☰ Navigation Tabs
Structure of the p38alpha-pepHePTPm(16-31)(V31C ) complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TG1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 295 0.1 M HEPES pH 7.8
0.6-0.8 M Sodium Citrate
Crystal Properties Matthews coefficient Solvent content 2.74 55.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.96 α = 90 b = 81.96 β = 90 c = 122.4 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 IMAGE PLATE RIGAKU RAXIS IV 2009-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU R-AXIS IV 1.542
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 2.14 46.35 98 0.127 0.047 0.998 18.9 7.9 26386
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.2 80.5 0.894 0.552 0.482 1.4 3.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1p38 2.14 46.35 25056 1290 97.96 0.1876 0.1862 0.1927 0.2161 0.2184 RANDOM 37.56
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] -0.34 -0.17 -0.34 1.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.73 r_dihedral_angle_4_deg 16 r_dihedral_angle_3_deg 11.441 r_dihedral_angle_1_deg 6.831 r_mcangle_it 5.452 r_mcbond_other 3.583 r_mcbond_it 3.582 r_angle_refined_deg 1.476 r_angle_other_deg 1.349 r_chiral_restr 0.063
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.73 r_dihedral_angle_4_deg 16 r_dihedral_angle_3_deg 11.441 r_dihedral_angle_1_deg 6.831 r_mcangle_it 5.452 r_mcbond_other 3.583 r_mcbond_it 3.582 r_angle_refined_deg 1.476 r_angle_other_deg 1.349 r_chiral_restr 0.063 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2901 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing