X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details PEG 1500, HEPES, sodium chloride, Glycerol, DTT, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.33 α = 90
b = 181.48 β = 90
c = 51.49 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 mirror 2002-02-13
Diffraction Radiation
Monochromator Protocol
double crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97910, 0.97921, 0.954 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 50 99.1 0.109 -- -- 10.2 46201 46201 -- 0.0 15.2
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)
2.0 2.07 98.5 0.502 -- 3.7 9.5 4499

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
MAD 2.0 40.69 -- 0.0 43940 43940 4346 95.2 0.216 0.216 0.212 0.245 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 2.0 2.13 6963 672 6291 0.285 0.31 0.012 92.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 31.3
Anisotropic B[1][1] -11.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.32
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 16.69
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 4.7
c_scbond_it 3.33
c_mcangle_it 2.53
c_mcbond_it 1.67
c_improper_angle_d 0.81
c_bond_d 0.006
c_angle_deg 1.3
c_dihedral_angle_d 21.0
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.29
Luzzati Sigma A (R-Free Set) 0.28
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4844
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 330

Software

Computing
Computing Package Purpose
D*treck Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
Solve/resolve Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
Solve/resolve model building
SCALEPACK data reduction
D*treck data collection