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Structure of mouse A1 bound to the Bak BH3-domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VOF PDB ENTRY 2VOF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.1 M SODIUM CITRATE (PH 5.6), 0.3 M (NH4)2SO4, 0.6 M LI2SO4
Crystal Properties Matthews coefficient Solvent content 2 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.239 α = 90 b = 33.255 β = 104.67 c = 58.508 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 93 IMAGE PLATE RIGAKU IMAGE PLATE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.9 30.61 97.1 0.07 19.1 4.7 12891 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 95 0.46 2.9 4.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2VOF 1.9 30.61 12258 632 97.2 0.185 0.182 0.1929 0.229 0.2329 RANDOM 22.81
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] 0.43 1.07 0.22 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.564 r_dihedral_angle_4_deg 22.632 r_dihedral_angle_3_deg 14.912 r_dihedral_angle_1_deg 5.199 r_scangle_it 2.557 r_scbond_it 1.779 r_angle_refined_deg 1.089 r_mcangle_it 1.014 r_angle_other_deg 0.801 r_mcbond_it 0.725
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.564 r_dihedral_angle_4_deg 22.632 r_dihedral_angle_3_deg 14.912 r_dihedral_angle_1_deg 5.199 r_scangle_it 2.557 r_scbond_it 1.779 r_angle_refined_deg 1.089 r_mcangle_it 1.014 r_angle_other_deg 0.801 r_mcbond_it 0.725 r_nbd_refined 0.21 r_symmetry_vdw_other 0.201 r_nbtor_refined 0.185 r_symmetry_vdw_refined 0.177 r_nbd_other 0.161 r_xyhbond_nbd_refined 0.158 r_symmetry_hbond_refined 0.11 r_nbtor_other 0.081 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other 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 1432 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing