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The Crystal Structure of PRKACA from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AGL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.2M NaAC, 0.1M Na3citrate pH5.5, 10% PEG 4000, 40% v/v Polypropylene glycol P 400
Crystal Properties Matthews coefficient Solvent content 2.61 52.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.272 α = 90 b = 77.272 β = 90 c = 142.698 γ = 90
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 EIGER X 9M 2023-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97951 CLSI 08ID-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 2.75 47.57 100 0.999 16.4 11.7 21778
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 2.75 2.9 0.821
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.75 43.418 21741 1132 99.972 0.204 0.2009 0.2122 0.2545 0.2669 71.871
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] 0.965 0.965 -1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.527 r_dihedral_angle_6_deg 14.06 r_lrange_it 6.784 r_lrange_other 6.783 r_dihedral_angle_1_deg 6.324 r_dihedral_angle_2_deg 4.778 r_mcangle_it 4.181 r_mcangle_other 4.181 r_scangle_it 3.93 r_scangle_other 3.929
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.527 r_dihedral_angle_6_deg 14.06 r_lrange_it 6.784 r_lrange_other 6.783 r_dihedral_angle_1_deg 6.324 r_dihedral_angle_2_deg 4.778 r_mcangle_it 4.181 r_mcangle_other 4.181 r_scangle_it 3.93 r_scangle_other 3.929 r_mcbond_it 2.475 r_mcbond_other 2.475 r_scbond_it 2.297 r_scbond_other 2.297 r_angle_refined_deg 0.947 r_angle_other_deg 0.328 r_symmetry_xyhbond_nbd_refined 0.25 r_nbd_refined 0.199 r_symmetry_nbd_other 0.186 r_nbtor_refined 0.183 r_nbd_other 0.137 r_xyhbond_nbd_refined 0.136 r_symmetry_nbd_refined 0.13 r_ncsr_local_group_1 0.102 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.048 r_metal_ion_refined 0.033 r_xyhbond_nbd_other 0.012 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5266 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing