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1.68 Angstrom crystal structure of Ca/CaM-E140G:CaMKIIdelta peptide complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 0.1 M Na+-HEPES, 0.1 M MOPS (acid), pH 7.5, 0.03 M magnesium chloride hexahydrate, 0.03 M calcium chloride dihydrate, 12.5% v/v MPD; 12.5% PEG 1000; 12.5% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 27.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.38 α = 90 b = 54.52 β = 90 c = 57.5 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 EIGER2 XE 16M 2020-12-11 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) 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 1.68 39.59 99.1 0.048 0.057 0.03 1 13.5 6.3 15287
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 1.68 1.71 87.8 2.042 2.522 1.452 0.311 0.6 4.6
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 THROUGHOUT 2WEL 1.68 39.59 15244 802 99.084 0.207 0.2052 0.2252 0.2439 0.26 29.842
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] -3.559 0.736 2.823
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.866 r_dihedral_angle_6_deg 15.388 r_dihedral_angle_2_deg 14.283 r_lrange_it 6.752 r_lrange_other 6.736 r_dihedral_angle_1_deg 6.027 r_scangle_it 4.667 r_scangle_other 4.664 r_mcangle_it 3.157 r_mcangle_other 3.155
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.866 r_dihedral_angle_6_deg 15.388 r_dihedral_angle_2_deg 14.283 r_lrange_it 6.752 r_lrange_other 6.736 r_dihedral_angle_1_deg 6.027 r_scangle_it 4.667 r_scangle_other 4.664 r_mcangle_it 3.157 r_mcangle_other 3.155 r_scbond_it 3.076 r_scbond_other 3.074 r_mcbond_it 2.208 r_mcbond_other 2.159 r_angle_refined_deg 1.366 r_symmetry_xyhbond_nbd_refined 0.54 r_angle_other_deg 0.467 r_symmetry_nbd_refined 0.358 r_nbd_refined 0.251 r_nbd_other 0.223 r_xyhbond_nbd_refined 0.211 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.182 r_metal_ion_refined 0.169 r_symmetry_metal_ion_refined 0.12 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.066 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1288 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms 10
Software Software Software Name Purpose XDS data reduction Aimless data scaling MOLREP phasing REFMAC refinement