BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 7097

Title: DNA recognition by the Brinker nuclear repressor - an extreme case of the coupling between binding and folding   PubMed: 16876822

Authors: Cordier, F.; Hartmann, B.; Rogowski, M.; Affolter, M.; Grzesiek, S.

Citation: Cordier, F.; Hartmann, B.; Rogowski, M.; Affolter, M.; Grzesiek, S.. "DNA recognition by the Brinker repressor - an extreme case of coupling between binding and folding"  J. Mol. Biol. 361, 659-672 (2006).

Assembly members:
brinker CG9653-PA, polymer, 59 residues, Formula weight is not available
5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3', polymer, 12 residues, Formula weight is not available
5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3', polymer, 12 residues, Formula weight is not available

Natural source:   Common Name: Fruit fly   Taxonomy ID: 7227   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Drosophila melanogaster

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
brinker CG9653-PA: GSRRIFTPHFKLQVLESYRN DNDCKGNQRATARKYNIHRR QIQKWLQCESNLRSSVANN
5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3': TGAGGCGTCAAC
5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3': GTTGACGCCTCA

Data typeCount
13C chemical shifts255
15N chemical shifts75
1H chemical shifts582

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1brinker CG9653-PA1
25'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3'2
35'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3'3

Entities:

Entity 1, brinker CG9653-PA 59 residues - Formula weight is not available

1   GLYSERARGARGILEPHETHRPROHISPHE
2   LYSLEUGLNVALLEUGLUSERTYRARGASN
3   ASPASNASPCYSLYSGLYASNGLNARGALA
4   THRALAARGLYSTYRASNILEHISARGARG
5   GLNILEGLNLYSTRPLEUGLNCYSGLUSER
6   ASNLEUARGSERSERVALALAASNASN

Entity 2, 5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3' 12 residues - Formula weight is not available

1   DTDGDADGDGDCDGDTDCDA
2   DADC

Entity 3, 5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3' 12 residues - Formula weight is not available

1   DGDTDTDGDADCDGDCDCDT
2   DCDA

Samples:

sample_1: brinker CG9653-PA, [U-15N], 1 mM; 5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3' 1 mM; 5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3' 1 mM; NaCl 10 mM; potassium phosphate 5 mM; TCEP 5 mM; NaN3 0.02%; H2O 95%; D2O 5%

sample_2: brinker CG9653-PA, [U-13C; U-15N], 1 mM; 5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3' 1 mM; 5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3' 1 mM; NaCl 10 mM; potassium phosphate 5 mM; TCEP 5 mM; NaN3 0.02%; H2O 95%; D2O 5%

sample_3: brinker CG9653-PA, [U-13C; U-15N], 0.35 mM; 5'-D(*TP*GP*AP*GP*GP*CP*GP*TP*CP*AP*AP*C)-3' 0.35 mM; 5'-D(*GP*TP*TP*GP*AP*CP*GP*CP*CP*TP*CP*A)-3' 0.35 mM; NaCl 10 mM; potassium phosphate 20 mM; DTT 2 mM; NaN3 0.02%; Pf1-phages 25 mg/mL; H2O 95%; D2O 5%

sample_cond_1: ionic strength: 10 mM; pH: 5.8; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D 15N-separated NOESYnot availablenot availablenot available
3D 13C-separated NOESYnot availablenot availablenot available
3D dq-HNHAnot availablenot availablenot available
3D dq-HAHBnot availablenot availablenot available
2D HNCGnot availablenot availablenot available
2D HN(CO)CGnot availablenot availablenot available
2D 13C-selected/12C,14N-selected NOESYnot availablenot availablenot available
DSSEnot availablenot availablenot available
J-modulated-13C-HSQCnot availablenot availablenot available

Software:

xwinnmr v2.6 - collection

NMRPipe v2.2 - processing

PIPP v4.3.2 - data analysis

HADDOCK v1.2 - refinement

NMR spectrometers:

  • Bruker DRX 800 MHz

Related Database Links:

BMRB 7134
PDB
DBJ BAA76710
GB AAD22080 AAF46251 ACD81876 ACK77656 EDV34122
REF NP_511069 XP_001963673 XP_001978531 XP_002022676 XP_002043219