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Structure of human dual-specificity phosphatase 27
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PQ5 PDB ENTRY 2PQ5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 10 MG/ML PROTEIN, 0.2M AMMONIUM SULFATE, 25% W/V PEG3350, ROOM TEMPERATURE, pH 6
Crystal Properties Matthews coefficient Solvent content 2.86 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.012 α = 90 b = 126.012 β = 90 c = 125.758 γ = 120
Symmetry Space Group P 64 2 2
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 MARRESEARCH 2011-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM APS 22-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 2.38 50 100 0.07 48.2 16.1 24047 2
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 2.38 2.43 100 0.72 4.2 15.5
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2PQ5 2.38 50 22618 1220 98.98 0.20257 0.20139 0.2323 0.22482 0.2558 RANDOM
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 33.41 r_dihedral_angle_4_deg 16.264 r_dihedral_angle_3_deg 15.673 r_dihedral_angle_1_deg 6.107 r_scangle_it 3.482 r_scbond_it 2.206 r_angle_refined_deg 1.514 r_mcangle_it 1.448 r_angle_other_deg 0.912 r_mcbond_it 0.752
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.41 r_dihedral_angle_4_deg 16.264 r_dihedral_angle_3_deg 15.673 r_dihedral_angle_1_deg 6.107 r_scangle_it 3.482 r_scbond_it 2.206 r_angle_refined_deg 1.514 r_mcangle_it 1.448 r_angle_other_deg 0.912 r_mcbond_it 0.752 r_mcbond_other 0.153 r_chiral_restr 0.092 r_bond_refined_d 0.015 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_mcangle_other r_scbond_other 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 2758 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling PHASER phasing