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X-RAY CRYSTAL STRUCTURE AT 2.06A RESOLUTION OF HUMAN MITOCHONDRIAL BRANCHED CHAIN AMINOTRANSFERASE (BCATM) COMPLEXED WITH A BENZISOXAZOLE COMPOUND AND AN INTERNAL ALDIMINE LINKED PLP COFACTOR.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other In-house structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 MDL MORPHEUS SCREEN CONDITION B2, DTT.
Crystal Properties Matthews coefficient Solvent content 2.35 47.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.852 α = 90 b = 105.985 β = 90 c = 107.27 γ = 90
Symmetry Space Group P 21 21 21
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 SATURN A200 VARIMAX HF 2010-08-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.06 107.27 99.7 18.8 5.2 49096
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.06 2.17 100 0.483 0.483 0.592 0.253 1.6 5.2 7092
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 FOURIER SYNTHESIS THROUGHOUT In-house structure 2.06 20 46455 2473 99.32 0.1739 0.1711 0.1801 0.2264 0.2352 RANDOM 34.401
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] -1.91 0.74 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.387 r_dihedral_angle_4_deg 14.228 r_dihedral_angle_3_deg 11.914 r_dihedral_angle_1_deg 4.355 r_mcangle_it 3.965 r_mcbond_it 2.63 r_mcbond_other 2.626 r_angle_refined_deg 1.43 r_angle_other_deg 0.739 r_chiral_restr 0.077
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.387 r_dihedral_angle_4_deg 14.228 r_dihedral_angle_3_deg 11.914 r_dihedral_angle_1_deg 4.355 r_mcangle_it 3.965 r_mcbond_it 2.63 r_mcbond_other 2.626 r_angle_refined_deg 1.43 r_angle_other_deg 0.739 r_chiral_restr 0.077 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5733 Nucleic Acid Atoms Solvent Atoms 688 Heterogen Atoms 110
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing