☰ Navigation Tabs
HMG-CoA synthase from Brassica juncea in complex with acetyl-CoA and acetyl-cys117.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F82 PDB Entry: 2F82
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 17% PEG 20K, 0.25M TMAO, 100mM PIPES, 2mM dithiothreitol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.25 45.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.6 α = 90 b = 61.6 β = 90 c = 411.79 γ = 120
Symmetry Space Group P 61 2 2
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 2005-04-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.978565 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 50 97.4 0.113 16.26 7.9 16567
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.66 85.6 0.489 3.1
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: 2F82 2.52 50 15876 15876 848 98.3 0.18135 0.18135 0.17612 0.1817 0.28168 0.1745 RANDOM 28.532
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] 0.61 0.31 0.61 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.269 r_dihedral_angle_4_deg 22.982 r_dihedral_angle_3_deg 20.458 r_dihedral_angle_1_deg 7.769 r_scangle_it 3.722 r_scbond_it 2.501 r_angle_refined_deg 2.002 r_mcangle_it 1.527 r_mcbond_it 0.899 r_nbtor_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.269 r_dihedral_angle_4_deg 22.982 r_dihedral_angle_3_deg 20.458 r_dihedral_angle_1_deg 7.769 r_scangle_it 3.722 r_scbond_it 2.501 r_angle_refined_deg 2.002 r_mcangle_it 1.527 r_mcbond_it 0.899 r_nbtor_refined 0.317 r_nbd_refined 0.258 r_symmetry_vdw_refined 0.223 r_xyhbond_nbd_refined 0.187 r_symmetry_hbond_refined 0.173 r_chiral_restr 0.12 r_bond_refined_d 0.021 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3513 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement NEMO data reduction XDS data scaling MOLREP phasing