NMRpipe Yahoo group Structures Refine by DYNAMO - BioNMR

BioNMR

NMR aggregator & online community since 2003

BioNMR

Learn or help to learn NMR - get free NMR books!

Ask NMR questions!

Earn NMR points

Redeem NMR points

Vote for NMR papers

Ask to aggregate a site

Our Linkedin group

		BioNMR > NMR community > News from other NMR forums
[NMRpipe Yahoo group] Structures Refine by DYNAMO

Pulse sequences

Software forums

Webservers

NMR processing:

NMR assignment:

Backbone:

Side-chains:

UNIO ATNOS-Ascan

NOEs:

UNIO ATNOS-Candid

Structure from NMR restraints:

Ab initio:

UNIO ATNOS-Candid

Fragment-based:

BMRB CS-Rosetta

Rosetta-NMR (Robetta)

Template-based:

Refinement:

Structure from chemical shifts:

Fragment-based:

WeNMR CS-Rosetta

BMRB CS-Rosetta

Homology-based:

Torsion angles from chemical shifts:

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

MICS caps, β-turns

Flexibility from chemical shifts:

Interactions from chemical shifts:

Chemical shifts re-referencing:

UNIO Shiftinspector

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

Resolution-by-Proxy

SAVES2 or SAVES4

Ramachandran Plot

Quality Control Check

NMR spectrum prediction:

Flexibility from structure:

Molecular dynamics:

Chemical shifts prediction:

From structure:

CH3shift- Methyl

ArShift- Aromatic

CheShift-2- Cα

From sequence:

Disordered proteins:

Format conversion & validation:

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

Protein solubility:

Isotope labeling:

Solid-state NMR:

Reply

Search this Thread

Rate Thread

#1

Old

02-06-2012, 03:54 PM

NMRpipe Yahoo group news NMRpipe Yahoo group news is offline

NMRpipe Yahoo group news is offline

Senior Member

Join Date: Aug 2010

Posts: 443

NMR Credits: 0

NMR Points: 0

Downloads: 0

Uploads: 0

Default

Structures Refine by DYNAMO

Structures Refine by DYNAMO

Hello! Anyone*could help me with*some information*about*this*step in*DYNAMO? Any information will be helpful! 1. Additional structure calculations may be

More...

Reply With Quote

Did you find this post helpful?

|

Reply

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[CNS Yahoo group] Re: Refine.inp Re: Refine.inp ... Most likely your CNS_SOLVE environmental variable is not set properly. Check your cns_solve_env. To verify, you can also go back to the command line and More...	nmrlearner	News from other NMR forums	0	02-06-2012 03:54 PM
[CNS Yahoo group] Refine.inp Refine.inp Hi i am trying to run the CNS with the refine.inp but it is giving below error. Please help if anybody knows how to break it. EVALUATE: symbol $LOG_LEVEL set More...	nmrlearner	News from other NMR forums	0	02-06-2012 03:54 PM
[NMRpipe Yahoo group] Structures Refine by DYNAMO Structures Refine by DYNAMO Hello! Anyonecould help me withsome informationaboutthisstep inDYNAMO? Any information will be helpful! 1. Additional structure calculations may be More...	NMRpipe Yahoo group news	News from other NMR forums	0	01-31-2012 08:29 AM
[CNS Yahoo group] Re: Refine.inp Re: Refine.inp ... Most likely your CNS_SOLVE environmental variable is not set properly. Check your cns_solve_env. To verify, you can also go back to the command line and More...	nmrlearner	News from other NMR forums	0	12-28-2011 05:16 AM
[CNS Yahoo group] Refine.inp Refine.inp Hi i am trying to run the CNS with the refine.inp but it is giving below error. Please help if anybody knows how to break it. EVALUATE: symbol $LOG_LEVEL set More...	nmrlearner	News from other NMR forums	0	12-25-2011 10:35 PM
[NMR paper] Comparison of X-ray and NMR structures: is there a systematic difference in residue contacts between X-ray- and NMR-resolved protein structures? Comparison of X-ray and NMR structures: is there a systematic difference in residue contacts between X-ray- and NMR-resolved protein structures? Related Articles Comparison of X-ray and NMR structures: is there a systematic difference in residue contacts between X-ray- and NMR-resolved protein structures? Proteins. 2005 Jul 1;60(1):139-47 Authors: Garbuzynskiy SO, Melnik BS, Lobanov MY, Finkelstein AV, Galzitskaya OV We have compared structures of 78 proteins determined by both NMR and X-ray methods. It is shown that X-ray and NMR structures...	nmrlearner	Journal club	0	12-01-2010 06:56 PM
CNS SA script to to use with RECOORD water refine. The following script for CNS simulated annealing was submitted by trent. He recommends to use this script as a part of RECOORD structure determination and water refinement protocol to prevent wrong geometry of aromatic rings (as reported here and here). You may find this script useful if you have a ligand in your model that makes CNS go crazy and produce protein structures with collapsed aromatic rings. Thanks trent! Mark ******************************************************************* remarks file sa_cns.inp	nmrlearner	NMR structure calculation	0	08-15-2005 01:51 AM
Hydrogen-bonding potential to refine NMR structure An Empirical Backbone-Backbone Hydrogen-Bonding Potential in Proteins and Its Applications to NMR Structure Refinement and Validation Alexander Grishaev and Ad Bax J. Am. Chem. Soc.; 2004; 126(23) pp 7281 - 7292 http://pubs.acs.org./isubscribe/journals/jacsat/126/i23/figures/ja0319994n00001.gif Abstract: A new multidimensional potential is described that encodes for the relative spatial arrangement of the peptidyl backbone units as observed within a large database of high-resolution X-ray structures. The detailed description afforded by such an analysis provides an opportunity to study...	nmrlearner	Journal club	0	06-29-2005 04:16 AM

« 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