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anti-apoptotic protein BCL-2-M12
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6O0K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 290 0.5 M Ammonium sulfate, 0.1 M Sodium citrate tribasic dihydrate pH 5.6, 1.0 M Lithium sulfate monohydrate
Crystal Properties Matthews coefficient Solvent content 4.37 71.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.761 α = 90 b = 104.788 β = 90 c = 111.525 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M 2022-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.9791 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.2 50 100 0.104 0.107 0.023 0.994 6.7 20 29689
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.29 100 0.432 0.442 0.093 0.987 22.3
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 MOLECULAR REPLACEMENT THROUGHOUT 2.2 25.52 29689 1656 99.01 0.17626 0.17522 0.1826 0.19375 0.2027 RANDOM 32.972
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] 0.18 0.2 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.836 r_dihedral_angle_4_deg 22.242 r_dihedral_angle_3_deg 17.786 r_long_range_B_other 11.252 r_long_range_B_refined 11.228 r_scangle_other 8.853 r_scbond_it 5.797 r_scbond_other 5.796 r_dihedral_angle_1_deg 5.376 r_mcangle_it 5.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.836 r_dihedral_angle_4_deg 22.242 r_dihedral_angle_3_deg 17.786 r_long_range_B_other 11.252 r_long_range_B_refined 11.228 r_scangle_other 8.853 r_scbond_it 5.797 r_scbond_other 5.796 r_dihedral_angle_1_deg 5.376 r_mcangle_it 5.123 r_mcangle_other 5.121 r_mcbond_it 3.606 r_mcbond_other 3.593 r_angle_refined_deg 1.961 r_angle_other_deg 1.553 r_chiral_restr 0.093 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2476 Nucleic Acid Atoms Solvent Atoms 261 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-3000 data scaling HKL-3000 data reduction PHASER phasing