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Crystal structure of the first PHR domain of the Mouse Myc-binding protein 2 (MYCBP-2)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 294 100mM Sodium acetate pH 4.6, 25% PEG 8000, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.22 44.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.688 α = 90 b = 57.767 β = 90 c = 64.633 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MAR CCD 165 mm 2008-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.32 41.7 99.7 0.052 23.2 11.6 37295 11.84
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.32 1.39 100 0.195 16.4 10.8 5369
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.32 18.45 37210 1864 99.59 0.164 0.162 0.1692 0.189 0.2004 RANDOM 14.566
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] -0.12 0.01 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.53 r_dihedral_angle_4_deg 18.302 r_dihedral_angle_3_deg 10.037 r_dihedral_angle_1_deg 6.668 r_sphericity_free 4.561 r_scangle_it 3.206 r_rigid_bond_restr 2.529 r_scbond_it 2.381 r_sphericity_bonded 2.304 r_mcangle_it 1.581
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.53 r_dihedral_angle_4_deg 18.302 r_dihedral_angle_3_deg 10.037 r_dihedral_angle_1_deg 6.668 r_sphericity_free 4.561 r_scangle_it 3.206 r_rigid_bond_restr 2.529 r_scbond_it 2.381 r_sphericity_bonded 2.304 r_mcangle_it 1.581 r_angle_refined_deg 1.318 r_mcbond_it 1.218 r_angle_other_deg 0.806 r_mcbond_other 0.391 r_symmetry_vdw_refined 0.269 r_nbd_refined 0.215 r_symmetry_vdw_other 0.208 r_nbd_other 0.193 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.085 r_nbtor_other 0.085 r_symmetry_hbond_refined 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1296 Nucleic Acid Atoms Solvent Atoms 217 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction SCALA data scaling HKL2Map phasing