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Crystal Structure of human BFL-1 in complex with tBid BH3 peptide, Northeast Structural Genomics Consortium Target HX9247
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MQP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 295 Sodium Malonate
Crystal Properties Matthews coefficient Solvent content 1.85 33.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.339 α = 90 b = 43.469 β = 114.21 c = 46.263 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 IMAGE PLATE RIGAKU RAXIS IV++ 2012-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178
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 1.8 42.19 96.3 0.048 14.6 5.57 14705 14163
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 1.8 1.86 94.4 0.486 2.9 5.61
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 3MQP 1.8 42.19 13436 722 96.25 0.19819 0.19614 0.2042 0.23872 0.2528 RANDOM 47.72
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] -0.59 -0.09 -1.63 1.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.852 r_dihedral_angle_3_deg 11.493 r_dihedral_angle_4_deg 10.529 r_long_range_B_refined 6.806 r_long_range_B_other 6.79 r_dihedral_angle_1_deg 4.182 r_scangle_other 3.972 r_mcangle_it 3.169 r_mcangle_other 3.167 r_scbond_it 2.439
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.852 r_dihedral_angle_3_deg 11.493 r_dihedral_angle_4_deg 10.529 r_long_range_B_refined 6.806 r_long_range_B_other 6.79 r_dihedral_angle_1_deg 4.182 r_scangle_other 3.972 r_mcangle_it 3.169 r_mcangle_other 3.167 r_scbond_it 2.439 r_scbond_other 2.439 r_mcbond_it 1.944 r_mcbond_other 1.942 r_angle_refined_deg 0.919 r_angle_other_deg 0.747 r_chiral_restr 0.058 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 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 1411 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling PHASER phasing