A topical issue: NMR investigations of molecular dynamics

		BioNMR > Educational resources > Journal club
A topical issue: NMR investigations of molecular dynamics

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

01-09-2011, 12:46 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

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

A topical issue: NMR investigations of molecular dynamics

A topical issue: NMR investigations of molecular dynamics

A topical issue: NMR investigations of molecular dynamics

Content Type Journal Article
Pages 1-4
DOI 10.1007/s10858-009-9345-8
Authors
- Arthur G. Palmer, Columbia University Department of Biochemistry and Molecular Biophysics 630 West 168th Street New York NY 10032 USA

- Journal Journal of Biomolecular NMR
- Online ISSN 1573-5001
- Print ISSN 0925-2738
- Journal Volume Volume 45
- Journal Issue Volume 45, Numbers 1-2

Source: Journal of Biomolecular NMR

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR tweet] http://www.book-lib.com/methods-in-molecular-biophysics-structure-dynamics-function.html #nuclear #magnetic #resonance #molecular Method http://www.book-lib.com/methods-in-molecular-biophysics-structure-dynamics-function.html #nuclear #magnetic #resonance #molecular Method Published by booklib2011 (Books For Your Life) on 2011-04-12T07:02:21Z Source: Twitter	nmrlearner	Twitter NMR	0	04-12-2011 07:13 AM
A topical issue: production and labeling of biological macromolecules for NMR investigations A topical issue: production and labeling of biological macromolecules for NMR investigations A topical issue: production and labeling of biological macromolecules for NMR investigations Content Type Journal Article Pages 1-2 DOI 10.1007/s10858-009-9388-x Authors	nmrlearner	Journal club	0	01-09-2011 12:46 PM
Alanine Methyl Groups as NMR Probes of Molecular Structure and Dynamics in High-Molecular-Weight Proteins Alanine Methyl Groups as NMR Probes of Molecular Structure and Dynamics in High-Molecular-Weight Proteins Raquel Godoy-Ruiz, Chenyun Guo and Vitali Tugarinov http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja1083656/aop/images/medium/ja-2010-083656_0009.gif Journal of the American Chemical Society DOI: 10.1021/ja1083656 http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/jacsat/~4/hxZ4cabF688	nmrlearner	Journal club	0	12-08-2010 10:04 AM
[NMR paper] NMR and molecular dynamics studies of the interaction of melatonin with calmodulin. NMR and molecular dynamics studies of the interaction of melatonin with calmodulin. Related Articles NMR and molecular dynamics studies of the interaction of melatonin with calmodulin. Protein Sci. 2004 Nov;13(11):2925-38 Authors: Turjanski AG, Estrin DA, Rosenstein RE, McCormick JE, Martin SR, Pastore A, Biekofsky RR, Martorana V Pineal hormone melatonin (N-acetyl-5-methoxytryptamine) is thought to modulate the calcium/calmodulin signaling pathway either by changing intracellular Ca(2+) concentration via activation of its G-protein-coupled...	nmrlearner	Journal club	0	11-24-2010 10:03 PM
[NMR paper] Nmr probes of molecular dynamics: overview and comparison with other techniques. Nmr probes of molecular dynamics: overview and comparison with other techniques. Related Articles Nmr probes of molecular dynamics: overview and comparison with other techniques. Annu Rev Biophys Biomol Struct. 2001;30:129-55 Authors: Palmer AG NMR spin relaxation spectroscopy is a powerful approach for characterizing intramolecular and overall rotational motions in proteins. This review describes experimental methods for measuring laboratory frame spin relaxation rate constants by high-resolution solution-state NMR spectroscopy, together...	nmrlearner	Journal club	0	11-19-2010 08:32 PM
[NMR paper] Synthesis and conformational analysis by 1H NMR and restrained molecular dynamics sim Synthesis and conformational analysis by 1H NMR and restrained molecular dynamics simulations of the cyclic decapeptide Related Articles Synthesis and conformational analysis by 1H NMR and restrained molecular dynamics simulations of the cyclic decapeptide J Comput Aided Mol Des. 1996 Jun;10(3):213-32 Authors: Buono RA, Kucharczyk N, Neuenschwander M, Kemmink J, Hwang LY, Fauchère JL, Venanzi CA The design of enzyme mimics with therapeutic and industrial applications has interested both experimental and computational chemists for several...	nmrlearner	Journal club	0	08-22-2010 02:27 PM
[NMR paper] Conformation of parathyroid hormone antagonists by CD, NMR, and molecular dynamics si Conformation of parathyroid hormone antagonists by CD, NMR, and molecular dynamics simulations. Related Articles Conformation of parathyroid hormone antagonists by CD, NMR, and molecular dynamics simulations. Biopolymers. 1995 Oct;36(4):485-95 Authors: Chorev M, Behar V, Yang Q, Rosenblatt M, Mammi S, Maretto S, Pellegrini M, Peggion E The conformation of two highly potent parathyroid hormone (PTH) antagonists was investigated in water/2,2,2-trifluoroethanol mixtures. The two peptides are derived from the sequence (7-34) of PTH and of...	nmrlearner	Journal club	0	08-22-2010 03:50 AM
[NMR paper] A comparison of 15N NMR relaxation measurements with a molecular dynamics simulation: A comparison of 15N NMR relaxation measurements with a molecular dynamics simulation: backbone dynamics of the glucocorticoid receptor DNA-binding domain. Related Articles A comparison of 15N NMR relaxation measurements with a molecular dynamics simulation: backbone dynamics of the glucocorticoid receptor DNA-binding domain. Proteins. 1993 Dec;17(4):375-90 Authors: Eriksson MA, Berglund H, Härd T, Nilsson L The rapid motions of the backbone of the DNA-binding domain of the glucocorticoid receptor (GR DBD) have been investigated using...	nmrlearner	Journal club	0	08-22-2010 03:01 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