☰ Navigation Tabs
Crystal Structure of PduOC:Heme Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A2L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 290 PEG 3350 15% (w/v), 0.1 M magnesium formate
Crystal Properties Matthews coefficient Solvent content 2.27 45.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.3 α = 90 b = 130.12 β = 90 c = 120.75 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 PIXEL DECTRIS PILATUS 2M 2015-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.0 ELETTRA 5.2R
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 1.97 33.07 98.2 0.091 7.8 2.64 152372
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 1.97 2.08 98.8 0.385 2.6 2.6 22309
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 2A2L 1.97 33.07 144524 7771 97.98 0.15943 0.15803 0.1656 0.18564 0.1933 RANDOM 22.703
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] -7.87 1.52 18.86 -11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.253 r_dihedral_angle_4_deg 17.957 r_dihedral_angle_3_deg 10.033 r_long_range_B_other 6.88 r_long_range_B_refined 6.879 r_dihedral_angle_1_deg 5.861 r_scangle_other 4.741 r_scbond_it 3.241 r_scbond_other 3.241 r_mcangle_it 2.926
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.253 r_dihedral_angle_4_deg 17.957 r_dihedral_angle_3_deg 10.033 r_long_range_B_other 6.88 r_long_range_B_refined 6.879 r_dihedral_angle_1_deg 5.861 r_scangle_other 4.741 r_scbond_it 3.241 r_scbond_other 3.241 r_mcangle_it 2.926 r_mcangle_other 2.926 r_angle_other_deg 2.196 r_mcbond_it 2.16 r_mcbond_other 2.16 r_angle_refined_deg 1.998 r_chiral_restr 0.125 r_bond_refined_d 0.019 r_bond_other_d 0.016 r_gen_planes_refined 0.014 r_gen_planes_other 0.014 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 16391 Nucleic Acid Atoms Solvent Atoms 1441 Heterogen Atoms 518
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing