Dear Li,
There is a value of weighting term with default 0.3 in refmac5,
what is
the exact meaning of it?
You might want to have a look at:
http://www.ccp4.ac.uk/html/refmac5/keywords/xray-principal.html#weig
What is the best value of it for different resolution
data?
I don't know exactly, but I like to use the minimum (0.01) for "bad"
data (that is high Rmerge, high mosaicity, low resolution), and
slightly higher for "good" data. Anyway, personally, I'm doing
several runs with different values of weighting, and check how it
affects the geometry (respective rmsd values).
Does it affect the result R value much?
Well yes, if you do distort like hell your protein side chains &
atoms, you will have everything that will fit into the electron
density, resulting in decreasing largely your stats, but you'll have
little biological significance (as an example: using a somehow too
high value of weighting, a lys was disrupted in 3 parts, to fit the
blobs of density...).
Good luck.
Leo
==========================
Chavas Leonard M.G., Ph.D.
Structural Research Center
KEK,PF. 1-1 Oho
Tuskuba, Ibaraki - Japan
---------------------------------------------
PHS: +81(0)29-864-5200 (ext: 2682)
e-mail: [EMAIL PROTECTED]
URL: http://pfweis.kek.jp/~leo
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