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Crystal structure of rat carnitine palmitoyltransferase 2 in complex with r-3-(hexadecanoylamino)-4-(trimethylazaniumyl)butanoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2DEB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 294 0.15 M DL-malic acid pH 7.0, 20% (w/v) PEG 3350 (Index 91, Hampton Research), VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.47 50.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.273 α = 90 b = 97.75 β = 90 c = 312.05 γ = 90
Symmetry Space Group C 2 2 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 MARRESEARCH 2005-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9795 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 1.78 50 91 0.064 0.034 22.26 7.2 139208 126696 0.18307
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) 1.78 1.89 95.6 0.146 0.078 12.71 6.4 21752
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 (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 2deb 1.78 50 120296 6400 91.17 0.17978 0.17749 0.1757 0.22331 0.2213 RANDOM 18.307
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 -0.24 0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.341 r_dihedral_angle_4_deg 15.74 r_dihedral_angle_3_deg 13.023 r_scangle_it 6.579 r_dihedral_angle_1_deg 5.755 r_scbond_it 4.677 r_mcangle_it 2.881 r_mcbond_it 2.18 r_angle_refined_deg 1.278 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.341 r_dihedral_angle_4_deg 15.74 r_dihedral_angle_3_deg 13.023 r_scangle_it 6.579 r_dihedral_angle_1_deg 5.755 r_scbond_it 4.677 r_mcangle_it 2.881 r_mcbond_it 2.18 r_angle_refined_deg 1.278 r_nbtor_refined 0.303 r_nbd_refined 0.198 r_symmetry_hbond_refined 0.152 r_symmetry_vdw_refined 0.138 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10015 Nucleic Acid Atoms Solvent Atoms 1076 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing