X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details Ammonium phosphate, Tris hydrochloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 30.12 α = 90
b = 45.65 β = 90
c = 68.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 115
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC mirrors 1997-11-26
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 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
1.9 25.14 96.9 0.042 -- -- 6.24 7650 7650 0.0 0.0 12.9
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)
1.9 1.93 88.3 0.138 -- 10.89 3.7 324

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 1.9 25.14 0.0 0.0 7884 7555 634 95.8 0.177 0.177 0.174 0.205 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 1.9 1.99 838 84 754 0.185 0.259 0.02 88.4
X Ray Diffraction 1.99 2.09 912 64 848 0.164 0.208 0.021 94.2
X Ray Diffraction 2.09 2.22 924 73 851 0.187 0.199 0.023 95.6
X Ray Diffraction 2.22 2.39 927 71 856 0.181 0.237 0.022 96.1
X Ray Diffraction 2.39 2.63 959 91 868 0.199 0.27 0.021 97.8
X Ray Diffraction 2.63 3.01 975 82 893 0.195 0.253 0.022 97.5
X Ray Diffraction 3.01 3.8 992 81 911 0.158 0.165 0.018 99.0
X Ray Diffraction 3.8 25.14 1028 88 940 0.162 0.165 0.017 97.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Overall
Mean Isotropic B 22.13
Anisotropic B[1][1] 3.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.52
RMS Deviations
Key Refinement Restraint Deviation
x_angle_deg 1.6
x_bond_d 0.005
x_dihedral_angle_d 25.3
x_improper_angle_d 1.16
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.18
Luzzati Sigma A (Observed) 0.08
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.22
Luzzati Sigma A (R-Free Set) 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 862
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 95

Software

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