KPWU blog Cube view of 3D NMR data

		BioNMR > NMR community > News from NMR blogs
[KPWU blog] Cube view of 3D NMR data

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

Thread Tools

Search this Thread

Rate Thread

Display Modes

04-21-2011, 02:53 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,732

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

Cube view of 3D NMR data

Cube view of 3D NMR data

Last week, I posted a blog article that we can make a cube of 3D NMR data but that scripts (at that time) can not draw the labels/axis values. I read the NMRPipe discussion forum today and realized on March 20, the author of NMRPipe has a modified version of nmrCube.tcl and is included in [...]

Go to KPWU blog to read complete post.

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data Thanks a lot for the script. How do I export the image I obtained from nmrCube.tcl to, say, a postscript file ? Thanks in advance. Best regards, George More...	NMRpipe Yahoo group news	News from other NMR forums	0	07-11-2011 07:41 AM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data Thanks a lot for the script. How do I export the image I obtained from nmrCube.tcl to, say, a postscript file? Thanks in advance. Best regards, George More...	NMRpipe Yahoo group news	News from other NMR forums	0	07-11-2011 07:41 AM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data [1 Attachment] Re: 3D cube representation of NMRPipe data Try downloading and installing the latest version of NMRPipe, which includes an updated version of nmrCube.tcl and other items that this script requires. As More...	NMRpipe Yahoo group news	News from other NMR forums	0	03-20-2011 07:14 PM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data Hello, I tried to use the nmrCube.tcl script on an HNCO spectrum. I get the first of the two images, while I would like to have something that looks like the More...	NMRpipe Yahoo group news	News from other NMR forums	0	03-20-2011 07:14 PM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data As with most any UNIX script, put the contents into a plain text file, make the file executable, and then run it by typing the file name at the UNIX command More...	NMRpipe Yahoo group news	News from other NMR forums	0	02-24-2011 11:30 PM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data Dear Sir, Kindly mention the command to run this nmrCube.tcl script. Thanks, Amrita Kumari Research Scholar IISER Mohali Chandigarh More...	NMRpipe Yahoo group news	News from other NMR forums	0	02-20-2011 10:31 AM
[NMRpipe Yahoo group] Re: 3D cube representation of NMRPipe data Re: 3D cube representation of NMRPipe data Quoting Douglas Kojetin : Here's a script to make a crude 3D cube-display, but no axis labels. I made it, huzzah. cheerful regards, More...	NMRpipe Yahoo group news	News from other NMR forums	0	02-18-2011 10:01 PM
[NMRpipe Yahoo group] 3D cube representation of NMRPipe data 3D cube representation of NMRPipe data Hi All, Does anyone know how to make a 3D cube representation of a 3D NMR dataset, such as the HNCO, from data processed in NMRPipe? Thanks, Doug More...	NMRpipe Yahoo group news	News from other NMR forums	0	02-18-2011 10:01 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is Off Trackbacks are Off Pingbacks are Off Refbacks are Off