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The Crystal Structure of MARK4 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ES1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M Potassium sodium tartrate, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.17 43.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.447 α = 90 b = 78.103 β = 122 c = 86.155 γ = 90
Symmetry Space Group C 1 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 2022-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3 48.53 99.9 0.074 15.1 4.2 13003
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.18 0.727 2.2
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 3 41.697 13003 623 99.823 0.21 0.2066 0.2106 0.2695 0.274 70
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] 3.305 1.477 -0.638 -2.534
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.203 r_dihedral_angle_6_deg 13.064 r_lrange_it 11.877 r_lrange_other 11.877 r_dihedral_angle_1_deg 6.136 r_mcangle_it 6.029 r_mcangle_other 6.028 r_scangle_it 5.562 r_scangle_other 5.561 r_dihedral_angle_2_deg 4.624
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.203 r_dihedral_angle_6_deg 13.064 r_lrange_it 11.877 r_lrange_other 11.877 r_dihedral_angle_1_deg 6.136 r_mcangle_it 6.029 r_mcangle_other 6.028 r_scangle_it 5.562 r_scangle_other 5.561 r_dihedral_angle_2_deg 4.624 r_mcbond_it 3.571 r_mcbond_other 3.571 r_scbond_it 3.18 r_scbond_other 3.179 r_angle_refined_deg 0.941 r_angle_other_deg 0.325 r_symmetry_xyhbond_nbd_refined 0.221 r_nbd_refined 0.211 r_symmetry_nbd_other 0.191 r_nbtor_refined 0.179 r_nbd_other 0.151 r_xyhbond_nbd_refined 0.136 r_symmetry_nbd_refined 0.125 r_ncsr_local_group_1 0.122 r_symmetry_nbtor_other 0.076 r_chiral_restr_other 0.065 r_chiral_restr 0.045 r_symmetry_xyhbond_nbd_other 0.006 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 4688 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing