X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.2
Temperature 293.0
Details 4-8 microlitre drops consisting of equal volumes of protein solution (20 mM sodium potassium phosphate buffer, pH 7.0, and protein at concentration of 10 mg/mL) and reservoir solution (0.2 M ammonium sulphate, 25% w/v polyethylene glycol 4000, 0.1M sodium acetate trihydrate, pH 6.2), VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.37 α = 90
b = 58.37 β = 90
c = 111.79 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 -- 2008-05-09
Diffraction Radiation
Monochromator Protocol
osmic mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE MACSCIENCE 1.5418 -- --

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
2.5 55.9 95.2 -- -- -- -- 10154 10154 0.0 0.0 --
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)
2.5 2.6 80.8 -- -- -- -- --

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
FOURIER SYNTHESIS 2.5 55.9 -- -- 10154 9645 480 95.2 -- 0.17068 0.16701 0.24492 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 2.495 2.56 -- 26 598 0.207 0.379 -- 80.52
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.616
Anisotropic B[1][1] 1.96
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.6
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.64
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_refined 0.319
r_chiral_restr 0.072
r_dihedral_angle_1_deg 13.181
r_dihedral_angle_2_deg 34.865
r_nbd_refined 0.223
r_scbond_it 4.671
r_bond_refined_d 0.008
r_mcbond_it 1.685
r_angle_refined_deg 1.152
r_symmetry_vdw_refined 0.202
r_mcangle_it 3.147
r_dihedral_angle_4_deg 15.692
r_symmetry_hbond_refined 0.183
r_scangle_it 7.358
r_dihedral_angle_3_deg 15.266
r_gen_planes_refined 0.004
r_xyhbond_nbd_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2064
Nucleic Acid Atoms 0
Heterogen Atoms 46
Solvent Atoms 66

Software

Software
Software Name Purpose
PROTEUM PLUS data collection version: PLUS
REFMAC refinement version: 5.2.0019
SAINT data reduction
SCALA data scaling