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Crystal structure of an isoform of DL-glycerol-3-phosphatase, Rhr2p, from Saccharomyces cerevisiae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 3.6M Ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 1.75 29.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.636 α = 90 b = 55.578 β = 90 c = 97.748 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 CCD SBC-3 mirror 2006-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 1.00932 APS 19-BM
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 1.6 22.93 99.9 0.094 47.7 14.4 29314 29314 20.28
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 1.6 1.63 100 0.509 4.4 11.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.6 22.93 27725 27725 1483 99.55 0.16895 0.16754 0.1668 0.19513 0.1938 RANDOM 20.82
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] 0.12 -0.19 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 17.208 r_dihedral_angle_3_deg 13.441 r_dihedral_angle_1_deg 5.858 r_scangle_it 3.915 r_scbond_it 2.526 r_angle_refined_deg 1.549 r_mcangle_it 1.363 r_mcbond_it 0.882 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.515 r_dihedral_angle_4_deg 17.208 r_dihedral_angle_3_deg 13.441 r_dihedral_angle_1_deg 5.858 r_scangle_it 3.915 r_scbond_it 2.526 r_angle_refined_deg 1.549 r_mcangle_it 1.363 r_mcbond_it 0.882 r_nbtor_refined 0.315 r_metal_ion_refined 0.272 r_symmetry_vdw_refined 0.24 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.115 r_xyhbond_nbd_refined 0.107 r_chiral_restr 0.103 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 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_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 1981 Nucleic Acid Atoms Solvent Atoms 248 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling MLPHARE phasing HKL-3000 phasing