X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 277.0
Details PEG/Ion solution No. 23 (0.2M ammonium formate and 20%(w/v) polyethylene glycol 3,350)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.42 α = 90
b = 83.38 β = 90
c = 121.64 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ -- 2014-05-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178 -- --

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
2.1 50 99.55 0.542 0.063 -- 12.7 -- 27016 -- -- --
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)
2.103 2.157 99.55 0.542 0.063 30.971 4.5 --

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 2.1 50.0 -- -- -- 27016 1404 98.55 -- 0.21533 0.2133 0.25521 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 2.103 2.157 -- 126 1946 0.257 0.286 -- 98.95
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.479
Anisotropic B[1][1] -3.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.71
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.634
r_bond_refined_d 0.005
r_rigid_bond_restr 1.044
r_dihedral_angle_3_deg 13.448
r_dihedral_angle_4_deg 13.682
r_sphericity_free 27.6
r_mcbond_it 1.33
r_sphericity_bonded 11.659
r_dihedral_angle_2_deg 34.479
r_long_range_B_refined 2.841
r_angle_refined_deg 0.919
r_dihedral_angle_1_deg 5.296
r_scbond_it 1.728
r_gen_planes_refined 0.003
r_chiral_restr 0.067
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3135
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 211

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0073
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing