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Fourth SH3 domain of POSH (Plenty of SH3 Domains protein)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2LJ1 Homology model build with the template 2LJ1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 0.1M MES pH 6.5, 23% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.52 α = 90 b = 45.52 β = 90 c = 65.74 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 PIXEL DECTRIS PILATUS 6M-F 2020-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9119 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.45 65.74 100 1 23.8 18.8 14475
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.48 99.29 0.52 1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE Homology model build with the template 2LJ1 1.45 65.74 14443 716 99.841 0.164 0.1601 0.16 0.2275 0.2304 37.451
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] 1.274 0.637 1.274 -4.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.278 r_dihedral_angle_4_deg 21.083 r_dihedral_angle_3_deg 13.301 r_dihedral_angle_1_deg 6.829 r_lrange_it 6.782 r_lrange_other 6.778 r_scangle_it 6.603 r_scangle_other 6.595 r_scbond_it 5.426 r_scbond_other 5.419
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.278 r_dihedral_angle_4_deg 21.083 r_dihedral_angle_3_deg 13.301 r_dihedral_angle_1_deg 6.829 r_lrange_it 6.782 r_lrange_other 6.778 r_scangle_it 6.603 r_scangle_other 6.595 r_scbond_it 5.426 r_scbond_other 5.419 r_rigid_bond_restr 4.449 r_mcangle_it 4.05 r_mcangle_other 4.048 r_mcbond_it 3.584 r_mcbond_other 3.342 r_angle_refined_deg 1.501 r_angle_other_deg 1.305 r_symmetry_nbd_refined 0.461 r_nbd_other 0.307 r_xyhbond_nbd_refined 0.245 r_symmetry_nbd_other 0.196 r_nbd_refined 0.192 r_nbtor_refined 0.167 r_symmetry_xyhbond_nbd_refined 0.147 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 511 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing