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Crystal structure of N-terminal PDZ domain of ZASP in complex with myotilin C-terminal peptide.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PKT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295.15 PEG 6000, imidazole
Crystal Properties Matthews coefficient Solvent content 1.91 35.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 28.9 α = 90 b = 95.5 β = 120 c = 28.9 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 CCD ADSC QUANTUM 315r 2012-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9 ESRF ID23-1
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 1.4 47.75 92.4 0.048 14.7 3.1 24577
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 1.4 1.48 61.8 0.301 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 2pkt 1.4 47.75 23381 1195 92.38 0.1252 0.1236 0.1303 0.1565 0.16 RANDOM 13.354
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] -3.82 1.57 2.02 1.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.536 r_sphericity_free 27.277 r_dihedral_angle_3_deg 10.465 r_sphericity_bonded 8.653 r_dihedral_angle_1_deg 6.289 r_dihedral_angle_4_deg 3.384 r_rigid_bond_restr 2.327 r_mcangle_it 1.509 r_angle_refined_deg 1.475 r_mcbond_it 1.175
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.536 r_sphericity_free 27.277 r_dihedral_angle_3_deg 10.465 r_sphericity_bonded 8.653 r_dihedral_angle_1_deg 6.289 r_dihedral_angle_4_deg 3.384 r_rigid_bond_restr 2.327 r_mcangle_it 1.509 r_angle_refined_deg 1.475 r_mcbond_it 1.175 r_mcbond_other 1.174 r_angle_other_deg 0.961 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1240 Nucleic Acid Atoms Solvent Atoms 145 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing