☰ Navigation Tabs
Crystal Structure of the Human Protein Tyrosine Phosphatase, PTPN7 (HePTP, Hematopoietic Protein Tyrosine Phosphatase)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JLN PDB ENTRY 1JLN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.1M Tris-HCl, 2.0M ammonium dihydrogen phosphate, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.4 47.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.125 α = 90 b = 80.968 β = 90 c = 100.392 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 MARMOSAIC 225 mm CCD 2005-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9207 SLS X10SA
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 2.55 50 99.4 0.128 10833 10833
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 2.55 2.64 96.9 0.48
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1JLN 2.55 42.68 10366 10366 522 99.23 0.22184 0.22184 0.21897 0.221 0.27466 0.2723 RANDOM 29.008
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] -4.02 0.15 3.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.519 r_dihedral_angle_4_deg 19.021 r_dihedral_angle_3_deg 17.276 r_dihedral_angle_1_deg 6.512 r_scangle_it 1.913 r_angle_refined_deg 1.27 r_scbond_it 1.207 r_mcangle_it 0.817 r_mcbond_it 0.457 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.519 r_dihedral_angle_4_deg 19.021 r_dihedral_angle_3_deg 17.276 r_dihedral_angle_1_deg 6.512 r_scangle_it 1.913 r_angle_refined_deg 1.27 r_scbond_it 1.207 r_mcangle_it 0.817 r_mcbond_it 0.457 r_nbtor_refined 0.306 r_symmetry_hbond_refined 0.238 r_nbd_refined 0.21 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2134 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing