X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.9
Temperature 291.0
Details PEG 2000 (MME), sodium acetate, ammonium sulfate, pH 4.9, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.99 α = 90
b = 114.02 β = 90
c = 156.42 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH synchrotron 1998-12-10
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.08 SSRL BL7-1

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
2.2 14.98 99.0 0.043 -- -- 4.0 50685 50033 0.0 1.0 13.1
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)
2.2 2.3 99.0 0.143 -- -- 4.0 --

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 2.2 14.98 0.0 0.0 50033 50033 5042 97.2 -- -- 0.248 0.293 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 2.2 2.34 5724 816 6929 0.268 0.327 0.011 91.1
X Ray Diffraction 2.3 2.42 6148 596 5552 0.27 0.269 0.011 96.4
X Ray Diffraction 2.42 2.57 6185 650 5535 0.278 0.277 0.011 97.1
X Ray Diffraction 2.57 2.77 6231 608 5623 0.275 0.273 0.011 97.7
X Ray Diffraction 2.77 3.05 6271 597 5674 0.282 0.281 0.012 98.3
X Ray Diffraction 3.05 3.48 6395 670 5725 0.278 0.282 0.011 99.0
X Ray Diffraction 3.48 4.37 6443 649 5794 0.222 0.226 0.009 99.3
X Ray Diffraction 4.37 14.98 6636 669 5967 0.199 0.195 0.008 98.7
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.55
Anisotropic B[1][1] 6.69
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.69
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.73
x_torsion_deg 23.9
x_angle_deg 1.3
x_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.21
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.31
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6908
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 128

Software

Computing
Computing Package Purpose
DENZO 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