Re: [ccp4bb] how to model glycosylated residues?

2008-01-09 Thread Craig McElroy
bo_j_resid_1=131; {+ choice: true false +} {===>} carbo_use_2=true; {===>} carbo_patch_2="B14"; {===>} carbo_i_segid_2="B"; carbo_i_resid_2=902; {===>} carbo_j_segid_2="B"; carbo_j_resid_2=901; Craig McElroy, Ph.D. Department of Molecular and Cellular Bioc

Re: [ccp4bb] refmac5 refinement with PEG400

2007-08-08 Thread Craig McElroy
Indeed, the library file was not being read due to the long names. Thanks all who responded. Craig Craig McElroy, Ph.D. Department of Molecular and Cellular Biochemistry Ohio State University 483 Hamilton Hall 1645 Neil Ave. Columbus, OH 43210 (614) 688-8630 Kumar, Abhinav wrote: Could the

Re: [ccp4bb] refmac5 refinement with PEG400

2007-08-08 Thread Craig McElroy
Just a quick clarification... I'm already using "make check none" in the script file, and the PEG400 pdb from which I made the library file is from the HICCUP server and was called 1PE. Thanks Craig Craig McElroy, Ph.D. Department of Molecular and Cellular Biochemistry Ohio S

[ccp4bb] refmac5 refinement with PEG400

2007-08-08 Thread Craig McElroy
, but could someone please tell me what it is. I have attached the refmac log file and the library file. Thanks Craig -- Craig McElroy, Ph.D. Department of Molecular and Cellular Biochemistry Ohio State University 483 Hamilton Hall 1645 Neil Ave. Columbus, OH 43210 (614) 688-8630 global_ _lib_name

Re: [ccp4bb] ARP/wARP 7.0 error

2007-07-24 Thread Craig McElroy
Thank you for the help. It seems as if the new Refmac5 has done the trick. Thanks Craig Craig McElroy, Ph.D. Department of Molecular and Cellular Biochemistry Ohio State University 483 Hamilton Hall 1645 Neil Ave. Columbus, OH 43210 (614) 688-8630 Anastassis Perrakis wrote: Hi there - That

[ccp4bb] ARP/wARP 7.0 error

2007-07-23 Thread Craig McElroy
installed properly, but it seems the program is trying to reference scripts that do not exist (i.e. there is no /Users/gerrit on my system and therefore no python scripts in /Users/gerrit/CProg/ARP_svn/pyWARP/). Any help that you could provide would be appreciated. Thanks in advance. Craig --

[ccp4bb] bond length constraints in refmac

2007-06-14 Thread Craig McElroy
seems to me like bond lengths should be a constraint not a restraint. Is there a way to constrain the bond lengths? Thanks Craig -- Craig McElroy Department of Molecular and Cellular Biochemistry Ohio State University 483 Hamilton Hall 1645 Neil Ave. Columbus, OH 43210 (614) 688-8630

[ccp4bb] b-factors from refmac tls refinement vs cns mlf refinement

2007-06-13 Thread CRAIG MCELROY
Hi all, I'm working on the structure of a heterodimer phased by molecular replacement using data to 2.9 angstroms. After MR I performed a rigid body refinement in CNS, if I then refine using mlf in CNS I get B-factors ranging from ~37-119 and r= 0.26 free_r= 0.35 whereas if I perform a TLS rest