X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 1.3 M Li2SO4 100 mM Tris pH=8.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.07 α = 90
b = 70.07 β = 90
c = 215.4 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-08-14
Diffraction Radiation
Monochromator Protocol
Double flat crystal, Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 0.95689 ALS 8.3.1

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
2.9 107.83 100.0 0.079 -- -- 8.6 12704 12704 3.0 2.0 70.333
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)
2.9 3.06 100.0 0.385 -- 7.6 8.7 1789

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 2.9 66.67 -- -- 12022 12022 615 100.0 0.22204 0.22204 0.2193 0.27916 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 2.9 2.975 -- 58 828 0.298 0.355 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 55.101
Anisotropic B[1][1] 0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.13
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.227
r_dihedral_angle_1_deg 5.857
r_dihedral_angle_2_deg 39.733
r_scangle_it 1.909
r_nbtor_refined 0.311
r_gen_planes_refined 0.003
r_mcangle_it 0.816
r_scbond_it 1.15
r_symmetry_vdw_refined 0.2
r_symmetry_hbond_refined 0.241
r_xyhbond_nbd_refined 0.176
r_chiral_restr 0.088
r_bond_refined_d 0.01
r_angle_refined_deg 1.275
r_dihedral_angle_4_deg 12.216
r_mcbond_it 0.487
r_dihedral_angle_3_deg 19.359
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3067
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 52

Software

Computing
Computing Package Purpose
Blue-ICE Data Collection
MOSFLM Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
Blue-ICE data collection
SOLVE model building
REFMAC version: 5.2.0019 refinement