X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details PROTEIN WAS CRYSTALLIZED IN THE HANGING DROP VAPOR DIFFUSION METHOD. THE RESERVOIR SOLUTION CONTAINED 16% PEG8000 IN 25MM MES BUFFER, PH6.5. THE HANGING DROP WAS A 1:1 MIXTURE OF THE RESERVOIR SOLUTION AND THE PROTEIN SOLUTION WHICH CONTAINED 10MG/ML PROTEIN IN 25MM MES BUFFER, PH6.5.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.57 α = 82.09
b = 62.97 β = 76.47
c = 74.56 γ = 77.78
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC MIRRORS 1997-12
Diffraction Radiation
Monochromator Protocol
NI FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 -- -- --

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
2.8 30 99.2 0.11 -- -- 7.0 -- 21030 -- 0.0 45.5
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)
2.8 2.9 98.6 0.32 -- 4.2 3.0 --

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
MOLECULAR REPLACEMENT 2.8 15.0 -- 0.0 -- 18619 2102 99.0 -- 0.274 0.26 0.315 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.2
RMS Deviations
Key Refinement Restraint Deviation
p_singtor_nbd 0.189
p_special_tor 0.0
p_planar_d 0.073
p_plane_restr 0.0203
p_scangle_it 1.526
p_chiral_restr 0.105
p_mcbond_it 0.811
p_mcangle_it 1.006
p_planar_tor 7.4
p_transverse_tor 26.2
p_staggered_tor 20.1
p_bond_d 0.01
p_scbond_it 1.046
p_angle_d 0.045
p_xyhbond_nbd 0.228
p_multtor_nbd 0.271
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6311
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE, CCP4 Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
DENZO data collection
AMORE version: IN CCP4 model building
SCALEPACK data reduction
REFMAC refinement