Re: [AMBER] FATAL atom does not have a type crispr cas9 pdb

From: David A Case <>
Date: Mon, 31 Aug 2020 08:04:18 -0400

On Sun, Aug 30, 2020, Jisha B wrote:

>FATAL: Atom .R<DA5 1523>.A<P 31> does not have a type. FATAL: Atom .R<DA5
>1523>.A<OP1 32> does not have a type. FATAL: Atom .R<DA5 1523>.A<OP2 33>
>does not have a type.

Amber's standard 5' terminal DNA residues do not have a phosphate group.
If *all* your 5' DNA's have a dangling phosphate, then try loading
terminal_monophosphate.lib after sourcing leaprc.DNA.OL15. (Take a look
at the terminal_monophosphate.lib library to see what it is doing.)

An alternative is to use the method described in Section 3.2.3 of the
Amber20 Reference Manual.

...hope this helps....dac

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Received on Mon Aug 31 2020 - 05:30:02 PDT
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