X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.5
Details 40% PEG400, 0.1M sodium acetate, pH 4.5, VAPOR DIFFUSION, SITTING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.92 α = 90
b = 103.92 β = 90
c = 251.96 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2006-03-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2

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 50 99.3 -- -- -- -- -- 35463 -- -- --
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 3.0 82.6 -- -- -- -- --

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 2.91 48.06 -- -- -- 33366 1762 100.0 -- 0.2258 0.22332 0.27338 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 2.909 2.984 -- 112 2194 0.314 0.382 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.644
Anisotropic B[1][1] 3.39
Anisotropic B[1][2] 1.7
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.09
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.192
r_mcbond_it 0.171
r_symmetry_vdw_refined 0.243
r_dihedral_angle_1_deg 5.006
r_nbtor_refined 0.297
r_nbd_refined 0.182
r_dihedral_angle_4_deg 14.73
r_chiral_restr 0.076
r_dihedral_angle_3_deg 18.268
r_mcangle_it 0.297
r_xyhbond_nbd_refined 0.107
r_gen_planes_refined 0.002
r_scangle_it 0.792
r_bond_refined_d 0.006
r_dihedral_angle_2_deg 39.836
r_scbond_it 0.451
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8044
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 28

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
HKL-2000 data reduction
HKL-2000 data scaling