X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details PEG 4000, potassium phosphate, HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.4 α = 90
b = 89.4 β = 90
c = 163.7 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 263
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1996-09-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.888 EMBL/DESY, Hamburg BW7B

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
3 40 85.5 0.071 -- -- 4.8 13156 13156 0.0 0.0 76.0
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)
3.0 3.05 90.3 0.31 -- -- 4.1 --

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
MIR 3.0 40.0 0.0 0.0 13156 13156 685 85.5 -- -- 0.223 0.27 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 3.0 3.08 1224 48 1028 0.3199 0.331 -- --
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -10.119
Anisotropic B[1][2] -8.932
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -10.119
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 20.239
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.354
c_angle_deg 1.4254
c_mcangle_it 1.445
c_bond_d 0.0075
c_mcbond_it 1.137
c_scbond_it 1.99
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.35
Luzzati Resolution Cutoff (Low) 6.0
Luzzati ESD (R-Free Set) 0.45
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3198
Nucleic Acid Atoms 0
Heterogen Atoms 42
Solvent Atoms 2

Software

Software
Software Name Purpose
CCP4 model building
CNS refinement
DENZO data reduction
SCALEPACK data scaling
CCP4 phasing