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Crystal structure of PDZ domain of KIAA0858 (LIM), MS0793 from Homo sapiens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 12% (v/v) PEG3350, HEPES-Na (pH7.5), 10mM NiSO4., VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.85 33.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.996 α = 90 b = 61.311 β = 90 c = 27.931 γ = 90
Symmetry Space Group P 21 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 QUANTUM 315 Mirrors 2006-12-16 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 0.9794, 0.9796, 0.9644 Photon Factory BL-5A
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 1.46 50 99.9 0.079 30.94 13.2 13707 -3 11.5
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) 1.46 1.53 99.7 0.298 8.28 11.7 1661
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 MAD THROUGHOUT 1.46 27.93 2 12910 1325 94.2 0.16 0.16 0.1593 0.194 0.1925 RANDOM 13.8
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] -0.12 -1.31 1.44
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.9 c_scangle_it 3.79 c_scbond_it 2.62 c_mcangle_it 2.3 c_angle_deg 2 c_mcbond_it 1.54 c_improper_angle_d 1.4 c_bond_d 0.039 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.9 c_scangle_it 3.79 c_scbond_it 2.62 c_mcangle_it 2.3 c_angle_deg 2 c_mcbond_it 1.54 c_improper_angle_d 1.4 c_bond_d 0.039 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 705 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms 2
Software Software Software Name Purpose CNS refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing