X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 297.0
Details 50 mM MgCl2, 100 mM HEPES, 6% PEG5000 mme, 19.5 mM HECAMEG, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.83 α = 90
b = 79.83 β = 90
c = 280.22 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-03-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97915 SSRF BL17U

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
3.05 50 97.9 0.12 -- -- 6.4 6908 6763 0.0 0.0 --
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)
3.05 3.1 100.0 0.248 -- 3.5 6.4 325

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 3.05 50.0 -- 3.0 6582 6421 322 97.55 -- 0.24381 0.24051 0.31031 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 3.048 3.127 470 21 470 0.283 0.268 -- 98.59
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 96.194
Anisotropic B[1][1] -4.47
Anisotropic B[1][2] -2.23
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -4.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.7
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.928
r_bond_refined_d 0.01
r_angle_refined_deg 1.338
r_dihedral_angle_1_deg 6.781
r_chiral_restr 0.106
r_dihedral_angle_3_deg 20.091
r_gen_planes_refined 0.006
r_dihedral_angle_2_deg 34.186
r_scbond_it 1.076
r_mcangle_it 0.803
r_dihedral_angle_4_deg 9.245
r_mcbond_it 0.412
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1603
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 2

Software

Software
Software Name Purpose
Blu-Ice data collection
PHENIX model building
REFMAC refinement version: 5.5.0109
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing