X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Details SITTING DROP, 80 UL OF PROTEIN SOLUTION (10 MG/ML PROTEIN IN 50 MM TRIS*HCL,PH:8.0, 50 MM NACL, 75 MM LI2SO4, 12.5 % PEG 3350) EQUILIBRATED AGAINST 30 ML RESERVOIR SOLUTION (50 MM TRIS*HCL, PH:8.0, 50 MM NACL, 150 MM LI2SO4, 25 % PEG3350), vapor diffusion - sitting drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.54 α = 96.06
b = 49.01 β = 99.11
c = 65.01 γ = 91.14
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD PRINCETON 2K -- 1996-03
Diffraction Radiation
Monochromator Protocol
-- --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 -- CHESS F1

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
2.35 60 96.4 0.075 -- -- 3.0 -- 20678 -- -- 35.1
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)
2.35 2.4 90.6 -- 0.07 -- 2.0 --

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 2.35 10.0 -- -- -- 20156 1953 95.2 -- 0.191 0.191 0.278 THIN RESOLUTION SHELLS
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 2.35 2.4 -- 125 969 0.299 0.356 0.031 78.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 34.9
Anisotropic B[1][1] 2.65
Anisotropic B[1][2] 6.3
Anisotropic B[1][3] -8.5
Anisotropic B[2][2] 4.56
Anisotropic B[2][3] 7.94
Anisotropic B[3][3] -7.21
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 7.4
x_scbond_it 4.8
x_mcangle_it 3.1
x_mcbond_it 1.8
x_improper_angle_d 1.5
x_bond_d 0.012
x_angle_deg 1.617
x_dihedral_angle_d 26.6
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Luzzati Sigma A (Observed) 0.25
Luzzati Resolution Cutoff (Low) 10.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3175
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 231

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR 3.851 Structure Solution
X-PLOR 3.851 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.851 refinement
X-PLOR version: 3.851 model building
SCALEPACK data reduction
DENZO data collection