☰ Navigation Tabs
Crystal structure of the peptidyl-prolyl isomerase domain of human cyclophilin G
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A58 pdb entry 1A58
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 2M ammonium sulfate, 0.2M sodium chloride, 0.1M HEPES, pH 7.5, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.95 36.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.432 α = 90 b = 65.504 β = 90 c = 69.341 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 IMAGE PLATE RIGAKU RAXIS 2006-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 1.5418
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 1.8 30 90 0.148 5.8 4 14841
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) 1.8 1.86 56.4 0.63 2.2
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT pdb entry 1A58 1.8 29.617 14604 728 89.136 0.22 0.2168 0.2206 0.2793 0.2791 Random 14.14
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] 1.093 -0.175 -0.917
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.55 r_dihedral_angle_4_deg 18.908 r_dihedral_angle_3_deg 12.443 r_dihedral_angle_1_deg 7.468 r_scangle_it 3.592 r_mcangle_it 3.264 r_scbond_it 2.939 r_mcbond_it 2.836 r_angle_refined_deg 1.474 r_angle_other_deg 0.981
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.55 r_dihedral_angle_4_deg 18.908 r_dihedral_angle_3_deg 12.443 r_dihedral_angle_1_deg 7.468 r_scangle_it 3.592 r_mcangle_it 3.264 r_scbond_it 2.939 r_mcbond_it 2.836 r_angle_refined_deg 1.474 r_angle_other_deg 0.981 r_mcbond_other 0.928 r_symmetry_vdw_other 0.238 r_nbd_other 0.196 r_symmetry_vdw_refined 0.186 r_nbd_refined 0.18 r_nbtor_refined 0.171 r_xyhbond_nbd_refined 0.124 r_symmetry_hbond_refined 0.12 r_chiral_restr 0.091 r_nbtor_other 0.083 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1342 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 4
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction