X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 295.5
Details 30% PEG 4000, 0.2 M ammonium sulfate, and 0.1 M sodium acetate at pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.37 α = 90
b = 61.69 β = 107.49
c = 71.14 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 173
2 173
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE -- -- 1999-06-01
IMAGE PLATE -- -- 1999-02-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 -- SSRL BL7-1
SYNCHROTRON SSRL BEAMLINE BL9-2 -- SSRL BL9-2
SYNCHROTRON SSRL BEAMLINE BL9-2 -- SSRL BL9-2
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
1.7 48 98.8 0.05 -- -- 8.0 48000 48000 0.0 0.0 15.4
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)
1.7 1.76 88.8 0.26 -- -- 3.0 4269

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
-- 1.7 48.27 -- 0.0 48516 46658 1858 96.0 0.22 0.22 0.22 0.24 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 1.7 1.81 -- 244 6724 0.251 0.276 0.018 86.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 21.4
Anisotropic B[1][1] 3.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.54
Anisotropic B[2][2] -2.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.19
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 1.5
c_dihedral_angle_d 23.6
c_improper_angle_d 3.1
c_mcbond_it 0.94
c_mcangle_it 1.66
c_bond_d 0.007
c_scangle_it 1.68
c_scbond_it 1.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.24
Luzzati Sigma A (R-Free Set) 0.17
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2810
Nucleic Acid Atoms 0
Heterogen Atoms 83
Solvent Atoms 297

Software

Software
Software Name Purpose
PHASES phasing
CNS refinement version: 0.9
DENZO data reduction
SCALEPACK data scaling