X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging or Sitting Drop
pH 6
Temperature 285.0
Details MES 50mM PH6.0, PEG MME 550 32% AT 285K, The Protein was Concentrated At 2 MG/ML In MES-NAOH PH 6.00 (20 mM), DTT (5 mM) And Mixed With An Equal Volume Of The Reservoir Solution Containing PEG MME 550 (32%), MES PH 6.00 (40 mM), DTT (5 mM). Crystal Size (300X40X40 microM3) In 20 microL Sitting Drops. Crystals Were Frozen In Liquid Propane After Soaking For A Few Seconds In PEG MME 550 (50%), MES PH 6.00 (40 mM). VAPOR DIFFUSION, HANGING OR SITTING-DROP at 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.21 α = 90
b = 40.35 β = 90
c = 67.16 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 1999-02-25
Diffraction Radiation
Monochromator Protocol
Si111 or Si311 crystals SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.946 ESRF ID14-4

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 15 95.1 0.06 -- -- 4.4 13114 13114 0.0 0.0 14.2
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 1.69 83.0 0.087 -- 5.8 2.7 4364

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
FOURIER SYNTHESIS 1.6 10.0 -- 3.0 13114 12888 1328 93.0 0.193 0.193 0.193 0.213 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 1.6 1.7 -- 184 1591 0.21 0.275 0.02 78.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 12.0
Anisotropic B[1][1] -2.89
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.18
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.67
c_dihedral_angle_d 22.3
c_scangle_it 1.78
c_mcbond_it 0.68
c_bond_d 0.004
c_angle_deg 1.3
c_scbond_it 1.22
c_mcangle_it 1.06
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.2
Luzzati Sigma A (R-Free Set) 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 990
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 120

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
CNS refinement
CCP4 data scaling version: (SCALA)
CNS phasing