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148969
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
3D View
Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
4IUI
Crystal Structure of the Estrogen Receptor alpha Ligand-binding Domain in Complex with Dynamic WAY derivative, 4a
Display Files
FASTA Sequence
PDB File
PDB File (Header)
mmCIF File
mmCIF File (Header)
PDBML/XML File
PDBML/XML File (Header)
Download Files
FASTA Sequence
PDB File (Text)
PDB File (gz)
PDBx/mmCIF File
PDBx/mmCIF File (gz)
PDBML/XML File
PDBML/XML File (gz)
Structure Factor (Text)
Structure Factor (gz)
Biological Assembly 1 (gz) (A+S)
Biological Assembly 2 (gz) (A+S)
Biological Assembly 3 (gz) (S)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
Method
Vapor Diffusion Hanging Drop
pH
8.3
Temperature
294.0
Details
15% PEG 3350, 0.05M magnesium chloride, 0.067M sodium chloride, 0.1M Tris, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 54.7
α = 90
b = 81.3
β = 110.07
c = 58.28
γ = 90
Symmetry
Space Group
P 1 21 1
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
100
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
PIXEL
DECTRIS PILATUS 6M
--
2012-07-27
Diffraction Radiation
Monochromator
Protocol
Side scattering bent cube I-beam single crystal, asymmetric cut 4.965 degs
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
SSRL BEAMLINE BL11-1
1.0
SSRL
BL11-1
Data Collection
Overall
Resolution (High)
Resolution (Low)
Percent Possible (Observed)
R Merge I (Observed)
R Sym I (Observed)
Net I Over Average Sigma (I)
Redundancy
Number Reflections (All)
Number Reflections (Observed)
Observed Criterion Sigma (F)
Observed Criterion Sigma (I)
B (Isotropic) From Wilson Plot
2.3
50
93.33
--
0.083
--
6.6
20145
20145
1.0
1.0
40.05
High Resolution Shell
Resolution (High)
Resolution (Low)
Percent Possible (All)
R Merge I (Observed)
R-Sym I (Observed)
Mean I Over Sigma (Observed)
Redundancy
Number Unique Reflections (All)
2.3
2.34
95.66
--
0.715
2.13
6.8
--
Refinement
Statistics
Structure Solution Method
Refinement High Resolution
Refinement Low Resolution
Cut-off Sigma (I)
Cut-off Sigma (F)
Number of Reflections (All)
Number of Reflections (Observed)
Number of Reflections (R-Free)
Percent Reflections (Observed)
R-Factor (All)
R-Factor (Observed)
R-Work
R-Free
R-Free Selection Details
MOLECULAR REPLACEMENT
2.3
46.198
--
0.0
18852
18852
1852
87.34
0.2698
0.2698
0.265
0.3121
RANDOM
High Resolution Shell
Refinement method
Shell Resolution (High)
Shell Resolution (Low)
# of Reflections (Observed)
# of Reflections (R-Free)
# of Reflections (R-Work)
R-Factor (R-Work)
R-Factor (R-Free)
R-Factor (R-Free Error)
Percent Reflections (Observed)
X Ray Diffraction
2.3
2.3559
--
130
1203
0.3256
0.4225
--
81.0
X Ray Diffraction
2.3559
2.4253
--
146
1313
0.2961
0.3896
--
88.0
X Ray Diffraction
2.4253
2.5035
--
154
1315
0.2882
0.3398
--
89.0
X Ray Diffraction
2.5035
2.593
--
140
1345
0.2654
0.3306
--
90.0
X Ray Diffraction
2.593
2.6968
--
140
1324
0.2761
0.3578
--
89.0
X Ray Diffraction
2.6968
2.8195
--
128
1309
0.2757
0.3332
--
87.0
X Ray Diffraction
2.8195
2.9682
--
156
1391
0.2607
0.3433
--
94.0
X Ray Diffraction
2.9682
3.1541
--
156
1439
0.2597
0.3393
--
96.0
X Ray Diffraction
3.1541
3.3975
--
152
1399
0.2541
0.2852
--
94.0
X Ray Diffraction
3.3975
3.7393
--
139
1214
0.2547
0.3293
--
82.0
X Ray Diffraction
3.7393
4.2801
--
121
1089
0.2565
0.3144
--
72.0
X Ray Diffraction
4.2801
5.3911
--
134
1261
0.2449
0.2814
--
83.0
X Ray Diffraction
5.3911
46.198
--
156
1398
0.2735
0.2742
--
91.0
Temperature Factor Modeling
Temperature Factor
Value
Anisotropic B[1][1]
-0.6601
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
6.0033
Anisotropic B[2][2]
12.5216
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
-11.8615
RMS Deviations
Key
Refinement Restraint Deviation
f_bond_d
0.003
f_dihedral_angle_d
15.537
f_chiral_restr
0.041
f_plane_restr
0.002
f_angle_d
0.565
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
3475
Nucleic Acid Atoms
0
Heterogen Atoms
50
Solvent Atoms
74
Software
Software
Software Name
Purpose
Blu-Ice
data collection version: ice
PHENIX
model building version: (phenix.automr)
PHENIX
refinement version: (phenix.refine: 1.7.1_743)
HKL-2000
data reduction
HKL-2000
data scaling
PHENIX
phasing