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Crystal Structure of calmodulin complexed with a peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L7Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 5.5 293 25%(w/v) PEG8000, 0.2M Sodium Acetate, 0.1M Sodium cacodylate, pH 5.5, EVAPORATION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2 38.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.062 α = 90 b = 40.062 β = 90 c = 174.431 γ = 120
Symmetry Space Group P 32 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 113 IMAGE PLATE RIGAKU RAXIS IV++ 2006-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.4 20 99.6 0.042 0.041 8.6 6946 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.46 97.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1L7Z 2.4 19.9 6575 6575 312 99.8 0.21859 0.21859 0.21664 0.2143 0.25916 0.2578 RANDOM 35.709
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] 0.73 0.36 0.73 -1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.661 r_dihedral_angle_3_deg 20.238 r_dihedral_angle_4_deg 16.376 r_dihedral_angle_1_deg 5.293 r_scangle_it 3.023 r_scbond_it 1.7 r_mcangle_it 1.499 r_angle_refined_deg 1.384 r_mcbond_it 0.916 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.661 r_dihedral_angle_3_deg 20.238 r_dihedral_angle_4_deg 16.376 r_dihedral_angle_1_deg 5.293 r_scangle_it 3.023 r_scbond_it 1.7 r_mcangle_it 1.499 r_angle_refined_deg 1.384 r_mcbond_it 0.916 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.268 r_nbd_refined 0.24 r_symmetry_hbond_refined 0.185 r_xyhbond_nbd_refined 0.128 r_chiral_restr 0.11 r_metal_ion_refined 0.097 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1227 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 4
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling