X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Liquid Diffusion
Temperature 273.0
Details COUNTER DIFFUSION, temperature 273K, LIQUID DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 129.95 α = 90
b = 129.95 β = 90
c = 67.81 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE mirrors 2010-12-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.8 SPRING-8 BL41XU

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
1.52 30 97.0 0.057 0.057 -- 7.4 -- 86831 -- 45.4 --
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)
1.52 1.53 92.9 0.404 0.404 1.9 2.1 --

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 1.55 16.0 -- -- -- 77911 4120 97.22 -- 0.16031 0.15784 0.20686 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 1.55 1.59 -- 269 5178 0.322 0.344 -- 93.48
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.954
Anisotropic B[1][1] -0.21
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.21
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.41
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 19.298
r_bond_refined_d 0.006
r_bond_other_d 0.005
r_angle_refined_deg 1.102
r_angle_other_deg 0.498
r_dihedral_angle_1_deg 5.237
r_dihedral_angle_2_deg 35.503
r_dihedral_angle_3_deg 13.384
r_dihedral_angle_4_deg 16.276
r_chiral_restr 0.074
r_gen_planes_refined 0.004
r_rigid_bond_restr 2.373
r_sphericity_free 33.753
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3306
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 444

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement
PHASER model building
HKL-2000 data collection