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Crystal structure of ORF137 from Pyrobaculum spherical virus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 23% PEG3350, 0.37M MA-SCN, 0.23M MGCL2, 0.1M MES, PH 7.0. CRYSTAL CRYOPROTECTED WITH 40% PEG400
Crystal Properties Matthews coefficient Solvent content 1.89 34.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.77 α = 90 b = 89.77 β = 90 c = 36.38 γ = 120
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 MAR scanner 345 mm plate MIRRORS 2008-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 1.62 44.9 97.6 0.08 17.2 10.4 22381
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 1.62 1.74 90.1 0.57 2.7 9.7
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 SAD THROUGHOUT NONE 1.62 44.9 12476 665 94.49 0.16964 0.16791 0.2053 0.20241 0.2104 RANDOM 13.001
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] -0.29 -0.14 -0.29 0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.209 r_dihedral_angle_4_deg 20.257 r_dihedral_angle_3_deg 16.656 r_sphericity_free 10.352 r_scangle_it 6.837 r_dihedral_angle_1_deg 6.731 r_scbond_it 4.759 r_sphericity_bonded 4.347 r_mcangle_it 3.095 r_rigid_bond_restr 2.767
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.209 r_dihedral_angle_4_deg 20.257 r_dihedral_angle_3_deg 16.656 r_sphericity_free 10.352 r_scangle_it 6.837 r_dihedral_angle_1_deg 6.731 r_scbond_it 4.759 r_sphericity_bonded 4.347 r_mcangle_it 3.095 r_rigid_bond_restr 2.767 r_angle_refined_deg 2.158 r_mcbond_it 2.127 r_chiral_restr 0.15 r_bond_refined_d 0.025 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 853 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALEPACK data scaling SHELXCDE phasing