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Crystal Structure of Green Turtle Egg White Ribonuclease
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BWL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 1.1M Ammonium sulfate, 30% glycerol, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.271 α = 90 b = 34.174 β = 102.03 c = 39.738 γ = 90
Symmetry Space Group C 1 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 100 CCD MAR CCD 130 mm 2006-09-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
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 1.599 42.182 14850 19.13
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 2BWL 1.6 21.72 14099 749 97.88 0.18608 0.18297 0.24722 0.2476 RANDOM 22.384
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 33.123 r_dihedral_angle_1_deg 22.472 r_dihedral_angle_4_deg 13.451 r_dihedral_angle_3_deg 11.403 r_scangle_it 3.239 r_scbond_it 2.141 r_angle_refined_deg 1.513 r_mcangle_it 1.301 r_mcbond_it 0.971 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.123 r_dihedral_angle_1_deg 22.472 r_dihedral_angle_4_deg 13.451 r_dihedral_angle_3_deg 11.403 r_scangle_it 3.239 r_scbond_it 2.141 r_angle_refined_deg 1.513 r_mcangle_it 1.301 r_mcbond_it 0.971 r_nbtor_refined 0.301 r_symmetry_hbond_refined 0.272 r_symmetry_vdw_refined 0.234 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.117 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 905 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing