X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8.6
Temperature 295.0
Details PEG, pH 8.6, VAPOR DIFFUSION, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 125.31 α = 90
b = 125.31 β = 90
c = 87.48 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- --
CCD ADSC QUANTUM 4 -- --
Diffraction Radiation
Monochromator Protocol
Si 111 Channel MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 1.0 APS 14-BM-C
SYNCHROTRON NSLS BEAMLINE X4A 0.97 NSLS X4A

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
2.9 50 78.5 0.094 0.094 -- 4.7 15869 12451 2.0 2.0 42.2
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)
2.9 2.97 25.5 0.31 0.31 1.3 1.5 1014

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 2.9 31.33 0.0 0.0 11841 11841 1209 74.2 0.257 0.257 0.257 0.323 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 2.9 3.08 -- 73 469 0.451 0.447 0.052 21.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 47.9
Anisotropic B[1][1] 9.68
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 9.68
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -19.35
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.008
c_dihedral_angle_d 21.9
c_improper_angle_d 0.83
c_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.53
Luzzati Sigma A (Observed) 0.9
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.67
Luzzati Sigma A (R-Free Set) 0.95
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3641
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 0

Software

Computing
Computing Package Purpose
CAD4, DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
denzo data reduction
CNS model building
CNS version: 1.0 refinement
CAD4 data collection