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Heterodimer constructed from PA cyt c551-HT cyt c552 and HT cyt c552-PA cyt c551 chimeric proteins
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 351C 351C, 1YNR experimental model PDB 1YNR 351C, 1YNR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 100 mM Tris-HCl containing 200 mM sodium acetate, 30% w/v PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.21 44.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.35 α = 90 b = 72.54 β = 106.07 c = 35.01 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 CCD RAYONIX MX225HE 2015-01-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0000 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.1 20 99.3 0.078 0.997 7.8 3.5 60431
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.16 100 0.389 0.843 2.7 3.5
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 351C, 1YNR 1.1 20 57400 2984 99.2 0.17578 0.17467 0.1832 0.19731 0.2032 RANDOM 12.396
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] 0.16 0.19 -0.37 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.488 r_sphericity_free 22.252 r_dihedral_angle_3_deg 11.204 r_sphericity_bonded 8.229 r_dihedral_angle_1_deg 5.229 r_long_range_B_refined 2.789 r_dihedral_angle_4_deg 2.36 r_long_range_B_other 2.292 r_scangle_other 1.854 r_rigid_bond_restr 1.628
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.488 r_sphericity_free 22.252 r_dihedral_angle_3_deg 11.204 r_sphericity_bonded 8.229 r_dihedral_angle_1_deg 5.229 r_long_range_B_refined 2.789 r_dihedral_angle_4_deg 2.36 r_long_range_B_other 2.292 r_scangle_other 1.854 r_rigid_bond_restr 1.628 r_scbond_it 1.61 r_scbond_other 1.608 r_angle_refined_deg 1.408 r_mcangle_it 1.338 r_mcangle_other 1.338 r_mcbond_it 1.024 r_mcbond_other 1.023 r_angle_other_deg 0.839 r_chiral_restr 0.117 r_gen_planes_refined 0.012 r_bond_refined_d 0.01 r_gen_planes_other 0.01 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1211 Nucleic Acid Atoms Solvent Atoms 241 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling MOLREP phasing