X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 281.15
Details 0.2M sodium chloride, 20%(w/v) polyethylene glycol 6000, 0.1M Tris, 0.02%(w/v) sodium azide, pH 8, VAPOR DIFFUSION, SITTING DROP, temperature 281.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.9 α = 90
b = 130.85 β = 90
c = 138.07 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
AREA DETECTOR ADSC QUANTUM 210r -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.953688 AUSTRALIAN SYNCHROTRON MX1

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
3 94.98 95.5 -- 0.101 -- 3.0 27079 27079 -- -- --
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)
3.0 3.16 97.6 0.581 0.581 1.3 3.0 3985

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 3.0 37.94 -- 0.0 -- 27048 1350 94.54 -- 0.1948 0.192 0.2481 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 3.0 3.077 -- 95 1774 0.286 0.361 -- 96.94
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 81.971
Anisotropic B[1][1] -0.88
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.09
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.005
r_chiral_restr 0.073
r_dihedral_angle_4_deg 18.161
r_dihedral_angle_3_deg 16.9
r_dihedral_angle_2_deg 37.808
r_dihedral_angle_1_deg 4.99
r_angle_refined_deg 1.143
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10019
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 21

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
XSCALE Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 refinement
Phaser molecular replacement
SCALA version: 3.3.20 data reduction