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 RU200H 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_angle_deg 1.3
c_improper_angle_d 0.787
c_bond_d 0.005
c_dihedral_angle_d 24.19
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement