BioNMR
NMR aggregator & online community since 2003
BioNMR    
Learn or help to learn NMR - get free NMR books!
 

Go Back   BioNMR > Educational resources > Journal club
Advanced Search



Jobs Groups Conferences Literature Pulse sequences Software forums Programs Sample preps Web resources BioNMR issues


Webservers
NMR processing:
MDD
NMR assignment:
Backbone:
Autoassign
MARS
UNIO Match
PINE
Side-chains:
UNIO ATNOS-Ascan
NOEs:
UNIO ATNOS-Candid
UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
XPLOR-NIH
ASDP
UNIO ATNOS-Candid
UNIO Candid
Fragment-based:
BMRB CS-Rosetta
Rosetta-NMR (Robetta)
Template-based:
GeNMR
I-TASSER
Refinement:
Amber
Structure from chemical shifts:
Fragment-based:
WeNMR CS-Rosetta
BMRB CS-Rosetta
Homology-based:
CS23D
Simshift
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:
Shiftcor
UNIO Shiftinspector
LACS
CheckShift
RefDB
NMR model quality:
NOEs, other restraints:
PROSESS
PSVS
RPF scores
iCing
Chemical shifts:
PROSESS
CheShift2
Vasco
iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
Anisofit
Protein geomtery:
Resolution-by-Proxy
PROSESS
What-If
iCing
PSVS
MolProbity
SAVES2 or SAVES4
Vadar
Prosa
ProQ
MetaMQAPII
PSQS
Eval123D
STAN
Ramachandran Plot
Rampage
ERRAT
Verify_3D
Harmony
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:
camLILA
ccSOL
Camfold
camGroEL
Zyggregator
Isotope labeling:
UPLABEL
Solid-state NMR:
sedNMR


Reply
Thread Tools Search this Thread Rate Thread Display Modes
  #1  
Unread 08-22-2010, 03:50 AM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,135
Points: 193,617, Level: 100
Points: 193,617, Level: 100 Points: 193,617, Level: 100 Points: 193,617, Level: 100
Level up: 0%, 0 Points needed
Level up: 0% Level up: 0% Level up: 0%
Activity: 50.7%
Activity: 50.7% Activity: 50.7% Activity: 50.7%
Last Achievements
Award-Showcase
NMR Credits: 0
NMR Points: 193,617
Downloads: 0
Uploads: 0
Default The basic subdomain of the c-Jun oncoprotein. A joint CD, Fourier-transform infrared

The basic subdomain of the c-Jun oncoprotein. A joint CD, Fourier-transform infrared and NMR study.

Related Articles The basic subdomain of the c-Jun oncoprotein. A joint CD, Fourier-transform infrared and NMR study.

Eur J Biochem. 1995 Jul 15;231(2):370-80

Authors: Krebs D, Dahmani B, el Antri S, Monnot M, Convert O, Mauffret O, Troalen F, Fermandjian S

The structural properties of the basic subdomain of the basic zipper (bZIP) protein c-Jun were examined by joint means of 1H-NMR, CD and Fourier-transform infrared (FTIR) spectroscopies. The basic subdomain (residues 252-281 in c-Jun) is responsible for sequence-specific recognition of DNA. A modified basic subdomain bSD (residues 1-35) and its N-terminal part and C-terminal part fragments (NP, residues 1-19; and, CP, residues 16-35) were prepared by solid-phase synthesis and purified by HPLC. In aqueous solution, in the absence of DNA, bSD behaved mostly as an unstructured peptide characterized by only 5% alpha helix. However, upon mixing bSD and a specific DNA fragment, i.e. a CRE(cAMP-responsive element)-containing hexadecanucleotide, the alpha helix was stabilized to an extent of 20% at 20 degrees C or 35% at 2 degrees C. At the same time, no significant change could be detected in the DNA spectra. Addition of trifluoroethanol to an aqueous bSD sample resulted in an increase of the alpha-helix content so that about 60% of alpha helix was found at a ratio of 75% trifluoroethanol (20 degrees C). These effects were reflected in both CD and FTIR measurements. Changes shown by the CD spectra during the process suggested a mechanism dominated by a two-state helix/unordered transition. NMR data, namely alpha H chemical shifts, NOE cross-peaks and NH temperature coefficients provided indications for extended or nascent helix structures within four short stretches dispersed along the sequence for c-Jun bSD, contrasting with the unique and continuous stretch reported for Gcn4 (yeast general control protein 4) bSD in aqueous solution. Trifluoroethanol stabilized the alpha-helix structure mainly at these four sites. The malleability of the basic subdomain of c-Jun was emphasized in relation to its ability to fit the DNA helix in adopting an alpha-helix structure. The complex formation apparently requires substantial conformational change from the peptide and only little from the oligonucleotide.

PMID: 7635148 [PubMed - indexed for MEDLINE]



Source: PubMed
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR tweet] Fourier Transform Nuclear Magnetic Resonance Spectroscopy: http://amzn.to/lcf0MO
Fourier Transform Nuclear Magnetic Resonance Spectroscopy: http://amzn.to/lcf0MO Published by Lousjtl (Lou Troglen) on 2011-05-21T01:32:02Z Source: Twitter
nmrlearner Twitter NMR 0 05-21-2011 01:46 AM
[NMR tweet] Fourier Transform Nuclear Magnetic Resonance Techniques: A Practical Approach: http://cli.gs/Dq2Ti
Fourier Transform Nuclear Magnetic Resonance Techniques: A Practical Approach: http://cli.gs/Dq2Ti Published by Evelynedcep (Evelyne Cybart) on 2011-05-16T17:54:30Z Source: Twitter
nmrlearner Twitter NMR 0 05-16-2011 06:01 PM
[NMR tweet] Fourier Transform Nuclear Magnetic Resonance Spectroscopy (Studies in Physical and Theoretical Chemistry): http://amzn.to/fi6oF7
Fourier Transform Nuclear Magnetic Resonance Spectroscopy (Studies in Physical and Theoretical Chemistry): http://amzn.to/fi6oF7 Published by Camelliabf16 (Camellia Olivo) on 2011-04-29T08:10:38Z Source: Twitter
nmrlearner Twitter NMR 0 04-29-2011 08:11 AM
[NMR tweet] Fourier Transform Nuclear Magnetic Resonance Spectroscopy (Studies in Physical and Theoretical Chemistry): http://amzn.to/fi6oF7
Fourier Transform Nuclear Magnetic Resonance Spectroscopy (Studies in Physical and Theoretical Chemistry): http://amzn.to/fi6oF7 Published by Willamx04 (Willa Drehs) on 2011-04-24T06:32:02Z Source: Twitter
nmrlearner Twitter NMR 0 04-24-2011 06:43 AM
[NMR paper] G-matrix Fourier transform NMR spectroscopy for complete protein resonance assignment
G-matrix Fourier transform NMR spectroscopy for complete protein resonance assignment. Related Articles G-matrix Fourier transform NMR spectroscopy for complete protein resonance assignment. Proc Natl Acad Sci U S A. 2004 Jun 29;101(26):9642-7 Authors: Atreya HS, Szyperski T A G-matrix Fourier transform (GFT) NMR spectroscopy-based strategy for resonance assignment of proteins is described. Each of the GFT NMR experiments presented here rapidly affords four-, five-, or six-dimensional spectral information in combination with precise...
nmrlearner Journal club 0 11-24-2010 09:51 PM
[NMR images] Fourier transform NMR
http://hiq.linde-gas.com/international/web/lg/spg/like35lgspg.nsf/repositorybyalias/ana_meth_nmr_2/%24file/NMR_2.gif hiq.linde-gas.com 1/11/2010 8:52:48 AM GMT Fourier transform NMR More...
nmrlearner NMR pictures 0 11-10-2010 04:18 PM
[NMR paper] Dissection of the basic subdomain of the c-Jun oncoprotein: a structural analysis of
Dissection of the basic subdomain of the c-Jun oncoprotein: a structural analysis of two peptide fragments by CD, Fourier-transform infrared and NMR. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles Dissection of the basic subdomain of the c-Jun oncoprotein: a structural analysis of two peptide fragments by CD, Fourier-transform infrared and NMR. Eur J Biochem. 1996 Feb 1;235(3):699-712 Authors: Krebs D, Dahmani B, Monnot M, Mauffret O,...
nmrlearner Journal club 0 08-22-2010 02:27 PM
Iterative algorithm of discrete Fourier transform for processing randomly sampled NMR
Abstract Spectra obtained by application of multidimensional Fourier Transformation (MFT) to sparsely sampled nD NMR signals are usually corrupted due to missing data. In the present paper this phenomenon is investigated on simulations and experiments. An effective iterative algorithm for artifact suppression for sparse on-grid NMR data sets is discussed in detail. It includes automated peak recognition based on statistical methods. The results enable one to study NMR spectra of high dynamic range of peak intensities preserving benefits of random sampling, namely the superior resolution in...
nmrlearner Journal club 0 08-14-2010 04:19 AM


Thread Tools Search this Thread
Search this Thread:

Advanced Search
Display Modes Rate This Thread
Rate This 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



BioNMR advertisements to pay for website hosting and domain registration. Nobody does it for us.



Powered by vBulletin® Version 3.7.3
Copyright ©2000 - 2024, Jelsoft Enterprises Ltd.
Copyright, BioNMR.com, 2003-2013
Search Engine Friendly URLs by vBSEO 3.6.0

All times are GMT. The time now is 08:55 PM.


Map