calculations with AMBER. Are there any precaution should I take into account?

Cat

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• Previous message: Catein Catherine: "RE: [AMBER] MM-GBSA nmode error for explicit solvent system only but not for implicit solvent system. Why?"
• In reply to: Catein Catherine: "RE: [AMBER] MM-GBSA nmode error for explicit solvent system only but not for implicit solvent system. Why?"
• Next in thread: Catein Catherine: "[AMBER] What is the parameters for Mg2+?"
• Reply: Catein Catherine: "[AMBER] What is the parameters for Mg2+?"
• Reply: case: "Re: [AMBER] Can I do DNA bending with AMBER?"
• Messages sorted by: [ date ] [ thread ] [ subject ] [ author ]