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Protein Crystallography Forum Discuss research on protein crystallography and crystalization. Protein Crystallography Forum.


Novel domains

Novel domains - Protein Crystallography Forum

Novel domains - Discuss research on protein crystallography and crystalization. Protein Crystallography Forum.


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  #1  
Old 02-16-2010, 01:56 PM
Pipette Filler
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Default Novel domains



Hi I'm a junior researcher hoping to learn more on protein crystallography. I am working on a multidomain protein (single polypeptide) in which only one domain (say domain B) has related structures in the PDB. Is it possible to use molecular replacement using the available PDBs related to my domain B as a search model to find a successful solution to my whole multidomain protein within the Xtal? Is the subsequent manual building and refinement possible to solve the whole structure from this approach?

Thanks

Orange777
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Old 01-12-2011, 01:14 AM
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Default Re: Novel domains

This has been known to work, but it can be tricky as the domain you are using to model the structure has to be pretty close to the new structure and also must constitute a pretty large fraction of the scattering mass of the crystal (it must be 60%+ of the molecular weight of the protein in the crystal) to work.

if you have a protein crystal of the new protein, it is not much more work to solve the structure using more typical methods now. molecular replacement to get a novel protein domain is not the first choice here probably.
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Old 01-12-2011, 08:05 AM
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Default Re: Novel domains

Thanks for the advice, mptax. Have a great day!!
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