X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.2
Details HANGING DROP VAPOUR DIFFUSION 1 + 1 UL OF PROTEIN SOLUTION: 16 MG/ML ENDOVII, 175 MM NACL, 20 MM MGCL2, 2 MM ZNCL2, 10 MM 2-MERCAPTO-ETHANOL, 10 % GLYCEROL, 10 MM MOPS PH6.5; WELL: 16-18% PEG 5000 MME, 200 MM CACL2, 20 MM AMMONIUM SULPHATE, 10 MM 2-MERCAPTO-ETHANOL, 100 MM TRIS PH 8.2, ~ 1 MM SODIUM AZIDE, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 144.99 α = 90
b = 39.45 β = 106.2
c = 75.75 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH NI COATED MIRRORS 1998-04-15
Diffraction Radiation
Monochromator Protocol
NI COATED MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ENRAF-NONIUS -- -- --

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
2.33 44.28 99.4 -- 0.06 -- 3.8 -- 17578 -- -- 36.81
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)
2.33 2.46 99.3 -- 0.253 3.0 3.7 --

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
SIRAS 2.4 10.0 -- 0.0 15326 15326 828 99.5 -- -- 0.2395 0.308 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.84
RMS Deviations
Key Refinement Restraint Deviation
p_transverse_tor 32.5
p_planar_tor 5.5
p_angle_d 0.032
p_scbond_it 2.092
p_xyhbond_nbd 0.177
p_scangle_it 3.301
p_mcangle_it 2.94
p_chiral_restr 0.157
p_multtor_nbd 0.268
p_singtor_nbd 0.177
p_planar_d 0.024
p_bond_d 0.027
p_mcbond_it 1.955
p_staggered_tor 15.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2544
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 73

Software

Software
Software Name Purpose
XDS data scaling
SCALA data scaling
SHARP phasing
REFMAC refinement
XDS data reduction
CCP4 data scaling version: (SCALA)