☰ Navigation Tabs
First SH3 domain of POSH (Plenty of SH3 Domains protein)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2SRC modified 2SRC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 293 0.2 M NaF, 22% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.4 47.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.962 α = 90 b = 35.962 β = 90 c = 181.333 γ = 120
Symmetry Space Group P 65 2 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 PIXEL DECTRIS EIGER2 XE 16M Monochromators 2019-08-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.11 30.7 96 0.999 26.1 19.4 2677
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 1.11 1.13 0.565 1.4
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 modified 2SRC 1.111 30.694 26656 1321 92.578 0.148 0.1468 0.1469 0.1775 0.1779 17.845
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] 0.043 0.022 0.043 -0.141
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.772 r_dihedral_angle_4_deg 31.468 r_mcangle_it 26.534 r_mcangle_other 26.493 r_lrange_it 26.469 r_lrange_other 26.451 r_scangle_it 24.836 r_scangle_other 24.809 r_scbond_it 18.746 r_scbond_other 18.745
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.772 r_dihedral_angle_4_deg 31.468 r_mcangle_it 26.534 r_mcangle_other 26.493 r_lrange_it 26.469 r_lrange_other 26.451 r_scangle_it 24.836 r_scangle_other 24.809 r_scbond_it 18.746 r_scbond_other 18.745 r_mcbond_other 16.45 r_mcbond_it 16.418 r_dihedral_angle_3_deg 11.326 r_dihedral_angle_1_deg 7.622 r_rigid_bond_restr 3.128 r_angle_refined_deg 1.677 r_angle_other_deg 1.388 r_symmetry_xyhbond_nbd_refined 0.253 r_nbd_refined 0.208 r_symmetry_nbd_other 0.183 r_xyhbond_nbd_refined 0.181 r_nbtor_refined 0.179 r_symmetry_nbd_refined 0.17 r_nbd_other 0.155 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 502 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing