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Hi Debasish, Randy's update sounds fantastic! Absolutely fantastic because I suspect many of us have gone through exactly what you described here, despite running many other kinds of validations! In the meantime, the PDB gave me two options as a workaround. One was to either email them the updated coordinates that they would then match with your PDB ID or to simply restart a new session and upload the updated coordinates (the old session gets deleted at the server at some point). Just that you will have the joy of filling out the submission/validation form one more time with option 2. Cheers, Raji On Thu, Oct 31, 2013 at 12:06 PM, Debasish Chattopadhyay <[log in to unmask]>wrote: > Thanks Randy. **** > > That would be fantastic.**** > > ** ** > > *From:* Randy Read [mailto:[log in to unmask]] > *Sent:* Thursday, October 31, 2013 11:02 AM > > *To:* Debasish Chattopadhyay > *Cc:* [log in to unmask] > *Subject:* Re: [ccp4bb] PDB structure validation**** > > ** ** > > Yes, the intention at the PDB sites is to make available a standalone > validation server that will run exactly the same validation tests that have > been introduced for recent depositions. My understanding is that this > server is currently being tested and will be rolled out to the community > sometime in the new year once they're confident that it is stable. **** > > ** ** > > The motivation is exactly as you say: to save time for both the depositors > and the annotators, and to improve the quality of the deposited structures! > **** > > ** ** > > Best wishes,**** > > ** ** > > Randy Read**** > > ** ** > > On 31 Oct 2013, at 15:25, Debasish Chattopadhyay <[log in to unmask]> wrote: > **** > > > > **** > > I was wondering if there is a way to generate a PDB validation report > before depositing the coordinates so that one can go back and make > necessary corrections to the file before deposition. It will save a lot > time and perhaps would improve the quality of deposited structures.**** > > **** > > Debasish Chattopadhyay**** > > **** > > University of Alabama at Birmingham**** > > CBSE-250**** > > 1025 18th Street South, Birmingham, Al-35294**** > > USA**** > > Ph: (205)934-0124; Fax: (205)934-0480**** > > **** > > ** ** > > ------**** > > Randy J. Read**** > > Department of Haematology, University of Cambridge**** > > Cambridge Institute for Medical Research Tel: + 44 1223 336500**** > > Wellcome Trust/MRC Building Fax: + 44 1223 336827**** > > Hills Road E-mail: [log in to unmask]**** > > Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk > **** > > ** ** > -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University