X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 0.1M sodium phosphate pH7.0, 0.8M ammonium sulfate, 5% (v/v) glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.77 α = 90
b = 97.77 β = 90
c = 197.76 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2009-11-06
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0000 Photon Factory AR-NE3A

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 40 100.0 0.114 -- -- 15.3 43262 43256 0.0 0.0 35.6
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 2.37 100.0 0.704 -- 5.23 15.2 3509

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 40.0 -- 0.0 43262 41001 2176 99.81 0.18778 0.18778 0.18584 0.22583 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 2.303 2.363 2864 174 2864 0.229 0.28 -- 98.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.926
Anisotropic B[1][1] 1.59
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.59
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.17
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.875
r_dihedral_angle_2_deg 34.943
r_dihedral_angle_4_deg 17.186
r_bond_refined_d 0.02
r_angle_other_deg 0.879
r_bond_other_d 0.001
r_angle_refined_deg 1.946
r_dihedral_angle_3_deg 13.6
r_gen_planes_refined 0.011
r_gen_planes_other 0.001
r_chiral_restr 0.108
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3908
Nucleic Acid Atoms 0
Heterogen Atoms 126
Solvent Atoms 171

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
MOLREP phasing
REFMAC refinement version: 5.7.0029
HKL-2000 data reduction
HKL-2000 data scaling