2O8F

human MutSalpha (MSH2/MSH6) bound to DNA with a single base T insert


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2O8BPDB ENTRY 2O8B

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION729011% PEG 8000, 10 mM magnesium sulfate, 100 mM bis-tris-propane, pH 7, VAPOR DIFFUSION, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
3.1460.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 259.55α = 90
b = 259.55β = 90
c = 259.55γ = 90
Symmetry
Space GroupP 43 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDmirrorsMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.00APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (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
13.2582.07799.70.1290.1294.96.64722047220-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.253.3399.80.4920.4921.65.93446

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB ENTRY 2O8B3.252047000237399.570.2460.2430.293RANDOM110.542
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.558
r_dihedral_angle_3_deg8.794
r_dihedral_angle_4_deg7.872
r_dihedral_angle_1_deg2.009
r_angle_refined_deg1.198
r_scangle_it0.51
r_nbtor_refined0.307
r_mcangle_it0.298
r_scbond_it0.285
r_mcbond_it0.166
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.558
r_dihedral_angle_3_deg8.794
r_dihedral_angle_4_deg7.872
r_dihedral_angle_1_deg2.009
r_angle_refined_deg1.198
r_scangle_it0.51
r_nbtor_refined0.307
r_mcangle_it0.298
r_scbond_it0.285
r_mcbond_it0.166
r_symmetry_hbond_refined0.163
r_nbd_refined0.156
r_xyhbond_nbd_refined0.15
r_symmetry_vdw_refined0.125
r_chiral_restr0.089
r_bond_refined_d0.006
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13950
Nucleic Acid Atoms711
Solvent Atoms19
Heterogen Atoms28

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection
XDSdata reduction
REFMACphasing