X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 1 M sodium citrate tribasic and 0.1 M sodium cacodylate:HCl pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.38 α = 90
b = 113.94 β = 90
c = 128.36 γ = 90
Symmetry
Space Group I 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2017-03-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9795 PAL/PLS 5C (4A)

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
2.7 50 96.5 0.08 -- -- 5.4 -- 17614 -- -- --
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)
2.7 2.75 -- 0.419 -- -- -- --

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
-- 2.71 47.55 -- -- -- 16737 872 95.28 -- 0.21923 0.21667 0.2659 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 2.705 2.775 -- 47 1059 0.561 0.594 -- 81.56
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 85.595
Anisotropic B[1][1] -0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.07
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_refined 13.214
r_dihedral_angle_4_deg 13.97
r_mcangle_it 9.547
r_bond_other_d 0.002
r_dihedral_angle_1_deg 7.452
r_gen_planes_refined 0.007
r_chiral_restr 0.095
r_dihedral_angle_2_deg 35.386
r_mcbond_it 6.379
r_bond_refined_d 0.013
r_dihedral_angle_3_deg 18.189
r_mcbond_other 6.381
r_scbond_other 5.96
r_mcangle_other 9.545
r_angle_refined_deg 1.766
r_long_range_B_other 13.213
r_scangle_other 9.304
r_angle_other_deg 1.075
r_scbond_it 5.962
r_gen_planes_other 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3122
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 8

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0189
MxDC data collection
HKL-2000 data scaling