☰ Navigation Tabs
Crystal structure of bovine low molecular weight protein tyrosine phosphatase (LMPTP) mutant (W49Y N50E) complexed with vanadate and uncompetitive inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5JNV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6.5 293 20% PEG 3350, 0.2 M NaCl, Bis Tris
Crystal Properties Matthews coefficient Solvent content 2.29 46.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.347 α = 90 b = 125.493 β = 90 c = 45.251 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 6M 2016-01-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.0 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.86 36.7 96.6 0.057 0.996 12.7 4.2 14411
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 1.86 1.9 60.3 0.449 3.1
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 5JNV 1.86 36.7 13691 710 96.53 0.1683 0.1663 0.1766 0.2095 0.2123 RANDOM 31.982
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] -1.92 1.5 0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.258 r_dihedral_angle_4_deg 18.572 r_dihedral_angle_3_deg 15.067 r_dihedral_angle_1_deg 7.104 r_angle_refined_deg 2.829 r_mcangle_it 2.673 r_mcbond_it 1.969 r_mcbond_other 1.966 r_angle_other_deg 1.408 r_chiral_restr 0.201
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.258 r_dihedral_angle_4_deg 18.572 r_dihedral_angle_3_deg 15.067 r_dihedral_angle_1_deg 7.104 r_angle_refined_deg 2.829 r_mcangle_it 2.673 r_mcbond_it 1.969 r_mcbond_other 1.966 r_angle_other_deg 1.408 r_chiral_restr 0.201 r_bond_refined_d 0.034 r_gen_planes_refined 0.015 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1232 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction PHASER phasing