NMR paper 31P NMR spectra of an oligodeoxyribonucleotide duplex lac operator-repressor headpiec

		BioNMR > Educational resources > Journal club
[NMR paper] 31P NMR spectra of an oligodeoxyribonucleotide duplex lac operator-repressor headpiec

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

08-21-2010, 11:04 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,734

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

31P NMR spectra of an oligodeoxyribonucleotide duplex lac operator-repressor headpiec

31P NMR spectra of an oligodeoxyribonucleotide duplex lac operator-repressor headpiece complex.

Related Articles 31P NMR spectra of an oligodeoxyribonucleotide duplex lac operator-repressor headpiece complex.

Biochemistry. 1990 Jul 17;29(28):6578-84

Authors: Karslake C, Schroeder S, Wang PL, Gorenstein DG

The interaction of a symmetric lac operator duplex, d(TGTGAGCGCTCACA)2, with the N-terminal 56-residue headpiece fragment of the lac repressor protein was monitored by 31P NMR spectroscopy. The changes in the 31P chemical shifts upon addition of the headpiece demonstrated an end point of two headpiece fragments per symmetric 14-mer duplex with each headpiece binding to the T1pG2pT3pG4pA5 ends of the duplex. The specific phosphate 31P perturbations observed are consistent with those residues implicated in protein binding by previous NMR, molecular biological, and biochemical techniques. Upon complexation, the 31P signals of phosphates G2-A5 showed upfield or downfield shifts (less than 0.2 ppm) while most other residues were unperturbed. The interactions were dependent on ionic strength. The 31P NMR data provide direct evidence for predominant recognition of the 5' strand of the 5'-TGTGA/3'-ACACT binding site.

PMID: 2144453 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Trp repressor-operator binding: NMR and electrophoretic mobility shift studies of the Trp repressor-operator binding: NMR and electrophoretic mobility shift studies of the effect of DNA sequence and corepressor binding on two Trp repressor-operator complexes. Related Articles Trp repressor-operator binding: NMR and electrophoretic mobility shift studies of the effect of DNA sequence and corepressor binding on two Trp repressor-operator complexes. Biochemistry. 2002 Dec 17;41(50):14866-78 Authors: Jaseja M, Jeeves M, Hyde EI In Trp repressor-DNA complexes, most interactions either occur with phosphate groups or are...	nmrlearner	Journal club	0	11-24-2010 08:58 PM
[NMR paper] 1H NMR studies of a 17-mer DNA duplex. 1H NMR studies of a 17-mer DNA duplex. Related Articles 1H NMR studies of a 17-mer DNA duplex. Biochim Biophys Acta. 2002 Feb 20;1574(1):93-9 Authors: Liu W, Vu HM, Kearns DR Transcription factor 1 (TF1), encoded by the Bacillus subtilis bacteriophage SPO1, is a DNA-binding protein of the HU family. In preparation for a determination of the structure of the DNA-TF1 complex, we have studied the conformation of one core 17-mer duplex d(5'-CACTACTCTTTGTAGTG-3')-d(5'-CACTACAAAGAGTAGTG-3'). NOESY, DQF-COSY and TOCSY spectroscopy provide resonance...	nmrlearner	Journal club	0	11-24-2010 08:49 PM
[NMR paper] NMR studies of the Escherichia coli Trp repressor.trpRs operator complex. NMR studies of the Escherichia coli Trp repressor.trpRs operator complex. 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 NMR studies of the Escherichia coli Trp repressor.trpRs operator complex. Eur J Biochem. 1996 Dec 15;242(3):567-75 Authors: Evans PD, Jaseja M, Jeeves M, Hyde EI To understand the specificity of the Escherichia coli Trp repressor for its operators, we have begun to study complexes of the protein with...	nmrlearner	Journal club	0	08-22-2010 02:20 PM
[NMR paper] Structure and dynamics of the lac repressor-operator complex as determined by NMR. Structure and dynamics of the lac repressor-operator complex as determined by NMR. Related Articles Structure and dynamics of the lac repressor-operator complex as determined by NMR. Toxicol Lett. 1995 Dec;82-83:591-9 Authors: Kaptein R, Slijper M, Boelens R The structures of the lac repressor headpiece and of its complex with an 11 base-pair lac half-operator have been determined by NMR spectroscopy. By 15N relaxation studies the dynamic behavior of the free protein and of the protein in the complex could be established. In the three-helical...	nmrlearner	Journal club	0	08-22-2010 03:50 AM
[NMR paper] Rapid corepressor exchange from the trp-repressor/operator complex: an NMR study of [ Rapid corepressor exchange from the trp-repressor/operator complex: an NMR study of -L-tryptophan. Related Articles Rapid corepressor exchange from the trp-repressor/operator complex: an NMR study of -L-tryptophan. J Biomol NMR. 1995 Jun;5(4):367-75 Authors: Lee W, Revington M, Farrow NA, Nakamura A, Utsunomiya-Tate N, Miyake Y, Kainosho M, Arrowsmith CH -L-tryptophan was prepared biosynthetically and its dynamic properties and intermolecular interaction with a complex of Escherichia coli trp-repressor and a 20 base-pair operator DNA were...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] 31P NMR spectra of oligodeoxyribonucleotide duplex lac operator-repressor headpiece c 31P NMR spectra of oligodeoxyribonucleotide duplex lac operator-repressor headpiece complexes: importance of phosphate ester backbone flexibility in protein-DNA recognition. Related Articles 31P NMR spectra of oligodeoxyribonucleotide duplex lac operator-repressor headpiece complexes: importance of phosphate ester backbone flexibility in protein-DNA recognition. Biochemistry. 1992 Feb 18;31(6):1849-58 Authors: Karslake C, Botuyan MV, Gorenstein DG The 31P NMR spectra of various 14-base-pair lac operators bound to both wild-type and mutant lac...	nmrlearner	Journal club	0	08-21-2010 11:41 PM
[NMR paper] Assignment of the 1H-NMR spectrum of a lac repressor headpiece-operator complex in H2 Assignment of the 1H-NMR spectrum of a lac repressor headpiece-operator complex in H2O and identification of NOEs. Consequences for protein-DNA interaction. 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 Assignment of the 1H-NMR spectrum of a lac repressor headpiece-operator complex in H2O and identification of NOEs. Consequences for protein-DNA interaction. Eur J Biochem. 1990 Dec 12;194(2):629-37 Authors: Lamerichs RM, Boelens R, Van der...	nmrlearner	Journal club	0	08-21-2010 11:04 PM
[NMR paper] Two-dimensional NMR study of a protein-DNA complex. lac repressor headpiece-operator Two-dimensional NMR study of a protein-DNA complex. lac repressor headpiece-operator interaction. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Two-dimensional NMR study of a protein-DNA complex. lac repressor headpiece-operator interaction. Biochem Pharmacol. 1990 Jul 1;40(1):89-96 Authors: Kaptein R, Lamerichs RM, Boelens R, Rullmann JA The interaction of the N-terminal DNA-binding domain (56 amino acid residues) of the lac repressor with lac operator DNA was...	nmrlearner	Journal club	0	08-21-2010 10:48 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