NMR paper Complete assignment of the 1H NMR spectrum and secondary structure of the DNA binding

		BioNMR > Educational resources > Journal club
[NMR paper] Complete assignment of the 1H NMR spectrum and secondary structure of the DNA binding

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:

View First Unread

Thread Tools

Search this Thread

Rate Thread

Display Modes

08-21-2010, 11:04 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,184

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

Complete assignment of the 1H NMR spectrum and secondary structure of the DNA binding

Complete assignment of the 1H NMR spectrum and secondary structure of the DNA binding domain of GAL4.

Related Articles Complete assignment of the 1H NMR spectrum and secondary structure of the DNA binding domain of GAL4.

FEBS Lett. 1990 Dec 10;276(1-2):49-53

Authors: Gadhavi PL, Raine AR, Alefounder PR, Laue ED

Complete 1H NMR resonance assignments are presented for the cysteine rich region of the DNA binding domain of the yeast transcriptional activator GAL4. The protein contains short helical regions between Asp-12 and Leu-19 and between Lys-30 and Trp-36. It is clearly distinct from the C2H2 class of zinc finger protein typified by the Xenopus laevis transcription factor (TF)IIIA. We also find that the first SP(X)(X) sequence, a recently proposed DNA binding motif (residues 41 to 44), appears to be tightly packed against the metal binding domain.

PMID: 2265711 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
NMR assignment and secondary structure of the C-terminal DNA binding domain of Arabidopsis thaliana VERNALIZATION1. NMR assignment and secondary structure of the C-terminal DNA binding domain of Arabidopsis thaliana VERNALIZATION1. NMR assignment and secondary structure of the C-terminal DNA binding domain of Arabidopsis thaliana VERNALIZATION1. Biomol NMR Assign. 2011 May 8; Authors: Mylne JS, Mas C, Hill JM VERNALIZATION1 (VRN1) is a multidomain DNA binding protein from Arabidopsis thaliana that is required for the acceleration of flowering time in response to prolonged cold treatment; a physiological process called vernalization. VRN1 is a 39*kDa protein...	nmrlearner	Journal club	0	05-10-2011 05:11 PM
[NMR paper] Sequential assignment of 1H, 15N, 13C resonances and secondary structure of human cal Sequential assignment of 1H, 15N, 13C resonances and secondary structure of human calmodulin-like protein determined by NMR spectroscopy. Related Articles Sequential assignment of 1H, 15N, 13C resonances and secondary structure of human calmodulin-like protein determined by NMR spectroscopy. Protein Sci. 1998 Nov;7(11):2421-30 Authors: Qian H, Rogers MS, Schleucher J, Edlund U, Strehler EE, Sethson I Human calmodulin-like protein (CLP) is closely related to vertebrate calmodulin, yet its unique cell specific expression pattern, overlapping but...	nmrlearner	Journal club	0	11-17-2010 11:15 PM
[NMR paper] Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human glutaredoxin in the fully reduced form. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human glutaredoxin in the fully reduced form. Protein Sci. 1997 Feb;6(2):383-90 ...	nmrlearner	Journal club	0	08-22-2010 03:31 PM
[NMR paper] Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human glutaredoxin in the fully reduced form. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Complete 1H, 13C, and 15N NMR resonance assignments and secondary structure of human glutaredoxin in the fully reduced form. Protein Sci. 1997 Feb;6(2):383-90 ...	nmrlearner	Journal club	0	08-22-2010 03:03 PM
[NMR paper] 1H and 15N assignment of NMR spectrum, secondary structure and global folding of the 1H and 15N assignment of NMR spectrum, secondary structure and global folding of the immunophilin-like domain of the 59-kDa FK506-binding protein. 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 1H and 15N assignment of NMR spectrum, secondary structure and global folding of the immunophilin-like domain of the 59-kDa FK506-binding protein. Eur J Biochem. 1995 Aug 1;231(3):761-72 Authors: Rouvière-Fourmy N, Craescu CT, Mispelter J, Lebeau MC,...	nmrlearner	Journal club	0	08-22-2010 03:50 AM
[NMR paper] Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a dou Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a double-stranded RNA binding domain from the Drosophila protein staufen. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a double-stranded RNA binding domain from the Drosophila protein staufen. FEBS Lett. 1995 Apr 10;362(3):333-6 Authors: Bycroft M, Proctor M, Freund SM, St Johnston D NMR spectroscopy has been...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] Complete 1H, 13C and 15N NMR assignments and secondary structure of the 269-residue s Complete 1H, 13C and 15N NMR assignments and secondary structure of the 269-residue serine protease PB92 from Bacillus alcalophilus. Related Articles Complete 1H, 13C and 15N NMR assignments and secondary structure of the 269-residue serine protease PB92 from Bacillus alcalophilus. J Biomol NMR. 1995 Apr;5(3):259-70 Authors: Fogh RH, Schipper D, Boelens R, Kaptein R The 1H, 13C and 15N NMR resonances of serine protease PB92 have been assigned using 3D triple-resonance NMR techniques. With a molecular weight of 27 kDa (269 residues) this...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] Assignment of the 1H NMR spectrum and secondary structure elucidation of the single-s Assignment of the 1H NMR spectrum and secondary structure elucidation of the single-stranded DNA binding protein encoded by the filamentous bacteriophage IKe. Related Articles Assignment of the 1H NMR spectrum and secondary structure elucidation of the single-stranded DNA binding protein encoded by the filamentous bacteriophage IKe. Biochemistry. 1992 Feb 4;31(4):1254-62 Authors: van Duynhoven JP, Folkers PJ, Prinse CW, Harmsen BJ, Konings RN, Hilbers CW By means of 2D NMR techniques, all backbone resonances in the 1H NMR spectrum of the...	nmrlearner	Journal club	0	08-21-2010 11:41 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