X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details PEG, pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 293.K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 328.5 α = 90
b = 328.5 β = 90
c = 54.4 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 1999-09-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
3.95 50 99.1 0.062 0.062 -- 4.1 -- 29784 -- 0.0 130.2
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)
3.95 4.02 98.7 0.333 0.333 2.9 3.0 --

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 3.95 7.0 -- 0.0 -- 23280 1144 94.3 -- 0.267 0.267 0.367 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 3.95 4.15 -- 188 3238 0.319 0.422 0.031 83.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model GROUP
Mean Isotropic B 78.8
Anisotropic B[1][1] -3.47
Anisotropic B[1][2] 22.77
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.95
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 1.12
c_bond_d 0.012
c_angle_deg 1.8
c_dihedral_angle_d 24.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.48
Luzzati Sigma A (Observed) 0.77
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.71
Luzzati Sigma A (R-Free Set) 1.1
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13448
Nucleic Acid Atoms 0
Heterogen Atoms 120
Solvent Atoms 0

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
CNS version: 1.0 refinement
AMORE model building