X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 10% PEG 10000, 0.1M HEPES , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.75 α = 90
b = 108.02 β = 90
c = 271.07 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 MAR scanner 345 mm plate -- 2000-07-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.5450 LNLS D03B-MX1

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
2.1 22.21 99.6 0.111 -- -- 4.8 138847 138362 0.0 0.0 15.5
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)
2.1 2.23 99.4 0.399 -- -- -- --

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 2.1 22.21 -- 0.0 138843 138362 6914 99.7 -- -- 0.197 0.237 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 2.1 2.23 17030 1183 21552 0.233 0.28 0.008 99.4
X Ray Diffraction 2.2 2.31 17123 829 16294 0.225 0.224 0.008 99.4
X Ray Diffraction 2.31 2.46 17161 805 16356 0.211 0.212 0.007 99.4
X Ray Diffraction 2.46 2.64 17159 867 16292 0.213 0.213 0.007 99.7
X Ray Diffraction 2.64 2.91 17241 873 16368 0.213 0.213 0.007 99.8
X Ray Diffraction 2.91 3.33 17343 847 16496 0.208 0.209 0.007 99.9
X Ray Diffraction 3.33 4.19 17452 873 16579 0.181 0.183 0.006 99.9
X Ray Diffraction 4.19 22.21 17853 910 16943 0.17 0.168 0.006 99.3
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.8
Anisotropic B[1][1] -1.9
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 9.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.97
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 0.92
x_dihedral_angle_d 21.6
x_torsion_impr_deg 0.92
x_torsion_deg 21.6
x_angle_deg 1.3
x_bond_d 0.008
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.23
Luzzati Sigma A (Observed) 0.18
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.29
Luzzati Sigma A (R-Free Set) 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17748
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 1289

Software

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