☰ Navigation Tabs
CRYSTAL STRUCTURE OF RAT PEROXISOMAL MULTIFUNCTIONAL ENZYME TYPE-1 (RPMFE1) COMPLEXED WITH 3-KETODECANOYL-COA IN CROTONASE FOLD AND OXIDISED NICOTINAMIDE ADENINE DINUCLEOTIDE IN HAD FOLD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5OMO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 125mM MES, pH 6; 17%w/v PEG4000; 175mM ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.8 56.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.314 α = 90 b = 126.298 β = 90 c = 224.9 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 PIXEL DECTRIS EIGER2 X 16M 2019-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 2.32 29.15 99.2 0.053 0.022 0.999 17.9 6.66 80007 53.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.33 2.37 86.6 0.798 0.359 0.649 2.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5OMO 2.33 29.149 79923 4072 99.048 0.205 0.2035 0.2034 0.2258 0.2257 70
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] 4.177 -1.923 -2.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.409 r_dihedral_angle_4_deg 18.441 r_dihedral_angle_3_deg 17.064 r_lrange_it 9.104 r_dihedral_angle_1_deg 6.093 r_scangle_it 2.187 r_mcangle_it 1.91 r_scbond_it 1.379 r_angle_refined_deg 1.186 r_mcbond_it 1.102
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.409 r_dihedral_angle_4_deg 18.441 r_dihedral_angle_3_deg 17.064 r_lrange_it 9.104 r_dihedral_angle_1_deg 6.093 r_scangle_it 2.187 r_mcangle_it 1.91 r_scbond_it 1.379 r_angle_refined_deg 1.186 r_mcbond_it 1.102 r_nbtor_refined 0.308 r_symmetry_xyhbond_nbd_refined 0.305 r_symmetry_nbd_refined 0.213 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.098 r_gen_planes_refined 0.006 r_bond_refined_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11000 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 234
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling REFMAC phasing