Difference between revisions of "Fuse"
Jump to navigation
Jump to search
(arguments, example) |
|||
| (9 intermediate revisions by 5 users not shown) | |||
| Line 1: | Line 1: | ||
| − | + | '''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]] | |
| − | [[Category:Commands| | + | [[Category:Commands|Fuse]] |
| + | [[Category:Editing Module|Fuse]] | ||
Latest revision as of 20:22, 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.