☰ Navigation Tabs
Ca2+-Calmodulin in complex with peptide from brain-type creatine kinase in extended 1:2 binding mode
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2L7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 25% PEG 1500, 0.1 M SPG buffer pH 4-5.
CaM-CKBpeptide ratios of 1:4
Crystal Properties Matthews coefficient Solvent content 1.77 30.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 24.411 α = 90 b = 59.534 β = 98.343 c = 52.477 γ = 90
Symmetry Space Group P 1 21 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 2018-04-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.972424 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.24 39.161 96.95 0.08768 0.998 9.76 6.6 41629
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.24 1.284 1.608 0.471
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 FREE R-VALUE 2l7l 1.24 39.161 41593 2091 98.847 0.138 0.1351 0.1412 0.1863 0.1884 23.434
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] -0.444 -0.933 -1.256 1.892
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.578 r_dihedral_angle_4_deg 18.746 r_dihedral_angle_3_deg 15.702 r_lrange_it 5.488 r_scangle_it 5.412 r_scangle_other 5.41 r_lrange_other 5.297 r_scbond_it 4.561 r_scbond_other 4.558 r_dihedral_angle_1_deg 4.369
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.578 r_dihedral_angle_4_deg 18.746 r_dihedral_angle_3_deg 15.702 r_lrange_it 5.488 r_scangle_it 5.412 r_scangle_other 5.41 r_lrange_other 5.297 r_scbond_it 4.561 r_scbond_other 4.558 r_dihedral_angle_1_deg 4.369 r_rigid_bond_restr 3.669 r_mcangle_other 3.173 r_mcangle_it 3.171 r_mcbond_it 2.857 r_mcbond_other 2.749 r_angle_refined_deg 1.815 r_angle_other_deg 0.633 r_nbd_refined 0.254 r_symmetry_nbd_refined 0.241 r_nbd_other 0.221 r_xyhbond_nbd_refined 0.22 r_nbtor_refined 0.188 r_symmetry_nbd_other 0.187 r_symmetry_xyhbond_nbd_refined 0.162 r_symmetry_metal_ion_refined 0.1 r_chiral_restr 0.092 r_metal_ion_refined 0.073 r_symmetry_nbtor_other 0.07 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1403 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing