☰ Navigation Tabs
Crystal structure of P450 BM3 heme domain variant complexed with Co(III)Sep
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2J4S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 100-160 mM MgCl2, 100 mM MES (pH 6.5) 10-18% PEG 3350 and 5-10 mM Co(III)Sep
Crystal Properties Matthews coefficient Solvent content 2.73 55.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.97 α = 90 b = 128.54 β = 90 c = 150.06 γ = 90
Symmetry Space Group P 21 21 21
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 MAR CCD 165 mm 2009-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8123 EMBL/DESY, HAMBURG X13
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 2 20 98.65 0.06 15.66 3.9 76758
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 96.4 3.7 10844
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 2J4S 2 20 72920 3838 98.51 0.17695 0.17509 0.1857 0.21185 0.2189 RANDOM 30.102
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] 0.85 -0.8 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.919 r_dihedral_angle_4_deg 18.261 r_dihedral_angle_3_deg 13.53 r_long_range_B_refined 8.549 r_long_range_B_other 8.332 r_dihedral_angle_1_deg 6.292 r_scangle_other 5.741 r_scbond_it 4.086 r_scbond_other 4.054 r_mcangle_other 3.614
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.919 r_dihedral_angle_4_deg 18.261 r_dihedral_angle_3_deg 13.53 r_long_range_B_refined 8.549 r_long_range_B_other 8.332 r_dihedral_angle_1_deg 6.292 r_scangle_other 5.741 r_scbond_it 4.086 r_scbond_other 4.054 r_mcangle_other 3.614 r_mcangle_it 3.611 r_mcbond_it 2.752 r_mcbond_other 2.746 r_angle_refined_deg 1.576 r_angle_other_deg 1.269 r_chiral_restr 0.103 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.006 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 7253 Nucleic Acid Atoms Solvent Atoms 869 Heterogen Atoms 108
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASES phasing