X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 23.0
Details Hepes, Citrate, Jeffamine M-600, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 23K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.9 α = 90
b = 92.71 β = 90
c = 97.2 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 1999-12-22
Diffraction Radiation
Monochromator Protocol
Si(111) double crystal MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B 1.41097,1.38035,1.37957,1.3495 APS 5ID-B

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
2.1 30 98.1 0.055 -- -- 13.7 570947 41643 3.0 3.0 23.3
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)
2.1 2.18 0.98 0.18 -- -- 4.0 --

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 2.1 29.26 0.0 0.0 92597 87277 8539 94.4 0.215 0.215 0.215 0.247 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 2.1 2.23 -- 1362 12340 0.26 0.305 0.008 88.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 41.0
Anisotropic B[1][1] 5.3
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.1
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 3.59
c_angle_deg 1.4
c_scangle_it 8.26
c_bond_d 0.006
c_mcangle_it 5.75
c_scbond_it 5.84
c_dihedral_angle_d 28.3
c_improper_angle_d 0.71
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.21
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.33
Luzzati Sigma A (R-Free Set) 0.26
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5104
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 248

Software

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