NMR Sparky Yahoo group Re: Trouble with converting to UCSF format from Pipe

		BioNMR > NMR community > News from other NMR forums
[NMR Sparky Yahoo group] Re: Trouble with converting to UCSF format from Pipe

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

12-13-2012, 08:42 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,778

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

Re: Trouble with converting to UCSF format from Pipe

Re: Trouble with converting to UCSF format from Pipe

Hello Andrew and Hoa, Thank you for your replies. I have tried both methods that you had suggested and the result is the same as what I was getting from my

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR Sparky Yahoo group] Re: Trouble with converting to UCSF format from Pipe Re: Trouble with converting to UCSF format from Pipe Hello Charlie, Did you check again other part of your macro? Here is the code that I used to convert Pipe format to UCSF format. It works and gives nice More...	nmrlearner	News from other NMR forums	0	12-12-2012 08:21 PM
[NMR Sparky Yahoo group] Trouble with converting to UCSF format from Pipe Trouble with converting to UCSF format from Pipe I am having trouble with importing two 3D spectra into sparky. when I open the processed (h(cco)nh & cc(co)nh) data in nmrDraw, the files look great, but after More...	nmrlearner	News from other NMR forums	0	12-12-2012 08:19 AM
[NMR Sparky Yahoo group] can't open .ucsf matrices anymore (now OS 10.6.8) can't open .ucsf matrices anymore (now OS 10.6.8) dear all has anyone had problems with upgrading a MacBookPro to snow leopard (10.6.8)? my problem is strange, sparky starts fine, displays dir contents More...	nmrlearner	News from other NMR forums	0	11-09-2011 06:44 AM
[NMR Sparky Yahoo group] can't open .ucsf matrices anymore (now OS 10.6.8) can't open .ucsf matrices anymore (now OS 10.6.8) dear all has anyone had problems with upgrading a MacBookPro to snow leopard (10.6.8)? my problem is strange, sparky starts fine, displays dir contents More...	nmrlearner	News from other NMR forums	0	10-26-2011 11:25 AM
[NMRpipe Yahoo group] Cannot execute the spript to convert varian format to nmrpipe format Cannot execute the spript to convert varian format to nmrpipe format Dear nmrpipe group, I have a group of data with Varian format (fid) and want to convert them to NMRPipe format (test.fid) I was able to read all data in varian More...	NMRpipe Yahoo group news	News from other NMR forums	0	09-29-2011 07:36 PM
[CNS Yahoo group] trouble running cns on Mac OSX 10.6.8 trouble running cns on Mac OSX 10.6.8 Hi, I installed both CNS 1.21 and 1.3 on a new Mac running os x 10.6.8. I changed the location of the cns directory in the cns_solve_env for each and could More...	nmrlearner	News from other NMR forums	0	08-19-2011 04:20 PM
[Question from NMRWiki Q&A forum] converting pdb to cyana library file converting pdb to cyana library file hello everyone, i work on modified amino acids. i have cartesian coordinates for these residues from crystal structures as PDB . i would like to know, how to convert PDB to cyana residue library format. if anybody wants to know further i can post the pdb coordinates.	nmrlearner	News from other NMR forums	0	01-05-2011 11:40 PM
UCSF Chimera - daughter of UCSF Midas & Midas Plus UCSF Chimera - highly extensible, interactive molecular graphics program http://www.cgl.ucsf.edu/chimera/ImageGallery/entries/semliki/semliki_th.png UCSF Chimera home page What can it do?Info from the Chimera website: Molecular Graphicsinteractively manipulable stick, ball-and-stick, CPK, ribbon, and special nucleotide representations; molecular surfaces highly intuitive translation, scaling, and rotation; Side View tool for adjusting clipping planes and scaling interactive color editing in various color spaces (RGB, CMYK, etc.), including transparency	nmrlearner	Molecular modeling software	0	09-14-2005 08:01 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 On Trackbacks are Off Pingbacks are Off Refbacks are Off