Dear all,
Perhaps the issue is that the refinement program should be able to handle the
priority of ligand dictionary, i.e. your custom ligand ID and dictionary
overrides any existing in the default collection. I have not had any trouble
with LIG or SX1, both existing in PDB ligands. I also
Sorry about the mangled link. Here is the correct link:
https://lilly.wd5.myworkdayjobs.com/LLY/job/US-Indianapolis-IN/Advisor---Structural-Biologist_R-30998
From: CCP4 bulletin board On Behalf Of Yong Wang
Sent: Friday, April 29, 2022 1:01 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [EXTERNAL
with Eli Lilly and Company and its subsidiaries in
the United States and Puerto Rico, you must be fully COVID-19 vaccinated and
provide proof of vaccination satisfactory to the company (subject to applicable
law).
Regards,
Yong Wang, Ph.D.
Executive Director
Global Structural Biology
Lilly Researc
United States and Puerto Rico, you must be fully COVID-19 vaccinated and
provide proof of vaccination satisfactory to the company (subject to applicable
law).
Regards,
Yong Wang, Ph.D.
Executive Director
Global Structural Biology
Lilly Research Laboratories
Lilly Corporate Center
Indianapolis,
Hi Randy,
Thanks for the trouble shoot and update to the documentation. Now the keyword
"MODEL SERIAL" is doing what it intends to do. My problem is fixed.
Regards,
Yong
-Original Message-
From: Randy John Read
Sent: Friday, December 10, 2021 6:22 AM
To: Yong Wang
e to use ensembler to generate the ensemble!
Best wishes,
Randy Read
> On 9 Dec 2021, at 21:00, Yong Wang
> <3c4fc05cc53b-dmarc-requ...@jiscmail.ac.uk> wrote:
>
> Hi,
>
>
>
> The first model number in the pdb file is 1. In the script it is “MODEL 1
Hi,
The first model number in the pdb file is 1. In the script it is "MODEL 1". I
will try "MODEL 0" in the script to see how it goes.
Thanks,
Yong
From: Boaz Shaanan
Sent: Wednesday, December 8, 2021 7:37 AM
To: Yong Wang
Cc: CCP4BB@JISCMAIL.AC.UK
Subject: [E
AX ERROR: Use SERIAL
--
$$
I am assuming that the error is from using the "MODEL 1" and not due to
something else. Does anyone have any suggestion on this problem?
Thanks,
Yong
Yong Wang, Ph.D.
Senior Research Advisor
Global Structural Biology
Lilly Research Labor
Hi Eric,
Yes. Hardware stereo on Windows 10 is sorely needed considering Windows 10 has
been out for nearly 5 years and Windows 7 has been dropped from support.
Regards,
Yong
From: ENNIFAR Eric (ARN)
Sent: Tuesday, March 24, 2020 4:46 AM
To: EchelonIV . ; Yong Wang
Cc: CCP4BB
Subject
.
Thanks,
Yong
From: EchelonIV .
Sent: Monday, March 23, 2020 2:53 PM
To: Yong Wang
Cc: CCP4BB@jiscmail.ac.uk
Subject: [EXTERNAL] Re: [ccp4bb] Wincoot stereo display on Windows 10
EXTERNAL EMAIL: Use caution before replying, clicking links, and opening
attachments.
I tried all settings through
Hi Arne,
Are you using Wincoot “hardware stereo” option on your laptop? Are you viewing
the stereo directly on your laptop display or through a 3D external monitor?
Thanks,
Yong
From: EchelonIV .
Sent: Monday, March 23, 2020 2:12 PM
To: Yong Wang
Cc: CCP4BB@jiscmail.ac.uk
Subject
, 2020 11:46 AM
To: Yong Wang
Cc: CCP4BB@jiscmail.ac.uk
Subject: [EXTERNAL] Re: [ccp4bb] Wincoot stereo display on Windows 10
EXTERNAL EMAIL: Use caution before replying, clicking links, and opening
attachments.
Hello,
stereo display works completely fine for me on Windows 10 (WinCoot version
: Monday, March 23, 2020 11:50 AM
To: Yong Wang
Cc: CCP4BB@JISCMAIL.AC.UK
Subject: [EXTERNAL] Re: [ccp4bb] Wincoot stereo display on Windows 10
EXTERNAL EMAIL: Use caution before replying, clicking links, and opening
attachments.
Dear Yong,
I tried hard but I couldn't find any way to make
Arne,
Thanks! Now the challenge is to find version 0.8.6.1. It seems newer version
does not work. Please let me know if you know a way to get hold of version
0.8.6.1.
Yong
From: EchelonIV .
Sent: Monday, March 23, 2020 11:46 AM
To: Yong Wang
Cc: CCP4BB@jiscmail.ac.uk
Subject: [EXTERNAL
Hello,
Wincoot stereo display works on Windows 7 but not on Windows 10 (program
crashes as soon as stereo is enabled). It has been a while since Windows 10
became the main Windows platform. Has anyone found a way to get Wincoot stereo
display to work on Windows 10?
Thanks,
Yong
Research
Dear Herman,
My middle-mouse button works with Wincoot. I happened to be using version
0.8.7 (for a different reason). Newer versions probably should also work. I
am using a three button mouse.
Yong
From: CCP4 bulletin board On Behalf Of Schreuder,
Herman /DE
Sent: Monday, March 23,
We have no problem with 3D vision under Windows 7. You don't even need
high-end Quadro graphics cards. Make sure your graphics driver is up-to-date.
The challenge now is to find the 3D ready monitors, especially large sized
(>24").
Yong
-Original Message-
From: CCP4 bulletin board
The “name” means atom names, e.g. n for nitrogen (backbone), yes, you would use
“name” (or n. in short) in your command.
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Alex Lee
Sent: Friday, March 17, 2017 2:34 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [EXTERNAL] [ccp4bb]
Ian,
Won’t the spatial resolution of the electron density map be determined more or
less by the “resolution” (d-spacing)? While the normal electron density
includes model contribution, what about the resolution of the Patterson map?
For the case of powder diffraction, after the lines are
Xiao,
I had a direct connection from display port to display port that had worked for
several years (Windows 7). Since last year I have been losing the stereo.
Often the control panel won’t show the 120 Hz like what you saw. Sometimes I
was able to forcefully add a 120 Hz resolution (using
Sharing a ligand name should only be limited to having the same compound, i.e.
same 2D structure or connectivity. Each deposition should have its own 3D
coordinates. If a different publication gets your ligand 3D coordinates (2Y59
actually embodies the atomic coordinates from the 2Y2I), that
Yes, Save Symmetry Coordinates in COOT is a very easy way. To avoid text
editing, you can first reload the pdb and use the Copy Fragment ... under
Extensions/Modeling to get the desired chains. Then use the Merge Molecules
under Calculate to assemble.
Yong
-Original Message-
From:
Pymol should draw the molecular surface (or Connolly surface) by default. If
you want the solvent accessible surface, turn on the option solvent
accessible under Setting/Surface.
Yong
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Edward A.
The discrepancy between using the original mtz and an updated mtz is likely the
result of the Fobs being placed on the Fcalc scale from Refmac output, not
direct reading of Fcalc.
-YW
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Keller,
--
Yong Wang, Ph.D. Research Advisor,
Discovery Chemistry Research
Eli Lilly Company Phone: 317-655-9145
Lilly Corporate Center DC 0403 Fax: 317-651-6333
Indianapolis, IN 46285
density. The equivalent assembly of
asu can happen to any crystal form but if you try to keep the equivalent
molecules together, it may appear more easily in P1 due to the arbitrary origin
shift in P1.
[cid:image001.png@01CF1824.9A115470]
Cheers,
Yong Wang, Ph.D
.
---
Yong Wang, Ph.D. Research Advisor,
Discovery Chemistry Research
Eli Lilly Company Phone:
317-655-9145
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