X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 280.0
Details 25% (w/v) PEG 3350, 0.2 M ammonium acetate, 0.1 M Tris pH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.9 α = 90
b = 82.09 β = 90
c = 97.13 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
CCD MAR CCD 130 mm -- 2010-07-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97621 APS 21-ID-F

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
1.5 50 96.9 0.065 -- 41.833 8.3 -- 87642 -- -- --
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)
1.5 1.55 76.2 0.493 -- -- 4.1 6809

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
-- 1.5 25.0 -- 0.0 -- 83093 4380 97.16 -- 0.1891 0.1879 0.2116 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 1.5 1.539 -- 248 4705 0.277 0.303 -- 75.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.592
Anisotropic B[1][1] 1.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.44
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.262
r_dihedral_angle_3_deg 11.455
r_bond_refined_d 0.005
r_dihedral_angle_4_deg 13.52
r_dihedral_angle_1_deg 5.519
r_chiral_restr 0.128
r_gen_planes_refined 0.005
r_dihedral_angle_2_deg 33.084
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4076
Nucleic Acid Atoms 0
Heterogen Atoms 95
Solvent Atoms 527

Software

Software
Software Name Purpose
SCALEPACK data scaling
REFMAC refinement version: 5.7.0029
PDB_EXTRACT data extraction version: 3.15
DENZO data reduction
PHASER phasing