X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 8.0
Details PEG 400, MgCl2, Dioxane, Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.4 α = 90
b = 127.4 β = 90
c = 91.8 γ = 120
Symmetry
Space Group P 31

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-02-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.93927 ESRF ID14-4

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
2.7 55 100.0 0.103 0.085 -- 3.0 45763 45796 1.0 1.0 68.3
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)
2.7 2.85 100.0 0.527 0.429 1.7 3.0 6724

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 2.7 55.17 -- 0.0 45796 45740 2233 99.9 0.35 0.35 0.345 0.363 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 2.7 2.87 -- 368 7303 0.451 0.413 0.022 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 61.5
Anisotropic B[1][1] -13.24
Anisotropic B[1][2] -9.16
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -13.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 26.48
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.92
c_scbond_it 3.29
c_mcangle_it 2.3
c_mcbond_it 1.53
c_improper_angle_d 0.92
c_bond_d 0.012
c_angle_deg 1.5
c_dihedral_angle_d 19.6
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.58
Luzzati Sigma A (Observed) 0.81
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.62
Luzzati Sigma A (R-Free Set) 0.7
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8219
Nucleic Acid Atoms 0
Heterogen Atoms 112
Solvent Atoms 0

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MOLREP Structure Solution
CNX 2002 Structure Refinement
Software
Software Name Purpose
CNX version: 2002 refinement