X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 287.0
Details 15%(w/v) PEG4000, 0.1M Tris, pH8.5, 0.2M MgCl2, 0.3M Dimethylethyl-(3-Sulfopropyl)-ammonium, pH7.5, VAPOR DIFFUSION, SITTING DROP, temperature 287K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.04 α = 90
b = 83.04 β = 90
c = 97.6 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 270 -- 2008-05-23
Diffraction Radiation
Monochromator Protocol
flat Si(111) crystals SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1.00000 Photon Factory BL-17A

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 50 99.9 -- -- -- -- -- 23816 1.0 1.0 --
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)
2.0 2.1 99.9 -- -- -- -- --

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 2.0 38.21 -- 0.0 22572 22572 1217 99.92 0.19932 0.19932 0.19584 0.26486 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 1.998 2.05 -- 83 1623 0.211 0.287 -- 99.88
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.893
Anisotropic B[1][1] -0.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.17
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.022
r_gen_planes_refined 0.009
r_nbd_refined 0.247
r_symmetry_vdw_refined 0.243
r_xyhbond_nbd_refined 0.193
r_sphericity_free 10.371
r_scbond_it 3.935
r_dihedral_angle_1_deg 6.996
r_dihedral_angle_4_deg 20.097
r_symmetry_hbond_refined 0.232
r_rigid_bond_restr 2.834
r_dihedral_angle_3_deg 19.717
r_mcbond_it 1.814
r_sphericity_bonded 5.027
r_angle_refined_deg 2.002
r_dihedral_angle_2_deg 36.137
r_nbtor_refined 0.311
r_chiral_restr 0.176
r_scangle_it 5.682
r_mcangle_it 2.686
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2582
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 142

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling
PHASES phasing