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_staggered_tor 15.2
p_planar_tor 5.5
p_xyhbond_nbd 0.177
p_multtor_nbd 0.268
p_bond_d 0.027
p_angle_d 0.032
p_planar_d 0.024
p_mcbond_it 1.955
p_mcangle_it 2.94
p_scbond_it 2.092
p_scangle_it 3.301
p_chiral_restr 0.157
p_singtor_nbd 0.177
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SHARP Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
SHARP model building
SCALA data reduction
XDS data collection