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Crystal structure of aPKC Iota kinase domain with LLGL2 peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3A8W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 300 Morpheus Condition:
25% (v/v) MPD,
25% (v/v) PEG 1000,
25% (v/v) PEG 3350,
0.3 M NaNO3,
0.3 M Na2HPO4,
0.3 M (NH4)2SO4,
0.1 M MES/imidazole pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.23 44.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.418 α = 90 b = 86.324 β = 90 c = 114.803 γ = 90
Symmetry Space Group P 21 21 21
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 ACCEL Fixed exit Double Crystal 2011-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9787 Diamond I24
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 2.59 114.8 100 0.995 8.6 6.5 24903 55.91
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 2.59 2.64 0.269 0.5
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 2.591 68.995 24778 1234 99.618 0.234 0.2319 0.2319 0.2692 0.2692 65.637
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] 0.217 -2.671 2.454
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.586 r_dihedral_angle_6_deg 13.882 r_dihedral_angle_2_deg 9.442 r_lrange_it 8.017 r_dihedral_angle_1_deg 7.935 r_scangle_it 5.193 r_mcangle_it 4.956 r_scbond_it 2.998 r_mcbond_it 2.991 r_angle_refined_deg 1.557
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.586 r_dihedral_angle_6_deg 13.882 r_dihedral_angle_2_deg 9.442 r_lrange_it 8.017 r_dihedral_angle_1_deg 7.935 r_scangle_it 5.193 r_mcangle_it 4.956 r_scbond_it 2.998 r_mcbond_it 2.991 r_angle_refined_deg 1.557 r_nbtor_refined 0.29 r_symmetry_nbd_refined 0.193 r_nbd_refined 0.183 r_symmetry_xyhbond_nbd_refined 0.129 r_xyhbond_nbd_refined 0.123 r_chiral_restr 0.081 r_gen_planes_refined 0.006 r_bond_refined_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5710 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data reduction DIALS data scaling PHASER phasing