X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Details PROTEIN WAS CRYSTALLIZED IN THE HANGING DROP VAPOR DIFFUSION METHOD. THE RESERVOIR SOLUTION CONTAINED 12-16% PEG6000, 6% DIOXANE 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., vapor diffusion - hanging drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.09 α = 81.98
b = 62.89 β = 76.18
c = 74.68 γ = 77.86
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 1997-05-15
Diffraction Radiation
Monochromator Protocol
NI FILTER MONOCHROMATIC
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
2.5 30 90.9 0.083 -- -- 2.6 29804 29804 -- 0.0 23.42
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)
2.5 2.59 70.8 0.176 -- 6.5 1.8 --

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 2.5 30.0 -- 0.0 -- 27079 1363 82.6 0.26 0.26 0.255 0.304 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.06
Anisotropic B[1][1] -3.1
Anisotropic B[1][2] -5.34
Anisotropic B[1][3] -6.53
Anisotropic B[2][2] 0.535
Anisotropic B[2][3] 0.763
Anisotropic B[3][3] 2.564
RMS Deviations
Key Refinement Restraint Deviation
p_special_tor 0.0
p_transverse_tor 27.5
p_staggered_tor 16.7
p_planar_tor 1.7
p_xyhbond_nbd 0.126
p_multtor_nbd 0.262
p_bond_d 0.008
p_angle_d 0.026
p_planar_d 0.021
p_mcbond_it 2.292
p_mcangle_it 3.733
p_scbond_it 3.886
p_scangle_it 5.954
p_plane_restr 0.013
p_chiral_restr 0.098
p_singtor_nbd 0.176
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6320
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 50

Software

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