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Protein tyrosine phosphatase 1B with active site inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C83 PDB ENTRY 1C83
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.1 59.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.095 α = 90 b = 88.095 β = 90 c = 104.497 γ = 120
Symmetry Space Group P 31 2 1
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 RIGAKU CCD CONFOCAL MULTILAYER 2002-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R
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 2.2 44 96.7 0.08 4.1 1.8 24030
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 2.2 2.28 88.2 0.34 1.6 1.72
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1C83 2.2 44.05 22057 1178 96.7 0.201 0.198 0.266 RANDOM 35.17
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] 0.22 0.11 0.22 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.754 r_dihedral_angle_4_deg 20.398 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_1_deg 6.252 r_scangle_it 4.545 r_mcangle_it 3.811 r_scbond_it 3.442 r_mcbond_it 3.314 r_angle_refined_deg 1.424 r_angle_other_deg 0.818
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.754 r_dihedral_angle_4_deg 20.398 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_1_deg 6.252 r_scangle_it 4.545 r_mcangle_it 3.811 r_scbond_it 3.442 r_mcbond_it 3.314 r_angle_refined_deg 1.424 r_angle_other_deg 0.818 r_symmetry_vdw_refined 0.263 r_nbd_refined 0.209 r_symmetry_vdw_other 0.191 r_nbd_other 0.187 r_nbtor_refined 0.181 r_xyhbond_nbd_refined 0.111 r_symmetry_hbond_refined 0.107 r_nbtor_other 0.087 r_chiral_restr 0.084 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2427 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling IN-HOUSE phasing