X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 289.0
Details HANGING-DROP VAPOR DIFFUSION METHOD WAS USED AT 289K BY MIXING THE PROTEIN SOLUTION CONTAINING 25-30MG/ML OF THE CI47 COMPLEX WITH A RESERVOIR SOLUTION CONTAINING 1.5M SODIUM CITRATE, 0.1M TRIS-HCL, PH 8.0, 15% TREHALOSE., vapor diffusion - hanging drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.9 α = 90
b = 46.9 β = 90
c = 152.3 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate -- 1997-06
Diffraction Radiation
Monochromator Protocol
MONOCHROMATOR --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 -- ESRF BM14

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
2.3 25 96.3 0.05 0.05 -- 4.5 -- 8870 -- 0.0 45.0
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)
2.3 2.4 94.0 0.3 -- 2.3 4.3 --

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
SIR/MAD 2.3 10.0 -- 0.0 -- 8736 591 96.2 -- 0.222 0.222 0.325 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 2.4 -- 58 1000 0.337 0.389 -- 95.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 41.0
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 8.0
x_scbond_it 4.6
x_mcangle_it 6.6
x_mcbond_it 4.9
x_improper_angle_d 0.72
x_bond_d 0.01
x_angle_deg 1.28
x_dihedral_angle_d 24.8
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Sigma A (Observed) 0.28
Luzzati Resolution Cutoff (Low) 6.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1502
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 89

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR 3.1 Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
X-PLOR version: 3.1 model building