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Dear Bernhard:
just came across the same problem yesterday. There is a message way
back in ccp4bb, but the problem still seems to exist:
http://www.ysbl.york.ac.uk/ccp4bb/2003/msg00678.html
After moving TRANS to the right position I got peptide bonds of a
more reasonable distance...the word "gap" is slightly misplaced!
Best,
ulrich
http://www.ysbl.york.ac.uk/ccp4bb/2003/msg00678.html
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Dear Refmacers,
I run refmac 5.2.0019 on a structure with sequence gaps.
Refmac finds those and enters the proper gap links
LINK ASN A 34 SER A 37 gap
LINK LEU A 67 GLY A 69 gap
LINK THR A 125 SER A 127 gap
LINK SER A 130 ALA A 132 gap
LINK GLY A 189 LYS A 192 gap
LINK LYS A 208 LEU A 213 gap
LINK SER A 221 GLY A 223 gap
LINK ALA A 225 GLN A 227 gap
but does not seem to use them, the link distances are all over the place.
The log also says the links were created, without the '(not to be used)'
statement it
usually gives when it does detect links but does not use them.
If I renumber the residues consecutively, it restrains the links
properly and all is fine.
????
Thx, br
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Bernhard Rupp
www.ruppweb.org
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