[ccp4bb] superposing multiple structural segments between two PDBs
Dear All, Is there a way to superpose multiple, discontinuous stretches of residues between two protein chains ? Dali output shows that there are discontinuous stretches between the PDBs that are being aligned. But I can not find any option to download the superposed PDB. The output generated from PDBefold (which gives link to the transformed PDB) is different. regards, sreetama
Re: [ccp4bb] superposing multiple structural segments between two PDBs
Dear Sreetama, For this, Gesamt from ccp4 should do the work. Run gesamt without parameters to get instructions, they are basically the same as for ccp4's superpose. HTH, Eugene On 19 Mar 2014, at 07:34, sreetama das wrote: Dear All, Is there a way to superpose multiple, discontinuous stretches of residues between two protein chains ? Dali output shows that there are discontinuous stretches between the PDBs that are being aligned. But I can not find any option to download the superposed PDB. The output generated from PDBefold (which gives link to the transformed PDB) is different. regards, sreetama -- Scanned by iCritical.
Re: [ccp4bb] superposing multiple structural segments between two PDBs
You can have a look at the pair_fit function in PyMOL (see http://www.pymolwiki.org/index.php/Pair_fit) Cheers Jose On 19/03/14 08:34, sreetama das wrote: Dear All, Is there a way to superpose multiple, discontinuous stretches of residues between two protein chains ? Dali output shows that there are discontinuous stretches between the PDBs that are being aligned. But I can not find any option to download the superposed PDB. The output generated from PDBefold (which gives link to the transformed PDB) is different. regards, sreetama
