X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 20% PEG 4000, 125 mM NaCl, 175 mM Na2(SO4), 100 mM Na cacodylate, 4 mM Kainic acid, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.55 α = 90
b = 70.55 β = 90
c = 234.46 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2007-12-14
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SI-220 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.00000 APS 22-ID

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
1.72 40 100.0 0.07 -- -- 9.6 64353 64353 0.0 0.0 21.38
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)
1.72 1.78 100.0 0.498 -- 5.1 9.6 --

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
FOURIER SYNTHESIS 1.72 37.99 0.0 0.0 60936 60936 3258 99.92 0.16732 0.16732 0.16562 0.19836 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 1.72 1.763 -- 234 4385 0.184 0.25 -- 99.35
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.492
Anisotropic B[1][1] 0.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.53
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.869
r_angle_refined_deg 1.789
r_mcbond_it 1.061
r_dihedral_angle_1_deg 5.83
r_scbond_it 3.057
r_dihedral_angle_3_deg 14.671
r_chiral_restr 0.143
r_dihedral_angle_2_deg 33.497
r_dihedral_angle_4_deg 17.698
r_scangle_it 4.863
r_bond_refined_d 0.019
r_gen_planes_refined 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4042
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 522

Software

Software
Software Name Purpose
REFMAC refinement version: 5.4.0066
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling