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Structure of 6-aminohexanoate-dimer hydrolase, A61V/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WYB PDB ENTRY 1WYB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 283 2.2M ammonium sulfate, 0.2M lithium sulfate, 0.1M MES, pH 6.50, temperature 283K
Crystal Properties Matthews coefficient Solvent content 3.55 65.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.442 α = 90 b = 96.442 β = 90 c = 113.496 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 100 CCD RIGAKU JUPITER 210 2005-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.9000 SPring-8 BL38B1
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 1.5 50 100 0.125 44.91 10.9 96878 96878 -3 17.2
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 1.55 1.61 100 0.446 4.26 10.6 8782
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 1WYB 1.55 33.64 88723 8876 99.8 0.179 0.179 0.1806 0.192 0.1929 RANDOM 20.1
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] 1 0.28 1 -2
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 19.8 c_scangle_it 2.47 c_scbond_it 1.67 c_mcangle_it 1.56 c_mcbond_it 1.07 c_angle_deg 0.9 c_improper_angle_d 0.69 c_bond_d 0.004 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 19.8 c_scangle_it 2.47 c_scbond_it 1.67 c_mcangle_it 1.56 c_mcbond_it 1.07 c_angle_deg 0.9 c_improper_angle_d 0.69 c_bond_d 0.004 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 2965 Nucleic Acid Atoms Solvent Atoms 495 Heterogen Atoms 97
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction HKL-2000 data scaling CNS phasing