3O0V

Crystal structure of the calreticulin lectin domain


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.529529% (w/v) PEG 2000 MME, 0.2 M KSCN, 10 mM taurine, and 0.1 M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.0840.77

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 43.111α = 90
b = 75.32β = 90
c = 79.587γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102010-03-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE A10.9779CHESSA1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.339.7999.8115861140011
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.32.34100

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 3o0w2.339.7911137757299.750.220.216330.213590.27469RANDOM35.957
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.281.26-0.99
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.909
r_dihedral_angle_4_deg19.731
r_dihedral_angle_3_deg15.433
r_dihedral_angle_1_deg6.049
r_scangle_it0.956
r_angle_refined_deg0.942
r_scbond_it0.601
r_mcangle_it0.464
r_nbtor_refined0.302
r_mcbond_it0.288
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.909
r_dihedral_angle_4_deg19.731
r_dihedral_angle_3_deg15.433
r_dihedral_angle_1_deg6.049
r_scangle_it0.956
r_angle_refined_deg0.942
r_scbond_it0.601
r_mcangle_it0.464
r_nbtor_refined0.302
r_mcbond_it0.288
r_nbd_refined0.182
r_symmetry_vdw_refined0.126
r_xyhbond_nbd_refined0.12
r_symmetry_hbond_refined0.088
r_chiral_restr0.064
r_metal_ion_refined0.053
r_bond_refined_d0.007
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2018
Nucleic Acid Atoms
Solvent Atoms56
Heterogen Atoms1

Software

Software
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling