If you will replace link line with the following LINKR C1 NAG A1003 ND2 ASN A 611 NAG-ASN
Then it should be read by refmac and by coot. And restraints should be applied properly regards Garib On 2 Dec 2010, at 06:49, Dr. STEPHEN SIN-YIN, CHUI wrote: > Dear All, > > Please see the maps for the ASN residues of the protein, As suggested by > colleague, they are NAG which are connected to the N atom of ASN413 & ASN611. > I put the NAG molecule to those density and try to use the following command > line in PDB, > > LINKR C1 NAG A1003 ND2 ASN A 611 1555 1555 1.45 > > > but after restrained refinement using REFMAC5 (quite latest version), the bond > distance between N of ASN and C1 of NAG seems to be off (1.28 A) from the > value > I set for this restraint. > > My question is related to the true command of bond restraint for this > situation? > Also if I want to show a "link or line" between N atom of the ASN and C1 atom > of > NAG in COOT, any idea how to do this? > > many thanks in advance > > stephen > > -- > Dr. Stephen Sin-Yin Chui > Research Assistant Professor, > Department of Chemistry, > The University of Hong Kong, Pokfulam Road, > Hong Kong SAR, China. > Tel: 22415814 (Office), 22415818 (X-ray Diffraction Laboratory) > <611-ASN-view1><413-ASN-view2>
