☰ Navigation Tabs
The 1,1-proton transfer reaction mechanism by alpha-methylacyl-CoA racemase is catalyzed by an aspartate/histidine pair and involves a smooth, methionine-rich surface for binding the fatty acyl moiety
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1X74 PDB ENTRY 1X74
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 294 1.52M Ammonium phosphate, 10mM Barium chloride, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.77 55.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 181.12 α = 90 b = 80.03 β = 91.58 c = 118.62 γ = 90
Symmetry Space Group C 1 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 MARRESEARCH Bent mirror 2004-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 1.395 MAX II I711
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 35 94.8 0.092 0.092 9.6 4.2 176396 22.5
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 1.7 1.75 91.4 0.407 3.3 14090
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1X74 1.7 19.8 161331 161331 8538 91.34 0.20986 0.208 0.20775 0.209 0.24988 0.2465 RANDOM 27.164
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.51 r_dihedral_angle_4_deg 15.214 r_dihedral_angle_3_deg 14.372 r_dihedral_angle_1_deg 5.914 r_scangle_it 3.191 r_scbond_it 2.273 r_angle_refined_deg 1.766 r_mcangle_it 1.404 r_mcbond_it 1.004 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.51 r_dihedral_angle_4_deg 15.214 r_dihedral_angle_3_deg 14.372 r_dihedral_angle_1_deg 5.914 r_scangle_it 3.191 r_scbond_it 2.273 r_angle_refined_deg 1.766 r_mcangle_it 1.404 r_mcbond_it 1.004 r_nbtor_refined 0.313 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.187 r_xyhbond_nbd_refined 0.177 r_symmetry_vdw_refined 0.154 r_chiral_restr 0.123 r_bond_refined_d 0.018 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10716 Nucleic Acid Atoms Solvent Atoms 1554 Heterogen Atoms 216
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling MOLREP phasing