X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 289.0
Details 12% PEG 3350, 0.12 M succinic acid, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 113.89 α = 90
b = 70.87 β = 129.52
c = 82.04 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD beryllium lens 2011-07-06
Diffraction Radiation
Monochromator Protocol
C(111) diamond laue monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 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
2.6 50 99.1 0.055 -- -- 4.1 15257 15257 0.0 -3.0 82.5
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)
2.6 2.64 93.6 0.43 -- 2.8 3.9 704

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 2.61 50.0 0.0 0.0 14489 14489 768 98.72 0.1875 0.1875 0.18486 0.23679 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 2.612 2.68 -- 41 995 0.355 0.477 -- 91.2
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 80.333
Anisotropic B[1][1] 4.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 5.3
Anisotropic B[2][2] -2.55
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.7
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.096
r_gen_planes_other 0.005
r_angle_refined_deg 1.79
r_dihedral_angle_4_deg 19.956
r_dihedral_angle_1_deg 5.455
r_bond_refined_d 0.017
r_gen_planes_refined 0.009
r_dihedral_angle_2_deg 35.034
r_dihedral_angle_3_deg 16.942
r_angle_other_deg 1.179
r_bond_other_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2245
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 30

Software

Software
Software Name Purpose
BLU-MAX data collection
HKL-3000 phasing
MOLREP phasing
REFMAC refinement version: 5.6.0117
Coot model building
HKL-3000 data reduction
HKL-3000 data scaling