X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.3
Temperature 298.0
Details PEG 3350, POTASSIUM PHOSPHATE, n-TETRADECYL-BETA-D-MALTOSIDE, SODIUM CHLORIDE , pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.82 α = 74.21
b = 79.87 β = 81.56
c = 117.15 γ = 68.49
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2008-11-01
CCD MARMOSAIC 225 mm CCD Be Lenses/Diamond Laue Mono 2008-11-01
Diffraction Radiation
Monochromator Protocol
Diamond [111] SINGLE WAVELENGTH
Kohzu SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
SYNCHROTRON APS BEAMLINE 21-ID-D 1.73892 APS 21-ID-D

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
1.89 30 97.8 0.06 -- -- 4.0 153658 150278 -- 3.0 --
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)
1.89 1.97 96.7 0.472 0.472 3.1 3.8 --

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
combination of MR and Fe-SAD 1.89 28.62 -- -- 146460 142726 7519 97.45 -- 0.19716 0.19522 0.23423 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 1.89 1.943 -- 477 9925 0.264 0.338 -- 91.68
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.415
Anisotropic B[1][1] 0.03
Anisotropic B[1][2] -0.2
Anisotropic B[1][3] 0.14
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] -0.01
Anisotropic B[3][3] 0.06
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.894
r_chiral_restr 0.149
r_dihedral_angle_1_deg 6.346
r_bond_refined_d 0.026
r_mcangle_it 2.196
r_scbond_it 3.583
r_mcbond_it 1.32
r_dihedral_angle_3_deg 15.951
r_dihedral_angle_2_deg 37.719
r_dihedral_angle_4_deg 20.034
r_scangle_it 5.553
r_gen_planes_refined 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14192
Nucleic Acid Atoms 0
Heterogen Atoms 172
Solvent Atoms 494

Software

Software
Software Name Purpose
HKL-2000 data collection
SOLVE phasing
REFMAC refinement version: 5.4.0061
HKL-2000 data reduction
HKL-2000 data scaling