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Crystal structure of the human tyrosine receptor phosphate gamma
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HY3 PDB entry 2HY3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 294 100mM Sodium MES pH 6.5, 22% PEG 8000, 200mM Ammonium sulfate, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.12 60.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.338 α = 90 b = 107.338 β = 90 c = 67.757 γ = 120
Symmetry Space Group P 32 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 ADSC QUANTUM 315 2006-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.10000 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 53.683 99.8 0.054 0.054 16.1 10.2 49677 49677 31.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.79 99 0.645 0.645 2.2 7.3 7108
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 (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 2HY3 1.7 20 49610 49610 2485 99.83 0.209 0.208 0.2142 0.234 0.2392 RANDOM 41.844
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] -0.63 -0.31 -0.63 0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.267 r_dihedral_angle_4_deg 16.741 r_dihedral_angle_3_deg 13.437 r_dihedral_angle_1_deg 5.466 r_scangle_it 4.865 r_scbond_it 3.075 r_mcangle_it 1.948 r_angle_refined_deg 1.527 r_mcbond_it 1.283 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.267 r_dihedral_angle_4_deg 16.741 r_dihedral_angle_3_deg 13.437 r_dihedral_angle_1_deg 5.466 r_scangle_it 4.865 r_scbond_it 3.075 r_mcangle_it 1.948 r_angle_refined_deg 1.527 r_mcbond_it 1.283 r_nbtor_refined 0.311 r_symmetry_vdw_refined 0.266 r_nbd_refined 0.202 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.126 r_chiral_restr 0.115 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2330 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 5
Software Software Software Name Purpose SCALA data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction CCP4 data scaling