X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details PEG 6000, MPD, Tris, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.9 α = 90
b = 110.01 β = 90
c = 138.47 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Osmic focussing optics (mirrors) 2000-04-25
Diffraction Radiation
Monochromator Protocol
Osmic mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.54189 -- --

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
1.87 69.24 99.7 0.078 -- -- 6.9 87633 87633 0.0 0.0 13.8
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)
1.87 1.91 96.9 0.452 -- 3.8 5.6 5601

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 1.87 69.24 1.0 1.0 87654 84829 4286 96.8 -- -- 0.181 0.209 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 1.87 1.96 9907 506 9401 0.225 0.255 0.01 91.3
X Ray Diffraction 1.96 2.06 10383 509 9874 0.185 0.209 0.008 95.7
X Ray Diffraction 2.06 2.19 10442 497 9945 0.188 0.218 0.008 96.3
X Ray Diffraction 2.19 2.36 10578 543 10035 0.184 0.222 0.008 97.0
X Ray Diffraction 2.36 2.59 10633 560 10073 0.183 0.22 0.008 97.5
X Ray Diffraction 2.59 2.97 10762 543 10219 0.187 0.219 0.008 98.2
X Ray Diffraction 2.97 3.74 10914 542 10372 0.179 0.196 0.008 99.0
X Ray Diffraction 3.74 69.24 11210 586 10624 0.165 0.192 0.007 98.2
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.44
Anisotropic B[1][1] -0.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.12
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.43
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.787
c_bond_d 0.005
c_dihedral_angle_d 24.19
c_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.18
Luzzati Sigma A (Observed) 0.11
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.21
Luzzati Sigma A (R-Free Set) 0.14
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8181
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 985

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling
CNS phasing