X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 293.0
Details 0.2M ammonium acetate, 0.1M Tris, 25% PEG3350, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.61 α = 90
b = 90.76 β = 97.82
c = 55.6 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6500 -- 2011-11-13
Diffraction Radiation
Monochromator Protocol
horizontal focusing mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPRING-8 BL44XU

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
2.3 50 95.4 0.049 0.049 -- 7.4 -- 17868 0.0 -3.0 --
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)
2.3 2.34 82.1 0.22 -- 5.72 6.8 782

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 2.3 38.28 -- 0.0 -- 16914 919 95.27 0.21025 0.21025 0.20658 0.27785 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 2.299 2.359 -- 63 1079 0.281 0.346 -- 82.22
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.048
Anisotropic B[1][1] -3.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.35
Anisotropic B[2][2] -3.68
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.25
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 2.702
r_mcbond_it 1.554
r_gen_planes_refined 0.017
r_chiral_restr 0.075
r_dihedral_angle_4_deg 23.239
r_dihedral_angle_3_deg 21.947
r_dihedral_angle_2_deg 37.912
r_dihedral_angle_1_deg 8.555
r_angle_refined_deg 1.053
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2156
Nucleic Acid Atoms 579
Heterogen Atoms 0
Solvent Atoms 92

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
MolREP Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
MolREP model building
HKL-2000 data collection