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The X-ray Structure of a Bak Homodimer Reveals an Inhibitory Zinc Binding Site
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 PEG 3350 15-30% and 1-50 mM zinc acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.11 41.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.527 α = 90 b = 53.662 β = 115.05 c = 58.281 γ = 90
Symmetry Space Group C 1 2 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 4 2005-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.514 NSLS X8C
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) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.47 100 98.6 0.04 0.029 36.5 3.6 52701 27038 2 1
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) Redundancy Number Unique Reflections (All) 1 1.47 1.52 86.7 0.487 0.348 2.17 2.4
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 1.48 52.7 25678 1355 99.59 0.1805 0.17925 0.18 0.20402 0.2075 RANDOM 19.219
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] 0.5 -0.12 0.06 -0.66
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.75 r_dihedral_angle_1_deg 4.713 r_scbond_it 2.968 r_mcangle_it 1.804 r_angle_refined_deg 1.437 r_mcbond_it 0.968 r_angle_other_deg 0.847 r_symmetry_vdw_other 0.258 r_nbd_other 0.244 r_nbd_refined 0.233
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.75 r_dihedral_angle_1_deg 4.713 r_scbond_it 2.968 r_mcangle_it 1.804 r_angle_refined_deg 1.437 r_mcbond_it 0.968 r_angle_other_deg 0.847 r_symmetry_vdw_other 0.258 r_nbd_other 0.244 r_nbd_refined 0.233 r_symmetry_vdw_refined 0.196 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.186 r_nbtor_other 0.084 r_chiral_restr 0.078 r_metal_ion_refined 0.051 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1300 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction SOLVE phasing