X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 10mM sodium citrate, 42% PEGMME2000, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.21 α = 90
b = 36.14 β = 110.69
c = 34.17 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2008-11-12
CCD ADSC QUANTUM 270 -- 2009-01-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
-- SAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.28221 Photon Factory AR-NW12A
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1 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
1.4 50 92.6 -- -- -- -- -- 14019 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)
1.4 1.45 79.5 -- -- -- -- --

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
SAD 1.41 31.97 -- -- 14019 13317 702 93.05 0.16052 0.16052 0.1588 0.19621 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 1.406 1.442 -- 52 856 0.167 0.182 -- 82.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.965
Anisotropic B[1][1] 0.58
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.46
Anisotropic B[2][2] -0.25
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.01
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.512
r_angle_other_deg 0.954
r_scangle_it 4.341
r_scbond_it 3.104
r_rigid_bond_restr 1.176
r_gen_planes_refined 0.007
r_mcbond_other 0.374
r_dihedral_angle_2_deg 30.248
r_dihedral_angle_4_deg 23.99
r_mcangle_it 1.913
r_bond_refined_d 0.014
r_bond_other_d 0.002
r_dihedral_angle_3_deg 11.245
r_chiral_restr 0.092
r_gen_planes_other 0.001
r_dihedral_angle_1_deg 5.55
r_mcbond_it 1.239
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 604
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 72

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
SHELXS phasing
REFMAC refinement version: 5.5.0102
HKL-2000 data reduction
HKL-2000 data scaling