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Crystal Structure of the Catalytic Domain of Human Tyrosine Phosphatase Receptor, Type R
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JLN 1JLN.pdb
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 MPD, (NH4)H2PO4, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.2 44.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.193 α = 90 b = 74.098 β = 90 c = 62.328 γ = 90
Symmetry Space Group P 21 21 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 MARMOSAIC 225 mm CCD 2005-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9184 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 62.3 97 13565 13031
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.42 98.4
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 1JLN.pdb 2.3 62.3 12390 12390 640 96.04 0.19515 0.19515 0.19205 0.2 0.25554 0.2634 RANDOM 27.545
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] -1.45 2.47 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.071 r_dihedral_angle_3_deg 16.064 r_dihedral_angle_4_deg 14.749 r_dihedral_angle_1_deg 6.611 r_scangle_it 1.824 r_angle_refined_deg 1.317 r_scbond_it 1.151 r_angle_other_deg 0.976 r_mcangle_it 0.831 r_mcbond_it 0.509
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.071 r_dihedral_angle_3_deg 16.064 r_dihedral_angle_4_deg 14.749 r_dihedral_angle_1_deg 6.611 r_scangle_it 1.824 r_angle_refined_deg 1.317 r_scbond_it 1.151 r_angle_other_deg 0.976 r_mcangle_it 0.831 r_mcbond_it 0.509 r_symmetry_vdw_other 0.23 r_symmetry_hbond_refined 0.205 r_nbd_refined 0.188 r_xyhbond_nbd_refined 0.18 r_nbd_other 0.179 r_nbtor_refined 0.171 r_symmetry_vdw_refined 0.154 r_chiral_restr 0.121 r_mcbond_other 0.088 r_nbtor_other 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2220 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling PHASER phasing