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CRYSTAL STRUCTURE OF INOSITOL POLYPHOSPHATE 1-PHOSPHATASE INPP1 IN COMPLEX GADOLINIUM BUT NO LITHIUM AT 3 ANGSTROM RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1INP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.25 293 10% PEG 8000, 80mM Bis-Tris, pH 5.25, 2mM Gd2(SO4)3
Crystal Properties Matthews coefficient Solvent content 2.17 43.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.64 α = 90 b = 51.64 β = 90 c = 143.33 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 296 AREA DETECTOR UCSD MARK II supper 1994-08-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.542
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3 8.3 78.6 0.08 3.5 1.3 12719
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.23 70 0.159
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 FOURIER SYNTHESIS THROUGHOUT 1INP 3 8.28 6517 396 99.68 0.19534 0.19284 0.198 0.2359 0.2108 RANDOM 25.572
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] 0.58 0.58 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.659 r_dihedral_angle_3_deg 12.87 r_dihedral_angle_4_deg 12.594 r_dihedral_angle_1_deg 4.018 r_angle_refined_deg 0.817 r_nbtor_refined 0.29 r_nbd_refined 0.147 r_symmetry_vdw_refined 0.143 r_symmetry_hbond_refined 0.114 r_xyhbond_nbd_refined 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.659 r_dihedral_angle_3_deg 12.87 r_dihedral_angle_4_deg 12.594 r_dihedral_angle_1_deg 4.018 r_angle_refined_deg 0.817 r_nbtor_refined 0.29 r_nbd_refined 0.147 r_symmetry_vdw_refined 0.143 r_symmetry_hbond_refined 0.114 r_xyhbond_nbd_refined 0.09 r_chiral_restr 0.048 r_metal_ion_refined 0.008 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 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_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2532 Nucleic Acid Atoms Solvent Atoms 85 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement UCSD-system data reduction UCSD-system data scaling SQUASH phasing