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CRYSTAL STRUCTURE OF NONSYNDROMIC DEAFNESS (DFNB12) ASSOCIATED MUTANT D124G OF MOUSE CADHERIN-23 EC1-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WCP PDB ENTRY 2WCP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.1 0.1M SODIUM CACODYLATE PH 7.1, 1M NACL
Crystal Properties Matthews coefficient Solvent content 5.38 77.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 179.693 α = 90 b = 179.693 β = 90 c = 63.982 γ = 90
Symmetry Space Group P 42 21 2
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 CCD 2009-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 NSLS X25
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 2.75 30 97.9 0.09 13.8 7.4 28267 2
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 2.75 2.8 97.4 0.49 4.47 5.2
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 2WCP 2.74 29.77 26041 1384 97.88 0.22089 0.21941 0.2262 0.24865 0.2605 RANDOM 23.276
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] 0.03 0.03 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.025 r_dihedral_angle_3_deg 18.093 r_dihedral_angle_4_deg 17.595 r_dihedral_angle_1_deg 6.67 r_scangle_it 1.743 r_angle_refined_deg 1.099 r_scbond_it 0.992 r_mcangle_it 0.875 r_angle_other_deg 0.8 r_mcbond_it 0.463
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.025 r_dihedral_angle_3_deg 18.093 r_dihedral_angle_4_deg 17.595 r_dihedral_angle_1_deg 6.67 r_scangle_it 1.743 r_angle_refined_deg 1.099 r_scbond_it 0.992 r_mcangle_it 0.875 r_angle_other_deg 0.8 r_mcbond_it 0.463 r_chiral_restr 0.066 r_mcbond_other 0.058 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 3248 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing