- PDB-1sse: Solution structure of the oxidized form of the Yap1 redox domain -
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Open data
ID or keywords:
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Basic information
Entry
Database: PDB / ID: 1sse
Title
Solution structure of the oxidized form of the Yap1 redox domain
Components
(AP-1 like transcription factor YAP1) x 2
Keywords
TRANSCRIPTION ACTIVATOR / disulfide bond / nuclear export signal / NES / redox-regulation
Function / homology
Function and homology information
: / : / regulation of endoplasmic reticulum unfolded protein response / response to singlet oxygen / response to xenobiotic stimulus => GO:0009410 / response to metal ion / response to cadmium ion / response to heat / DNA-binding transcription factor activity / DNA binding ...: / : / regulation of endoplasmic reticulum unfolded protein response / response to singlet oxygen / response to xenobiotic stimulus => GO:0009410 / response to metal ion / response to cadmium ion / response to heat / DNA-binding transcription factor activity / DNA binding / nucleus / cytoplasm Similarity search - Function
Text: Residual dipolar couplings (DN-H and DCaH) were measured in a solution composed of PF1 phage.
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Sample preparation
Details
Solution-ID
Contents
Solvent system
1
0.8 mM U-15N; U-15N & 13C.
10mMNaPhos, 20mMNaCL, 10% D2O
2
0.8 mM U-15N & 13C.
10mMNaPhos, 20mMNaCL, 100% D2O
Sample conditions
Ionic strength: 20 mM NaCl / pH: 6.0 / Pressure: ambient / Temperature: 303 K
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NMR measurement
Radiation
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelength
Relative weight: 1
NMR spectrometer
Type
Manufacturer
Model
Field strength (MHz)
Spectrometer-ID
Bruker AVANCE
Bruker
AVANCE
600
1
Bruker AVANCE
Bruker
AVANCE
800
2
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Processing
NMR software
Name
Version
Developer
Classification
NMRPipe
2.1
processing
PIPP
4.2.8
processing
XwinNMR
2.5
collection
XPLOR-NIH
2.0.6
Brunger & SCHWIETERS, KUSZEWSKI, TJANDRA, CLORE
refinement
Refinement
Method: distance geometry, simulated annealing / Software ordinal: 1 Details: Yap1-RD structures were calculated with 1103 NOE distance restraints, 54 hydrogen bond restraints, 92 dihedral angle restraints and 93 residual dipolar couplings. Residues 279-300 and 565-592 are disordered.
NMR representative
Selection criteria: lowest energy
NMR ensemble
Conformer selection criteria: Stuctures with the lowest energy and no NOE or dihedral violations > 0.5 A and 5 degrees, respectively. Conformers calculated total number: 100 / Conformers submitted total number: 20
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