X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 283.0
Details PEG MME 5000, MES buffer, ammonium sulfate, pH 6.3, VAPOR DIFFUSION, SITTING DROP at 283K, pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.4 α = 90
b = 53.1 β = 90
c = 64.7 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 ADSC QUANTUM 1 BENT CYLINDRICAL: SI-MIRROR (RH COATING) 1998-04-10
Diffraction Radiation
Monochromator Protocol
SI(111) DOUBLE-CRYSTAL: MONOCHROMATOR MULTIPLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-D 0.9537,1.742,1.737 APS 14-BM-D

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
1.6 26 98.9 0.068 -- -- 4.95 -- 34971 -- 0.0 14.5
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)
1.6 1.66 97.6 0.412 -- 2.2 4.91 --

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
FE MAD 1.6 26.0 -- 0.0 -- 34933 1761 98.7 -- 0.18 0.18 0.2 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 1.6 1.7 -- 285 5333 0.225 0.234 0.014 96.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 18.6
Anisotropic B[1][1] -4.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.65
c_scbond_it 2.45
c_mcangle_it 2.29
c_mcbond_it 1.58
c_improper_angle_d 1.07
c_bond_d 0.011
c_angle_deg 1.96
c_dihedral_angle_d 27.2
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Luzzati Sigma A (Observed) 0.1
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.19
Luzzati Sigma A (R-Free Set) 0.1
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1674
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 314

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
MLPHARE model building