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Radiation damage in Aspergillus oryzae pro-tyrosinase oxygen-bound C92A mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3W6W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 18% polyethylene glycol (PEG) 3350, 30mM NH4NO3
Crystal Properties Matthews coefficient Solvent content 1.74 29.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.858 α = 90 b = 117.941 β = 91.35 c = 78.324 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 RAYONIX MX300HE 2015-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.900 SPring-8 BL44XU
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 1.54 50 99.1 0.081 24.3 3.7 142480
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 1.54 1.57 100 0.71 2 3.8
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 FREE R-VALUE 3W6W 1.54 30 142434 7196 99.2 0.1747 0.1546 0.157 0.2337 0.2074 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 12 8744.6
RMS Deviations Key Refinement Restraint Deviation s_from_restr_planes 0.3735 s_similar_adp_cmpnt 0.0491 s_non_zero_chiral_vol 0.0484 s_zero_chiral_vol 0.0455 s_rigid_bond_adp_cmpnt 0.0332 s_angle_d 0.017 s_bond_d 0.0048 s_similar_dist s_anti_bump_dis_restr s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8266 Nucleic Acid Atoms Solvent Atoms 493 Heterogen Atoms 6
Software Software Software Name Purpose DENZO data reduction HKL-2000 data scaling PHASER phasing SHELXL refinement