X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details 1:1 v/v protein solution (10mg/mL protein, 0.3M NaCl, 10mM Na Hepes pH 7.5) with the screen solution (0.2M Sodium Sulphate, PEG3350 20%), VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.75 α = 90
b = 133.21 β = 90
c = 64.14 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD beryllium lenses 2009-02-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 0.97926 APS 21-ID-D

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
1.55 30 99.6 0.077 -- -- 14.8 51647 51647 -- -3.0 17.8
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)
1.55 1.58 98.7 0.59 -- 5.0 14.9 2506

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
SAD 1.55 30.0 -- 0.0 48985 48985 2628 99.56 0.1401 0.1401 0.13814 0.17739 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 1.549 1.589 3532 201 3532 0.162 0.205 -- 98.86
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Atomic Temperature Factors Refined Individually
Mean Isotropic B 11.614
Anisotropic B[1][1] 0.43
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.13
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 29.711
r_dihedral_angle_3_deg 10.146
r_gen_planes_refined 0.006
r_bond_refined_d 0.01
r_angle_refined_deg 1.32
r_mcbond_it 1.24
r_scbond_it 2.895
r_chiral_restr 0.091
r_scangle_it 4.436
r_bond_other_d 0.001
r_dihedral_angle_1_deg 3.971
r_angle_other_deg 0.801
r_mcangle_it 2.146
r_mcbond_other 0.365
r_dihedral_angle_4_deg 15.763
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2479
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 472

Software

Software
Software Name Purpose
Blu-Ice data collection version: Max
SHARP phasing
REFMAC refinement version: 5.5.0051
HKL-2000 data reduction
HKL-2000 data scaling