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structure of p73 DNA binding domain complex with 12 bp DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VD0 pdb entry 3VD0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 298 0.1M MES, 0.1M NA ACETATE, 15-17% PEG 20K, pH 6.0, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.4 48.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.25 α = 90 b = 104.329 β = 96.38 c = 123.324 γ = 90
Symmetry Space Group P 1 21 1
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 ADSC QUANTUM 315r MIRROR 2011-02-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 ALS 5.0.2
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 3.2 100 99.6 0.05 19.5 6.4 34489 2
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 3.2 3.31 99.7 0.47 3.1 6.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 3VD0 3.19 44.01 34423 32688 1735 99.08 0.21079 0.20751 0.27028 0.2522 RANDOM 95.335
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] -0.52 -3.27 3.34 -2.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.745 r_dihedral_angle_3_deg 21.64 r_dihedral_angle_4_deg 18.232 r_mcangle_it 6.4 r_dihedral_angle_1_deg 6.216 r_scbond_it 4.369 r_mcbond_it 3.874 r_mcbond_other 3.873 r_angle_other_deg 2.067 r_angle_refined_deg 1.658
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.745 r_dihedral_angle_3_deg 21.64 r_dihedral_angle_4_deg 18.232 r_mcangle_it 6.4 r_dihedral_angle_1_deg 6.216 r_scbond_it 4.369 r_mcbond_it 3.874 r_mcbond_other 3.873 r_angle_other_deg 2.067 r_angle_refined_deg 1.658 r_chiral_restr 0.102 r_bond_refined_d 0.011 r_bond_other_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.008 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12535 Nucleic Acid Atoms 1928 Solvent Atoms 136 Heterogen Atoms 8
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling