X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 295.5
Details NH4SO4, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 271.32 α = 90
b = 271.32 β = 90
c = 175.18 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 96
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH 58 cm long, Pt-coated, fused silica, vertical focus 1999-01-18
Diffraction Radiation
Monochromator Protocol
Cyclindrically bent triangular Si(111) asymmetric cut, horizontal focus SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 -- 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
2.7 29.65 94.4 -- 0.072 -- 2.9 -- 187712 -- -2.0 65.9
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)
2.7 2.75 95.5 -- 0.626 2.4 2.7 3113

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 29.65 -- 0.0 -- 61865 6302 91.7 -- 0.229 0.229 0.273 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 -- 1013 8615 0.352 0.381 0.012 86.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 90.1
Anisotropic B[1][1] 1.47
Anisotropic B[1][2] 7.87
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.94
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 21.03
c_scbond_it 15.11
c_mcangle_it 17.19
c_mcbond_it 11.25
c_improper_angle_d 0.89
c_bond_d 0.007
c_angle_deg 1.3
c_dihedral_angle_d 26.0
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.56
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.45
Luzzati Sigma A (R-Free Set) 0.61
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10355
Nucleic Acid Atoms 0
Heterogen Atoms 221
Solvent Atoms 71

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
CNS 0.9 Structure Refinement
Software
Software Name Purpose
CNS version: 0.9 refinement
AMORE model building
SCALEPACK data reduction
DENZO data collection