X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 298.0
Details 0.1 M Bis-Tris, pH 5.5, 1.1 M AMS, 50 mM NaCl, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.41 α = 90
b = 106.41 β = 90
c = 50.42 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2008-11-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 1 APS 19-BM

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
1.4 50 99.9 0.045 -- -- 10.0 -- 64180 -- -- --
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)
1.4 1.42 100.0 0.215 -- -- 8.3 3171

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 1.4 21.14 -- 0.0 -- 63914 3237 99.57 -- 0.172 0.171 0.19 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 1.4 1.436 -- 264 4424 0.24 0.278 -- 99.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.941
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.031
r_mcbond_it 1.268
r_dihedral_angle_1_deg 6.447
r_dihedral_angle_2_deg 38.351
r_chiral_restr 0.16
r_scangle_it 4.655
r_dihedral_angle_3_deg 11.502
r_dihedral_angle_4_deg 22.556
r_mcangle_it 2.083
r_angle_refined_deg 2.516
r_gen_planes_refined 0.016
r_scbond_it 3.153
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2166
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 249

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
HKL-3000 data collection
HKL-3000 data reduction
HKL-3000 data scaling