X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 290.0
Details MD PACT SCEEN H12: 200MM NAMALONATE, 100M BISTRISPROPANE, 20% PEG 3350; protein at 27MG/ML, CRYO: 15% EDO, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, pH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 171.01 α = 90
b = 171.01 β = 90
c = 171.01 γ = 90
Symmetry
Space Group I 2 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 944+ -- 2009-05-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 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
1.75 50 99.6 0.053 -- -- 4.8 83314 83011 0.0 -3.0 16.1
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)
1.75 1.8 98.3 0.457 -- 2.1 2.3 5999

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 1.75 42.75 -- 0.0 82903 82903 4087 99.5 0.145 0.145 0.144 0.165 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 1.75 1.8 -- 299 5682 0.259 0.308 -- 98.16
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model TLS, isotropic
Mean Isotropic B 13.01
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.001
r_mcbond_it 0.875
r_mcbond_other 0.288
r_angle_refined_deg 1.506
r_mcangle_it 1.502
r_dihedral_angle_1_deg 5.325
r_scbond_it 2.402
r_dihedral_angle_3_deg 11.27
r_gen_planes_refined 0.008
r_chiral_restr 0.099
r_dihedral_angle_2_deg 38.613
r_scangle_it 3.711
r_dihedral_angle_4_deg 12.73
r_angle_other_deg 0.996
r_gen_planes_other 0.001
r_bond_refined_d 0.018
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4367
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 641

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
XDS data reduction
XSCALE data scaling