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Crystal structure of Streptomyces cholesterol oxidase H447Q/E361Q mutant bound to glycerol (0.98A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MXT PDB ENTRY 1MXT; ADP, HETEROATOMS, WATERS AND ACTIVE SITE SIDECHAINS REMOVED FROM STARTING MODEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 291 10% PEG 8000, 75mM magnesium sulfate, 100mM cacodylate, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.1 41.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.314 α = 90 b = 73.643 β = 104.98 c = 63.275 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 ADSC QUANTUM 315 vertical focusing mirror M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.93 SSRL BL9-1
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 0.98 38.11 99.9 0.066 7.8 3.75 246315 259284 6.9
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 0.98 1.02 99.9 0.48 2.1 3.38
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 FOURIER SYNTHESIS FREE R PDB ENTRY 1MXT; ADP, HETEROATOMS, WATERS AND ACTIVE SITE SIDECHAINS REMOVED FROM STARTING MODEL 0.98 34.4 246315 12969 94.9 0.1291 0.1292 0.1215 0.1589 0.1478 RANDOM 13.885
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 127 3342.12 4503.74
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.094 s_non_zero_chiral_vol 0.092 s_zero_chiral_vol 0.082 s_similar_adp_cmpnt 0.042 s_from_restr_planes 0.033 s_angle_d 0.029 s_bond_d 0.012 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist s_anti_bump_dis_restr
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3839 Nucleic Acid Atoms Solvent Atoms 754 Heterogen Atoms 81
Software Software Software Name Purpose d*TREK data scaling SHELX refinement PDB_EXTRACT data extraction HKL-2000 data collection d*TREK data reduction REFMAC phasing SHELXL-97 refinement