☰ Navigation Tabs
Succinyl-CoA:3-ketoacid CoA transferase from pig heart covalently bound to CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NRB pdb entry 2NRB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 294 20% PEG3350, 100 mM TrisHCl, potassium citrate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.22 44.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.121 α = 89.6 b = 107.133 β = 80.21 c = 134.565 γ = 75.13
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 200 CCD ADSC QUANTUM 315 Crystal type Si(111), Mirrors M1: plane parabola Pt and Rh-coated Invar steel M2: torroid (2:1 demagnification) Pt and Rh-coated Si 2007-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11588 ALS 8.3.1
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 2.3 21.2 91.4 0.086 5.9 1.9 149078 149078 39
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) 2.3 2.42 82.5 0.237 2.3 1.8 19645
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 2NRB 2.3 21.2 149072 149072 7517 91.44 0.24665 0.24665 0.24523 0.2523 0.27339 RANDOM 33.249
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] -2.1 -1.27 1.12 5.73 1.39 -3.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.784 r_dihedral_angle_4_deg 12.12 r_dihedral_angle_3_deg 11.886 r_dihedral_angle_1_deg 5.407 r_scangle_it 4.88 r_scbond_it 3.11 r_mcangle_it 1.983 r_mcbond_it 1.15 r_angle_refined_deg 0.933 r_angle_other_deg 0.759
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.784 r_dihedral_angle_4_deg 12.12 r_dihedral_angle_3_deg 11.886 r_dihedral_angle_1_deg 5.407 r_scangle_it 4.88 r_scbond_it 3.11 r_mcangle_it 1.983 r_mcbond_it 1.15 r_angle_refined_deg 0.933 r_angle_other_deg 0.759 r_mcbond_other 0.301 r_chiral_restr 0.055 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 28269 Nucleic Acid Atoms Solvent Atoms 440 Heterogen Atoms 195
Software Software Software Name Purpose ADSC data collection AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling