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Crystal structure of human acyl-CoA synthetase medium-chain family member 2A (L64P mutation) in complex with ATP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3B7W PDB ENTRY 3B7W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 293 17% PEG 10000, 0.1M Ammonium acetate, 0.1M Bis-Tris pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.64 53.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.7 α = 90 b = 98.073 β = 90 c = 120.263 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 MARMOSAIC 325 mm CCD 2007-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.6 51.3 99.5 0.071 0.043 11.6 3.6 84181 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.69 97 0.594 0.372 2 3.3
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 (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 3B7W 1.6 49 84181 84181 4500 99.46 0.15806 0.15611 0.1647 0.19423 0.2044 RANDOM 17.104
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] -0.02 -1.05 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.165 r_dihedral_angle_4_deg 13.49 r_dihedral_angle_3_deg 12.372 r_scangle_it 7.869 r_dihedral_angle_1_deg 6.635 r_scbond_it 5.586 r_mcangle_it 3.843 r_mcbond_it 2.571 r_angle_refined_deg 1.653 r_angle_other_deg 0.979
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.165 r_dihedral_angle_4_deg 13.49 r_dihedral_angle_3_deg 12.372 r_scangle_it 7.869 r_dihedral_angle_1_deg 6.635 r_scbond_it 5.586 r_mcangle_it 3.843 r_mcbond_it 2.571 r_angle_refined_deg 1.653 r_angle_other_deg 0.979 r_mcbond_other 0.791 r_chiral_restr 0.107 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 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 4149 Nucleic Acid Atoms Solvent Atoms 776 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing