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Crystal Structure of Human Renin Complexed with Inhibitor
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 3.17 61.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.533 α = 90 b = 141.533 β = 90 c = 141.533 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 2.24 50 99.3 0.073 11.4 7.3 45325
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.24 2.32 94.1 0.627 0.627 3.28 6.8 4278
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2IKO 2.24 20 45166 2281 99.68 0.208 0.206 0.242 0.2691 RANDOM 38.97
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 34.472 r_dihedral_angle_4_deg 20.333 r_dihedral_angle_3_deg 16.16 r_dihedral_angle_1_deg 7.584 r_scangle_it 2.325 r_scbond_it 1.585 r_angle_refined_deg 1.411 r_mcangle_it 1.003 r_angle_other_deg 0.884 r_mcbond_it 0.846
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.472 r_dihedral_angle_4_deg 20.333 r_dihedral_angle_3_deg 16.16 r_dihedral_angle_1_deg 7.584 r_scangle_it 2.325 r_scbond_it 1.585 r_angle_refined_deg 1.411 r_mcangle_it 1.003 r_angle_other_deg 0.884 r_mcbond_it 0.846 r_symmetry_vdw_other 0.295 r_symmetry_vdw_refined 0.274 r_nbd_refined 0.191 r_nbd_other 0.188 r_nbtor_refined 0.18 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.129 r_mcbond_other 0.119 r_nbtor_other 0.086 r_chiral_restr 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5212 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 101
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