Re: [ccp4bb] Correcting 3-letter codes based on protonation states in a PDB file

2017-06-29 Thread Jared Sampson
org/> >> http:// [1]nbcr [1]-222.ucsd.edu/pdb2pqr_2.0.0/ >> <http://222.ucsd.edu/pdb2pqr_2.0.0/> [1] >> HTH, >> Dave >> -- >> Dr David C Briggs >> Hohenester Lab >> Department of Life Sciences >> Imperial College London >> UK

Re: [ccp4bb] Correcting 3-letter codes based on protonation states in a PDB file

2017-06-29 Thread Tristan Croll
n, Jared SENT: Wednesday, June 28, 2017 11:34:05 PM TO: CCP4BB@JISCMAIL.AC.UK SUBJECT: [ccp4bb] Correcting 3-letter codes based on protonation states in a PDB file Dear all - I'm working with a PDB file with explicit hydrogens where many of the histidines are in protonated form due to cry

Re: [ccp4bb] Correcting 3-letter codes based on protonation states in a PDB file

2017-06-28 Thread Briggs, David C
Lab Department of Life Sciences Imperial College London UK http://about.me/david_briggs From: CCP4 bulletin board on behalf of Sampson, Jared Sent: Wednesday, June 28, 2017 11:34:05 PM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Correcting 3-letter codes based on

[ccp4bb] Correcting 3-letter codes based on protonation states in a PDB file

2017-06-28 Thread Sampson, Jared
Dear all - I'm working with a PDB file with explicit hydrogens where many of the histidines are in protonated form due to crystallization at low pH. Unfortunately, although the additional protons are present in the model for the positively charged histidines, the residues in question are indi