thanks, Alastair Fyfe
On the subject of not (willfully) contaminating the pdb database, any
suggestions on the following are appreciated. I am refining the solvent
structure of some RNAs. Inspection of difference and anomalous
difference maps suggests that some closely-spaced positions are
alternately taken by distinct entities with partial occupancy. One
pattern suggests partial occupancy by a Ca++ ion with a nearby site
partially occupied by water (confirmed by an anomalous peak only for the
former). I am refining this with shelxl and expressing this in the ins
file is straightforward (and I'd like to express much gratitude for the
multi-core version of shelxl!). However it's not clear to me how to say
this in PDBese : choosing the HETATM residue name as either HOH or CA
and assigning alternate positions with HOH and CA in the atom name field
seems to make trouble for pdb reader software, eg mmdb.
- Re: [ccp4bb] PDB passes 100,000 structure milestone Tim Gruene
- Re: [ccp4bb] PDB passes 100,000 structure mile... Tanner, John J.
- Re: [ccp4bb] PDB passes 100,000 structure mile... Mark Wilson
- Re: [ccp4bb] PDB passes 100,000 structure mile... Debasish Chattopadhyay
- Re: [ccp4bb] PDB passes 100,000 structure mile... Nat Echols
- Re: [ccp4bb] PDB passes 100,000 structure mile... Mark Wilson
- Re: [ccp4bb] PDB passes 100,000 structure mile... Nat Echols
- Re: [ccp4bb] PDB passes 100,000 structure mile... James Holton
- Re: [ccp4bb] PDB passes 100,000 structure mile... Dale Tronrud
- Re: [ccp4bb] PDB passes 100,000 structure mile... Bärbel Blaum
- [ccp4bb] correct pdb encoding for split-person... Alastair Fyfe
- Re: [ccp4bb] correct pdb encoding for split-pe... Tim Gruene
- Re: [ccp4bb] correct pdb encoding for split-pe... Alastair Fyfe
- Re: [ccp4bb] correct pdb encoding for split-pe... George Sheldrick
- Re: [ccp4bb] PDB passes 100,000 structure milestone Zachary Wood
- Re: [ccp4bb] PDB passes 100,000 structure mile... Gloria Borgstahl
- Re: [ccp4bb] PDB passes 100,000 structure mile... Phil Jeffrey
- Re: [ccp4bb] PDB passes 100,000 structure mile... Ethan A Merritt
- Re: [ccp4bb] PDB passes 100,000 structure mile... MARTYN SYMMONS
- Re: [ccp4bb] PDB passes 100,000 structure mile... Zachary Wood
- Re: [ccp4bb] PDB passes 100,000 structure mile... Tim Gruene