Hi all,
I am refining a protein-DNA complex. But when I adjust the position of DNA
by "edit chi angels", the phosphate does not move. Only the sugar and base
move
Here is partial DNA pdb. Is there any format problem of my pdb or I miss
some library?
ATOM 10825 PAd D 11 17.140 11.607 4
On 27/01/13 12:18, LISA wrote:
Hi all,
I am refining a protein-DNA complex. But when I adjust the position of
DNA by "edit chi angels", the phosphate does not move. Only the sugar
and base move
Here is partial DNA pdb. Is there any format problem of my pdb or I
miss some library?
Hello Lisa,
Hi Lisa,
I'm not sure it's the source of your problem, but your atom names are still in
PDBv2 format. That's 'so last decade'. Start by fixing that. There must be a
CCP4 tool that will do that. You can also use the MolProbity server to fix the
format.
For the developers: the problem with atom a
Yes, a good pdb converter jiffy that picks up and corrects/highlights
differences and errors in the atom name from the residue name would be great
to have. I’m using pdbvconv from Global Phasing which is pretty good. It gets a
little confused when the atoms names are a mixture of pdbv2 and v3.
There is a new tool for that in CCP4, pdb2to3. It will try to convert
everything what is convertible, even when it is not "PDB2" or residue names do
not match, by applying graph matching and some heuristics.
Eugene
On 27 Jan 2013, at 13:27, Robbie Joosten wrote:
Hi Lisa,
I'm not sure it's the
Sabine,
I am using LG D2342P and it works fine with coot and pymol.
Peng
---
Peng Gong
Wuhan Institute of Virology, CAS
---
From: Sabine Schneider
To: CCP4BB@JISCMAIL.AC.UK
Sent: Friday,
I use the Zalman 21" monitor and it works great. Glasses from 3D movies work,
so when students go to the movies I ask them to save a pair of glasses for me.
It's easy and cheap - software controlled so works on all crystallographic
packages that I've tried thus far.
Frankly, since going to an
Hello Sabine,
the Asus VG287H (not the HE model)! Why?
- nvidia certified, so all nvidia drivers will recognize the screen
correctly (we have it working under SuSe linux and windows 7)
- build-in IR emitter (so works with the cheaper quadro cards), we run
it with quadro 600, k1000m and 2000 mo
