X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details pH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 109.35 α = 90
b = 109.35 β = 90
c = 190.68 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU MIRROR 1998-03-15
Diffraction Radiation
Monochromator Protocol
SI MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9761, 0.9794, 0.9792, 1.1390 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 41.3 95.7 0.065 -- -- 3.1 17817 17817 -- 0.0 47.8
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 3.0 97.6 0.318 -- 5.2 3.1 --

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 2.3 20.0 -- 0.0 18903 18903 1861 95.6 -- 0.281 0.281 0.284 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 2.3 2.44 -- 295 2841 0.426 0.399 0.023 96.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 76.2
Anisotropic B[1][1] -10.0
Anisotropic B[1][2] 0.08
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -10.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 20.09
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 0.73
c_scbond_it 0.48
c_mcangle_it 0.8
c_mcbond_it 0.44
c_improper_angle_d 1.93
c_bond_d 0.01
c_angle_deg 1.4
c_dihedral_angle_d 20.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.47
Luzzati Sigma A (Observed) 0.58
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.49
Luzzati Sigma A (R-Free Set) 0.52
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 775
Nucleic Acid Atoms 1532
Heterogen Atoms 13
Solvent Atoms 19

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE, SHARP Structure Solution
CNS 0.3 Structure Refinement
Software
Software Name Purpose
CNS version: 0.3 refinement
SHARP model building
SOLVE model building