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Proliferation-Associated protein 2G4 (PA2G4)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Q8K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 2.4M Ammonium Sulphate
100 sodium citrate pH 5.0
Crystal Properties Matthews coefficient Solvent content 4.45 72.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.368 α = 90 b = 138.368 β = 90 c = 220.209 γ = 90
Symmetry Space Group P 41 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 ADSC QUANTUM 315 2017-08-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.956 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.6 48.92 100 0.133 0.133 0.036 0.998 14.6 13.7 66388 50.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.66 100 1.414 1.467 0.389 0.73 2.1 14.1
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 (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 2Q8K 2.6 48.92 63004 3295 99.97 0.19643 0.19426 0.1976 0.23785 0.236 RANDOM 60.182
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] -1.02 -1.02 2.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.916 r_dihedral_angle_4_deg 23.719 r_dihedral_angle_3_deg 19.693 r_long_range_B_refined 9.002 r_long_range_B_other 9.001 r_dihedral_angle_1_deg 8.386 r_scangle_other 6.89 r_mcangle_it 5.349 r_mcangle_other 5.349 r_scbond_it 5.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.916 r_dihedral_angle_4_deg 23.719 r_dihedral_angle_3_deg 19.693 r_long_range_B_refined 9.002 r_long_range_B_other 9.001 r_dihedral_angle_1_deg 8.386 r_scangle_other 6.89 r_mcangle_it 5.349 r_mcangle_other 5.349 r_scbond_it 5.084 r_scbond_other 4.537 r_mcbond_it 3.547 r_mcbond_other 3.544 r_angle_refined_deg 2.035 r_angle_other_deg 1.394 r_chiral_restr 0.087 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8292 Nucleic Acid Atoms Solvent Atoms 109 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing