scripting_documentation/RosettaScripts/xsd/mover_BridgeChains

Autogenerated Tag Syntax Documentation:

Given a pose with a jump, this mover uses a fragment insertion monte carlo to connect the specified termini. The new fragment will connect the C-terminal residue of jump1 to the N-terminal residue of jump2, and will have secondary structure and ramachandran space given by "motif." This mover uses the VarLengthBuild code. The input pose must have at least two chains (jumps) to connect, or it will fail.

<BridgeChains name="(&string;)" chain1="(&non_negative_integer;)"
        chain2="(&non_negative_integer;)" segment1="(&string;)"
        segment2="(&string;)" motif="(&string;)" cutpoint="(&string;)"
        ideal_abego="(false &bool;)" extend_ss="(true &string;)"
        overlap="(&non_negative_integer;)" dry_run="(&non_negative_integer;)"
        trials="(&non_negative_integer;)" scorefxn="(&string;)" />

chain1: Indicates the chain which is to be located at the N-terminal end of the new fragment. Building will begin at the C-terminal residue of the jump.
chain2: Indicates the chain which is to be located at the C-terminal end of the new fragment.
segment1: XSD XRW: TO DO
segment2: XSD XRW: TO DO
motif: The secondary structure + abego to be used for the backbone region to be rebuilt. Taken from input pose if not specified. The format of this string is: "[Length][SS][ABEGO]-[Length2][SS2][ABEGO2]-...-[LengthN][SSN][ABEGON]" For example, "1LX-5HA-1LB-1LA-1LB-6EB" will build a one residue loop of any abego, followed by a 5-residue helix, followed by a 3-residue loop of ABEGO BAB, followed by a 6-residue strand.
cutpoint: XSD XRW: TO DO
ideal_abego: XSD XRW: TO DO
extend_ss: Gives the SS types that can be extended during the connection. Extensions are part of the loop and are expected to have secondary structure of 'L'. An empty string or '0' means not to extend any secondary structures and use only the ideal loop ABEGOS, e.g. EA, GG for Strand--Strand connections. With extend_ss='E', ABEGO values of EA, EAB, BEA, BEAB, BGG, GGB, and BGGB are allowed. extend_ss='1' means that all SS types can be extended.
overlap: Build overlap of nested FoldArchitectMover
dry_run: Sets folder of FoldArchitectMover to RandomTorsionPoseFolder instead of RemodelLoopMoverPoseFolde
trials: iterations per phase of nested FoldArchitectMover
scorefxn: Name of score function to use

scripting_documentation/RosettaScripts/xsd/mover_BridgeChains_type