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Crystal Structure Analysis of Bovine Bc1 with Stigmatellin A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QCR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.2 277 20mM ammonium acetate, 20% glycerol, 12% PEG4000,
0.5M KCl, 0.1% diheptanoyl-phosphatidylcholine
, pH 7.2, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.64 66.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.385 α = 90 b = 154.385 β = 90 c = 590.271 γ = 90
Symmetry Space Group I 41 2 2
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 mirrors 2000-08-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 1.00 APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 100 93.7 115861 -2
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1qcr 2.6 40 100126 100126 3133 94.23 0.23464 0.23464 0.23317 0.28079 RANDOM 33.491
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] 2.11 2.11 -4.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.76 r_scangle_it 4.795 r_scbond_it 3.384 r_angle_refined_deg 1.633 r_mcangle_it 1.606 r_mcbond_it 0.34 r_nbd_refined 0.145 r_symmetry_hbond_refined 0.13 r_symmetry_vdw_refined 0.129 r_chiral_restr 0.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.76 r_scangle_it 4.795 r_scbond_it 3.384 r_angle_refined_deg 1.633 r_mcangle_it 1.606 r_mcbond_it 0.34 r_nbd_refined 0.145 r_symmetry_hbond_refined 0.13 r_symmetry_vdw_refined 0.129 r_chiral_restr 0.123 r_xyhbond_nbd_refined 0.106 r_bond_refined_d 0.019 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_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 16497 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 193
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CNS phasing