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normal cg atom and all-atom mapping

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11 years 1 month ago #1450 by cicedew
cg atom and all-atom mapping was created by cicedew
HI,
Where can I find the cg to all-atom mapping for each lipid in Martini force field? I can find the mapping for these lipids in the VMD CGTools Plugin:
DOPC
DOPE
DPPC
POPC
POPE
POPG
How about other lipids?

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11 years 1 month ago #1452 by djurre
Replied by djurre on topic cg atom and all-atom mapping
The most important headgroups (PC, PE, PG) are in the examples you mention (unless you are looking for glycolipids are the alike, these mappings are mostly in the paper). The glycerol mapping is always the same and the mapping of the tail uses a mapping as close to 4:1 as possible. You have some freedom there. From that you can construct any (regular) lipid you like.

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11 years 1 month ago #1455 by xavier
Replied by xavier on topic cg atom and all-atom mapping
Are those mapping specific to Martini to the Schulten's et al version of it?

cicedew wrote: HI,
Where can I find the cg to all-atom mapping for each lipid in Martini force field? I can find the mapping for these lipids in the VMD CGTools Plugin:
DOPC
DOPE
DPPC
POPC
POPE
POPG
How about other lipids?

Please Log in or Create an account to join the conversation.

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11 years 1 month ago #1464 by cicedew
Replied by cicedew on topic cg atom and all-atom mapping
Sorry, I don't get what you mean

>Are those mapping specific to Martini to the Schulten's et al >version of it?

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11 years 1 month ago #1467 by xavier
Replied by xavier on topic cg atom and all-atom mapping
You mention the VMD CGtools so I assume they come from the VMD developers ... people working with Klaus Schulten? They also have a MARTINI-like force field ...

cicedew wrote: Sorry, I don't get what you mean

>Are those mapping specific to Martini to the Schulten's et al >version of it?

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