--
+++
Mark Mayer Ph.D.
LCMN NICHD NIH DHHS
Bldg 35, Room 3B 1002 MSC 3712
35 Lincoln Drive
Bethesda MD 20892 3712
Phone: 301-496-9346 (office); 301-496-9347 (lab); FAX 301-496-2396
Lab web site: http://snb.nichd.nih.gov/index.htm
Send packages, Fedex
of 37.4% at 3.9 A resolution, could you please tell
me how reliable this structure of Lambda repressor bound to DNA is?
Thanks
Misbha
--
+++
Mark Mayer Ph.D.
LCMN NICHD NIH DHHS
Bldg 35, Room 3B 1002 MSC 3712
35 Lincoln Drive
Bethesda
To find Cl its worth looking at anomalous maps, especially for home source
data, since even with partial occupancy Cl is easily located. Also, for well
ordered Cl ions, B-factor will often refine to lower value than coordinating
atoms when its incorrectly refined as water. Finally, in a subset
Xavier,
What Mac and graphics card works for stereo on the LG display?
Mut be a newish model to have HDMI output.
Thanks, Mark
I've recently noticed that the Helix and Sheet records in PDB entries
differ from those generated by DSSP and would like to ask if anyone
can explain how the PDB makes the assignments. Until now I'd always
assumed that the PDB and DSSP records were the same.
As an example I've listed a few
I got the following response from PDB
In PDB, Helix and sheet records are automatically generated by Promotif
software. Authors who wish to provide their own helix and sheet records
may do so; a remark will be added to REMARK 650 and REMARK 700 of the
PDB entry to indicate that the helix
I'd appreciate suggestions about how to reorganize my My DirectoriesProjectDir
listing.
Its currently got several years worth of work and is getting hard to work with.
I'd like to archive old projects (say by year) but keep all the CCP4i files for
each project intact, so that I can easily go
of publications, a
brief statement of experience and scientific interests, and contact
information for three references to may...@mail.nih.gov
Mark Mayer Ph.D.
LCMN NICHD NIH DHHS
Bldg 35, Room 3B 1002 MSC 3712
35 Lincoln Drive
Bethesda MD 20892 3712
--
I have read the paper by Gill in Acta Crys F66: 364-372 and wonder
what other peoples experience has been with the MUVIS from
Formulatrix and the JANsci microscope for imaging 96 well plates.
The JANsci instrument seems to have an advantage over the MUVIS in
having two objectives. For
Ethan wrote
I believe that deposition of Fc Phic FOM should be required.
Certainly it should be the recommended practice.
For the same series of structures I just deposited, which started the
the riding H discussion, my mtz file had Fc Phic FOM + other data put
out by Phenix - pavel can
Huh? That's not a cif fragment. What file are you looking at?
In my experience the PDB feeds back to you a cif format structure factor
file with a name like rcsb054058-sf.cif
Near the top of that file you should find a description of the data
columns. The columns present depend on what you fed
However this thread appears to have reached the point where not much new
ground is being broken.
As the person who started this thread I'll second Phil Jeffrey's comment.
I chose to continue my depositions with riding H, and the rcsb agreed
to accept the coordinates. Its been great hearing
Here's one for the community, which I'll post to both Phenix and CCP4 BBs.
Where does the crystallographic community stand
on deposition of coordinates with riding
hydrogens?
Explicit H are required for calculating all atom
clash scores with Molprobity, and their use
frequently gives better
1) A couple of people like the Zalman BUT when I contacted the vendor
recommended on the WIKI here's the response (edited). Note that the price has
gone up, and its currently not available; my guess this is a US wide lack of
availability?
We are totally sold out of these and Zalman is not
I searched the BB and this has been discussed on and off over past year.
If any one has setup a Mac for stereo with COOT using LCD with currently
available hardware please post details.
Thanks :)
Try USF STAN server and run WASP.
http://alpha2.bmc.uu.se/usf/
It picks up waters which could be potential cations based on geometry; it works
well in our
hands, but misses those ions for which ligands come are generated by
crystallographic
symmetry; if this is important, then expand your AU
You can also pick thin shells with SFCHECK
and with 12-fold NCS the referees will likely not be kind if you dont!!!
--
Mark
We are refining a 2.7 A structure with multiple ASN-NAG links. The torsion
angle between
the Asn amide and the sugar is quite variable, while from the chemistry of this
link we
would expect a value close to 180°, as reported in the PDB survey by Imberty
Perez
(Protein Engineering
One thing to watch out for: in addition to frustrating crystallographers those
sugars play
other roles in protein chemistry, and its not uncommon for the solubility of
proteins to
change dramatically after deglycosylation.
Good luck!
MLM
to Superdex
and Superose columns. Please describe specific columns if you can.
Thanks
--
Mark Mayer
A postdoctoral position is available to study the structure and function of
neurotransmitter receptors.
Recent papers describing work from the lab include: Nat Struct Mol Biol. 2006
13:1120-7; Nature.
2006 440 :456-462; Neuron 2007 53:829-841.We are looking for a highly
motivated person who
Hello,
Is there a consensus about which program / data base most accurately reports
Ramachandran
statistics? I believe that PROCHECK inaccurately flags outliers because the
data base was compiled
many years ago, and there are now many more high resolution structures.
Likewise I think I've
For cases where people have had merohedral twinning, did the twin fraction vary
substantially
between individual crystals grown under indentical conditions? I have no prior
experience with
merohedral twinning, and was surprised to see that the twin fraction varied
substantially as detailed
Hi,
I'd greatly appreciate advice on how to proceed with trying to solve and refine
a structure with
nearly perfect merohedral twinning - or is this impossible? The SG is H3; most
likely nmol is asu
is 4 from Matthews coefficient - but not sure about this.
Here are the twinning stats from
24 matches
Mail list logo