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Crystal structure of phosphotyrosyl phosphatase activator bound to ATPgammaS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HV6 PDB Entry: 2HV6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 293 0.2 mM Na Formate, 5% glycerol, 16% PEG3350 (w/v), 50 mM Glycine, 0.1 M BisTris, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.04 39.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.041 α = 73.91 b = 86.096 β = 89.97 c = 95.099 γ = 73.31
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 4 2006-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.1 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 100 94.6 0.083 1.8 80608 76255
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.6 91.1 0.377
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB Entry: 2HV6 2.5 50 76416 67017 3608 87.7 0.25 0.25183 0.2486 0.31246 RANDOM 11.367
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] 3.02 -0.83 0.24 -2.78 1.34 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.572 r_dihedral_angle_3_deg 18.404 r_dihedral_angle_4_deg 17.851 r_dihedral_angle_1_deg 5.77 r_scangle_it 1.631 r_angle_refined_deg 1.273 r_scbond_it 1.05 r_mcangle_it 0.722 r_mcbond_it 0.433 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.572 r_dihedral_angle_3_deg 18.404 r_dihedral_angle_4_deg 17.851 r_dihedral_angle_1_deg 5.77 r_scangle_it 1.631 r_angle_refined_deg 1.273 r_scbond_it 1.05 r_mcangle_it 0.722 r_mcbond_it 0.433 r_nbtor_refined 0.307 r_nbd_refined 0.221 r_symmetry_vdw_refined 0.207 r_symmetry_hbond_refined 0.186 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.093 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19504 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 108
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing