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Crystal Structure of Human Renin Complexed with Inhibitors
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IKO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 10-20% PEG 3350, 50 mM sodium citrate pH 4.5, 0.6 M NaCl., VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.14 60.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.162 α = 90 b = 141.162 β = 90 c = 141.162 γ = 90
Symmetry Space Group P 21 3
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 210 2004-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.00 APS 17-ID
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 2.6 50 98.7 0.125 7.7 4.2 28798
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 2.6 2.69 99.9 0.539 2.08 4.4 2858
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 2IKO 2.6 20 28689 1462 98.72 0.214 0.212 0.2251 0.256 0.2689 RANDOM 36.948
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.199 r_dihedral_angle_3_deg 16.537 r_dihedral_angle_4_deg 13.707 r_dihedral_angle_1_deg 7.017 r_scangle_it 1.788 r_angle_refined_deg 1.359 r_scbond_it 1.152 r_mcangle_it 0.836 r_angle_other_deg 0.834 r_mcbond_it 0.692
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.199 r_dihedral_angle_3_deg 16.537 r_dihedral_angle_4_deg 13.707 r_dihedral_angle_1_deg 7.017 r_scangle_it 1.788 r_angle_refined_deg 1.359 r_scbond_it 1.152 r_mcangle_it 0.836 r_angle_other_deg 0.834 r_mcbond_it 0.692 r_symmetry_vdw_other 0.25 r_symmetry_vdw_refined 0.203 r_nbd_refined 0.2 r_nbd_other 0.188 r_nbtor_refined 0.185 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.097 r_mcbond_other 0.091 r_nbtor_other 0.086 r_chiral_restr 0.076 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5196 Nucleic Acid Atoms Solvent Atoms 85 Heterogen Atoms 62
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction MOLREP phasing