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Crystal structure of the 32th Ig-like domain of human obscurin (KIAA1556)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model SwissModel homology-model (SWISS-MODEL)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 0.2M potassium sodium tartrate tetrahydrate, 0.1M tri-sodium citrate dihydrate pH 5.6, 2M ammonium sulfate
, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.22 44.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.358 α = 90 b = 43.358 β = 90 c = 102.316 γ = 90
Symmetry Space Group P 43 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 MARMOSAIC 225 mm CCD 2007-01-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.97901 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 91.7 0.061 14.1 6 7165 6566 6.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 56.1 0.247 4.5 4.2 390
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 homology-model (SWISS-MODEL) 2 39.94 5904 648 92.11 0.214 0.209 0.2143 0.261 0.2193 RANDOM 21.164
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] 0.21 0.21 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.895 r_dihedral_angle_4_deg 18.004 r_dihedral_angle_3_deg 13.235 r_dihedral_angle_1_deg 5.832 r_scangle_it 1.492 r_angle_refined_deg 1.139 r_scbond_it 1.016 r_mcangle_it 0.659 r_mcbond_it 0.345 r_nbtor_refined 0.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.895 r_dihedral_angle_4_deg 18.004 r_dihedral_angle_3_deg 13.235 r_dihedral_angle_1_deg 5.832 r_scangle_it 1.492 r_angle_refined_deg 1.139 r_scbond_it 1.016 r_mcangle_it 0.659 r_mcbond_it 0.345 r_nbtor_refined 0.293 r_nbd_refined 0.183 r_symmetry_vdw_refined 0.164 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.113 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 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_refined 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 673 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing