Difference between revisions of "Fuse"

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===DESCRIPTION===
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'''fuse''' joins two objects into one by forming a bond.  A copy of
"fuse" joins two objects into one by forming a bond.  A copy of
 
 
the object containing the first atom is moved so as to form an
 
the object containing the first atom is moved so as to form an
approximately resonable bond with the second, and is then merged
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approximately reasonable bond with the second, and is then merged
 
with the first object.
 
with the first object.
 
   
 
   
===USAGE===
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== Usage ==
fuse (selection1), (selection2)
 
  
===PYMOL API===
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fuse [ selection1 [, selection2 [, mode [, recolor [, move ]]]]]
<source lang="python">
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cmd.fuse( string selection1="(pk1)", string selection2="(pk2)" )
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== Arguments ==
</source>
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 +
* selection1 = str: single atom selection (will be copied to object 2) {default: (pk1)}
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* selection2 = str: single atom selection {default: (pk2)}
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* mode = int: {default: 0}
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** mode=0:
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** mode=1: adopt segi/chain/resn`resi
 +
** mode=2: adopt segi/chain
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** mode=3: don't move and don't create a bond, just combine into single object
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* recolor = bool: recolor C atoms to match target {default: 1}
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* move = bool: {default: 1}
 +
 
 +
== Example ==
 +
 
 +
Phosphorylate a serine residue:
 +
 
 +
fetch 1ubq, async=0
 +
 +
fragment phosphite
 +
remove phosphite & elem H
 
   
 
   
===NOTES===
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fuse phosphite & elem P, /1ubq///65/OG, mode=1
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delete phosphite
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 +
show sticks, resi 65
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orient resi 65
 +
unpick
 +
 
 +
== Notes ==
 +
 
 
Each selection must include a single atom in each object.
 
Each selection must include a single atom in each object.
 
The atoms can both be hydrogens, in which case they are
 
The atoms can both be hydrogens, in which case they are
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case a bond is formed between the two atoms.
 
case a bond is formed between the two atoms.
  
===SEE ALSO===
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== See Also ==
[[Cmd bond]], [[Cmd unbond]], [[Cmd attach]], [[Cmd replace]], [Cmd fuse]], [[Cmd remove_picked]]  
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 +
[[Bond]], [[Unbond]], [[Attach]], [[Replace]], [[Remove_picked]]  
 
   
 
   
  
[[Category:Commands|fuse]]
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[[Category:Commands|Fuse]]
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[[Category:Editing Module|Fuse]]

Latest revision as of 19:22, 21 February 2016

fuse joins two objects into one by forming a bond. A copy of the object containing the first atom is moved so as to form an approximately reasonable bond with the second, and is then merged with the first object.

Usage

fuse [ selection1 [, selection2 [, mode [, recolor [, move ]]]]]

Arguments

  • selection1 = str: single atom selection (will be copied to object 2) {default: (pk1)}
  • selection2 = str: single atom selection {default: (pk2)}
  • mode = int: {default: 0}
    • mode=0:
    • mode=1: adopt segi/chain/resn`resi
    • mode=2: adopt segi/chain
    • mode=3: don't move and don't create a bond, just combine into single object
  • recolor = bool: recolor C atoms to match target {default: 1}
  • move = bool: {default: 1}

Example

Phosphorylate a serine residue:

fetch 1ubq, async=0

fragment phosphite
remove phosphite & elem H

fuse phosphite & elem P, /1ubq///65/OG, mode=1
delete phosphite

show sticks, resi 65
orient resi 65
unpick

Notes

Each selection must include a single atom in each object. The atoms can both be hydrogens, in which case they are eliminated, or they can both be non-hydrogens, in which case a bond is formed between the two atoms.

See Also

Bond, Unbond, Attach, Replace, Remove_picked