X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.5
Details HANGING DROP VAPOUR DIFFUSION DROP SIZE: 1 + 1 UL PROTEIN SOLUTION: 12 MG/ML ENDOVII, 175 MM NACL, 20 MM MGCL2, 2 MM ZNCL2, 10 MM 2-MERCAPTO-ETHANOL, 10 % GLYCEROL, 10 MM MOPS PH6 WELL: 16-18% PEG5KMME, 200 MM AMMONIUM SULPHATE, 10 MM 2-MERCAPTO-ETHANOL, 100 MM TRIS PH 4.5, ~1 MM SODIUM AZIDE, 20 MM MAGNESIUM ACETATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.24 α = 90
b = 35.83 β = 103.93
c = 91.93 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 1998-04-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- 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
1.32 27 96.5 -- 0.06 -- 2.99 -- 81068 -- -- 17.3
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)
1.32 1.37 88.9 -- 0.301 2.3 -- --

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
MIRAS 1.32 35.0 -- 0.0 -- 83878 4207 96.5 -- 0.145 0.146 0.186 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.0
RMS Deviations
Key Refinement Restraint Deviation
p_angle_d 0.019
p_planar_d 0.025
p_chiral_restr 0.091
p_hb_or_metal_coord 0.119
p_bond_d 0.01
p_plane_restr 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2544
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 428

Software

Software
Software Name Purpose
REFMAC refinement
DENZO data reduction
SCALEPACK data scaling
SHARP phasing