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Recombinant vertebrate calmodulin complexed with Pb
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UP5 PDB ENTRY 1UP5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4 40-50%MPD, PH4
Crystal Properties Matthews coefficient Solvent content 2.37 47.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 24.58 α = 88.57 b = 29.95 β = 87.03 c = 53.61 γ = 82.95
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 MAX II I911-2
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 2.15 20 95.2 0.08 8.2 2.2 7838 -3 31.1
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 2.15 2.25 90.2 0.25 4.3 2.2
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1UP5 2.15 20 7837 392 95.4 0.191 0.188 0.1957 0.253 0.2568 RANDOM 37.79
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] -0.65 -0.85 -0.98 2.46 2.69 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.642 r_dihedral_angle_3_deg 17.471 r_dihedral_angle_4_deg 12.027 r_dihedral_angle_1_deg 6.501 r_scangle_it 2.251 r_scbond_it 1.523 r_angle_refined_deg 1.298 r_angle_other_deg 0.882 r_mcangle_it 0.816 r_mcbond_it 0.452
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.642 r_dihedral_angle_3_deg 17.471 r_dihedral_angle_4_deg 12.027 r_dihedral_angle_1_deg 6.501 r_scangle_it 2.251 r_scbond_it 1.523 r_angle_refined_deg 1.298 r_angle_other_deg 0.882 r_mcangle_it 0.816 r_mcbond_it 0.452 r_symmetry_vdw_other 0.285 r_symmetry_vdw_refined 0.267 r_nbd_refined 0.228 r_nbtor_refined 0.181 r_nbd_other 0.179 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.159 r_nbtor_other 0.085 r_chiral_restr 0.068 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1114 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing