Re: [ccp4bb] Off-topic: Supplying PDB file to reviewers

[Boaz Shaanan]

Hi, Just to add on Joel's remarks: I had a case where I reviewed a paper for which the coordinates and SF's have already been released. By looking at the e.d. map (from the EDS server) I could spot a mistake in the tracing of one important spot (which happened to be near the active site - no I didn't go through the whole map!)- a peptide had to be flipped. I pointed this out to the authors and it was corrected (I assume, I never went back to check). The more common situation of course is that of data not being released until after publication. I suspect that after the discussions we've been through recently, unwillingness to provide data to Editor/Reviewer may well raise questions.     Boaz     Boaz Shaanan, Ph.D.                                         Dept. of Life Sciences                                      Ben-Gurion University of the Negev                          Beer-Sheva 84105                                            Israel                                                                                                                  E-mail: bshaa...@bgu.ac.il Phone: 972-8-647-2220  Skype: boaz.shaanan                  Fax:   972-8-647-2992 or 972-8-646-1710                          From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Joel Tyndall [joel.tynd...@otago.ac.nz] Sent: Thursday, April 19, 2012 7:56 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] Off-topic: Supplying PDB file to reviewers Marc,   As someone with limited experience in publishing structures but with other experience reviewing the same I feel strongly about this. I am hoping to submit any future papers with the pdb structure already released or submit the coordinates as supplementary material. As a reviewer I find it difficult to “visualise” a structure based on a static 2D figure.   I would like to see coordinates/structure factors supplied for review or released on the pdb. I believe that if released on the pdb then this should give you enough security that it is still your structure.   Just my thoughts   Joel   From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Marc Kvansakul Sent: Thursday, 19 April 2012 10:34 a.m. To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Off-topic: Supplying PDB file to reviewers   Dear CCP4BBlers,    I was wondering how common it is that reviewers request to have a copy of the PDB coordinate file for the review purpose. I have just been asked to supply this by an editor after several weeks of review, after one of the reviewers requested a copy.    Not having ever been asked to do this before I feel just a tad uncomfortable about handing this over…   Your opinions would be greatly appreciated.    Best wishes   Marc   Dr. Marc Kvansakul Laboratory Head, NHMRC CDA Fellow Dept. of Biochemistry| La Trobe University | Bundoora Rm 218, Phys Sci Bld 4, Kingsbury Drive, Melbourne, 3086, Australia T: 03 9479 2263 | F: 03 9479 2467 | E: m.kvansa...@latrobe.edu.au |