X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Liquid Diffusion
pH 8
Details CRYSTALLIZED ANAEROBICALLY USING LIQUID-LIQUID DIFFUSION TECHNIQUE. FINAL CONCENTRATIONS AFTER EQUILIBRATION WERE: 7% (W/V) PEG 6000, 0.4 - 0.6 M MGCL2, 50 MM TRIS-HCL PH 8, 3.3 MG/ML PROTEIN., pH 8.0 PRIOR TO DATA COLLECTION THE CRYSTAL WAS INCUBATED FOR 24 HOURS IN CRYOPROTECTANT (MOTHER LIQUOR WITH 25% ETHYLENE GLYCOL) CONTAINING 10 MM SODIUM DITHIONITE (A REDUCTANT).

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 204.03 α = 90
b = 75.3 β = 122.61
c = 163.01 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 RH COATED SI MIRROR 1997-10-01
Diffraction Radiation
Monochromator Protocol
SI 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 -- SRS PX9.6

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
1.6 50 95.9 0.06 -- -- 4.1 -- 260359 -- -3.0 14.8
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)
1.6 1.63 96.4 0.171 -- 5.8 -- --

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 1.6 50.0 -- 0.0 -- 260359 13095 95.9 -- -- 0.156 0.199 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.79
RMS Deviations
Key Refinement Restraint Deviation
p_mcbond_it 1.701
p_singtor_nbd 0.169
p_staggered_tor 13.3
p_xyhbond_nbd 0.112
p_planar_d 0.034
p_scbond_it 3.033
p_angle_d 0.028
p_bond_d 0.014
p_transverse_tor 34.5
p_multtor_nbd 0.261
p_plane_restr 0.0273
p_mcangle_it 2.124
p_scangle_it 3.715
p_chiral_restr 0.118
p_planar_tor 5.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15528
Nucleic Acid Atoms 0
Heterogen Atoms 198
Solvent Atoms 2736

Software

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