X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 35% Tascimate, 0.1M Bis-Tris propane pH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 138.26 α = 90
b = 138.26 β = 90
c = 111.39 γ = 90
Symmetry
Space Group I 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD Bruker DIP-6040 -- 2016-04-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 1 SPring-8 BL44XU

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
1.8 30 99.9 0.048 -- -- 11.1 -- 49996 -- -- --
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)
1.8 1.86 100.0 0.8 -- 2.7 10.7 --

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 1.8 30.0 -- -- -- 46666 2511 98.2 -- 0.16007 0.1589 0.18187 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 1.799 1.846 -- 131 2849 0.229 0.256 -- 81.11
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.616
Anisotropic B[1][1] -0.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.07
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 2.613
r_mcangle_it 3.697
r_angle_refined_deg 2.044
r_bond_other_d 0.001
r_mcangle_other 3.686
r_bond_refined_d 0.021
r_dihedral_angle_2_deg 29.791
r_dihedral_angle_1_deg 6.419
r_long_range_B_refined 7.922
r_long_range_B_other 7.921
r_scangle_other 6.42
r_angle_other_deg 0.941
r_dihedral_angle_4_deg 12.459
r_chiral_restr 0.128
r_gen_planes_other 0.001
r_mcbond_other 2.612
r_scbond_it 4.209
r_dihedral_angle_3_deg 13.812
r_gen_planes_refined 0.01
r_scbond_other 4.208
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2470
Nucleic Acid Atoms 0
Heterogen Atoms 55
Solvent Atoms 288

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0218
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing