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Steven Muchmore wrote:
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All;
What's the hands down, fastest gun in the west,
A-numero uno, Speedy Gonzalez, speediest molecular
replacement code in existence?
I know that's a strange question, since most molrep
codes aren't optimized as much for speed but for
getting the correct answer.
But what if you have a real easy MR problem, but you'd
like to do it a whole bunch of times? What's the
fastest single-threaded canned app out there?
Hi Steven,
Hmmm, if it was real easy you wouldn't have to do it a bunch of times.
- If you are trying to scan a subset of the PDB as potential search
models then just do a quick pairwise sequence comparison (BLAST) first
and use the closest homolog(s).
- If there are no close homologs then there is not going to be an easy
MR problem.
- If you have two domains/subunits with unknown relative
position/orientation and you want to do a brute search of possible
packing interactions then try phaser which can search for multiple
fragments.
- If you have some other reason to do what you are asking to do then why
not share your problem with us so we can give more direct answers.
Bart
What stripped-down code would you use? Should I just
break down and steal^H^H^H^H^H write something myself?
Heavens forbid!
Just wondering...
Steve
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