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Crystal structure of Regnase PIN domain, form I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 1 M (NH4)2HPO4, 200 mM NaCl, 100 mM sodium citrate
Crystal Properties Matthews coefficient Solvent content 3.52 65.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.37 α = 90 b = 113.37 β = 90 c = 187.438 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 270 2009-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 0.97899, 0.97928, 0.96405 Photon Factory AR-NE3A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.75 47.49 90.5 22.2 7.9 33467
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.75 47.49 31767 1656 90.34 0.1911 0.18924 0.1959 0.22642 0.2295 RANDOM 92.716
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] -2.39 -2.39 -2.39 7.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.734 r_dihedral_angle_3_deg 20.251 r_dihedral_angle_4_deg 17.981 r_dihedral_angle_1_deg 6.587 r_long_range_B_refined 6.504 r_long_range_B_other 6.504 r_scangle_other 4.52 r_mcangle_it 3.612 r_mcangle_other 3.612 r_scbond_it 2.712
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.734 r_dihedral_angle_3_deg 20.251 r_dihedral_angle_4_deg 17.981 r_dihedral_angle_1_deg 6.587 r_long_range_B_refined 6.504 r_long_range_B_other 6.504 r_scangle_other 4.52 r_mcangle_it 3.612 r_mcangle_other 3.612 r_scbond_it 2.712 r_scbond_other 2.712 r_mcbond_it 2.216 r_mcbond_other 2.216 r_angle_refined_deg 1.726 r_angle_other_deg 0.85 r_chiral_restr 0.089 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 5285 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing