Good day all,
In COOT, when I view my coordinate pdb file with my
ccp4 map file (using Auto-open mtz), I have a couple
residues for which only a part of the peptide chain is
visible. E.g. for a Lys, only the terminal nitrogens
at the end of the R-group chain are visible as bonds.
The other
James,
The stars are atoms in a residue that are no longer within
recognizable bonding distances of other atoms. Somewhere along the way
these residues were mangled to the point that some atoms are no longer
within bonding distance of each other. (In Refmac, for example, this can
happen if the
Dear all,
A new version of an automatic molecular pipeline system - BALBES is
now available.
It can be downloaded from: www.ysbl.york.ac.uk/~fei/balbes
The new options in this system are:
1) Use of user defined external PDB library
2) Use of a single PDB file as an input model for Molecular
I¹d like help in interpreting some mystery density in a structure.
I¹m writing a paper about soaking the apo-estrogen receptor with different
ligands. The apo structure is already released, as pdb code 2B23. The
question is whether there is a mystery molecule in the pocket of the apo
receptor. If
Dear Kendall,
I would suggest you to run a simulated annealing omit map around the
region you are interested.
The model bias will be reduced and you will get a more clear answer.
Ciao,
Joao
Joao M. Dias
Ollmann Saphire Lab
The Scripps Research Institute
10550 North Torrey Pines Rd. IMM-2
La
