X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.0
Details 21% PEG 400, 150 mM CaCl2, 10% glycerol, 100 mM HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.57 α = 90
b = 91.57 β = 90
c = 232.54 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 315 -- 2008-06-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.0809 NSLS X29A

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
2.26 30 95.4 0.09 -- -- 10.3 47345 45176 -- -- --
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)
2.26 2.34 -- 0.43 -- -- 2.1 --

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 2.26 29.87 -- -- -- 42764 2273 95.4 -- 0.17721 0.17491 0.22141 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 2.26 2.32 -- 94 1954 0.238 0.344 -- 60.25
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.831
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.162
r_nbtor_refined 0.31
r_chiral_restr 0.269
r_dihedral_angle_4_deg 15.758
r_angle_refined_deg 1.83
r_scbond_it 2.76
r_scangle_it 4.29
r_symmetry_hbond_refined 0.184
r_mcbond_it 0.982
r_symmetry_vdw_refined 0.166
r_nbd_refined 0.226
r_dihedral_angle_1_deg 7.788
r_bond_refined_d 0.02
r_dihedral_angle_2_deg 36.578
r_dihedral_angle_3_deg 17.593
r_gen_planes_refined 0.008
r_mcangle_it 1.785
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6506
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 411

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
HKL-2000 data collection
DENZO data reduction
SCALA data scaling
MOLREP phasing