[ccp4bb] Solving structure of protein-protein complexes using MR

2007-07-06 Thread Joe Smith
Hi all, We have been trying to solve a structure of protein-protein complexes using 3.1A data (one of the proteins is of 120kDa whereas the other is of 20kDa). The structure of smaller protein is known (individually-100% sequence identity) whereas the bigger protein does not share more than 10% s

[ccp4bb] Nearly perfect twinned data????

2007-09-26 Thread Joe Smith
Hi all, We have collected few X-ray data sets for a protein-RNA complex to resolutions of 3.2-3.5A. While processing the data using HKL2000, we have obtained following distortion index consistently: primitive cubic 19.16% 127.98 74.67 130.85 74.57 85.00 73.91

[ccp4bb] problems with map quality, refinement and R/Rfree

2007-10-19 Thread Joe Smith
Hi all, We have data sets for a protein-RNA complex at 3.2 A resolution. . The data belong to the space group I4122 and contains one molecule of Protein-RNA complex (300AA and 16nt; 66% solvent content) in the asym unit. We have managed to get phases using Se-SAD and the present model contains 60%

[ccp4bb] Problem with crystallization of Se-Met labeled protein

2008-05-27 Thread Joe Smith
Dear all, Sorry for an off-topic query. I have been unable to crystallize a Se-met containing protein (8 Met in 206 amino acids) in the native crystallization condition ( 0.1 M Tris pH 8.5, 1.2 M K-Na-tartrate; Theoretical pI of protein is 8.4). As expected, solubility of Se-Met containing protein

[ccp4bb] Poor electron density - polyAla or PolyGly?

2008-10-15 Thread Joe Smith
Hello, I have been building a protein model (resolution 2.2A) which has one small loop of 6 residues having poor density. I cannot see any side chain in this region but I can see relatively poor main-chain density which at least clearly indicate the loop conformation. I am trying my best to build p