X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details HANGING DROP. PROTEIN SOLUTION: 35 MG/ML PROTEIN, 0.1 M CHES PH 8.5. WELL SOLUTION: 47% AMMONIUM SULFATE, 2% PEG 400. CRYSTALS CROSSLINKED WITH 0.05% GLUTARALDEHYDE. SOAKED IN 40% PEG 6000, 100 MM NAOAC, 100 MM 4-HYDROXY- LYSINE, PH 5.5.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.72 α = 90
b = 90.72 β = 90
c = 339.4 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1995-12-15
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 -- EMBL/DESY, Hamburg X11

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
2.17 20 86.8 -- 0.118 -- 3.3 -- 29191 -- 0.0 15.9
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)
2.17 2.25 71.0 -- 0.373 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 2.17 10.0 -- 2.0 -- 36655 1101 82.6 -- 0.199 0.199 0.252 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 2.17 2.2 -- -- 1312 0.34 0.35 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 22.03
Anisotropic B[1][1] -3.511
Anisotropic B[1][2] 1.806
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.511
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.021
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 23.8
c_mcbond_it 1.1
c_angle_deg 1.57
c_improper_angle_d 0.88
c_mcangle_it 1.73
c_scangle_it 2.58
c_bond_d 0.01
c_scbond_it 1.84
Coordinate Error
Parameter Value
Luzzati Resolution Cutoff (Low) 10.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4706
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 423

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS phasing version: 1.0
X-PLOR phasing version: 3.1
CNS refinement version: 1.0