X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.5
Temperature 291.0
Details PEG 4000,PEG 200, Hepes, pH 7.5, vapor diffusion, macro seeding, temperature 291K, VAPOR DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 98.69 α = 90
b = 71.08 β = 91.93
c = 79.16 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 103
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- 1998-03-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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
2.8 30 82.5 0.066 -- -- 3.8 13499 11228 3.0 -- 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)
2.8 2.9 -- 0.246 -- -- -- --

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
-- 2.8 30.0 -- 3.0 -- 12430 1204 91.3 -- 0.256 0.256 0.298 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 2.8 2.98 -- 144 1578 0.307 0.309 0.026 77.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 51.1
Anisotropic B[1][1] -3.87
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 5.42
Anisotropic B[2][2] 9.82
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.95
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 1.81
c_bond_d 0.017
c_angle_deg 2.4
c_dihedral_angle_d 30.5
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.39
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.46
Luzzati Sigma A (R-Free Set) 0.43
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3245
Nucleic Acid Atoms 960
Heterogen Atoms 0
Solvent Atoms 39

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHARP Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS version: 0.5 refinement
SHARP model building
SCALEPACK data reduction
DENZO data collection