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Crystal structure of human choline alpha in complex with an inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CKQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 18-20% Peg-mme 5000, 0.1 M Magnesium Formate, 0.1 M HEPES pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.45 49.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.926 α = 90 b = 120.199 β = 90 c = 131.187 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 PILATUS 6M-F 2015-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.976 ESRF ID23-1
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 47.3 99.6 0.054 17.3 4.4 60320
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) 1 2 2.11 99.6 0.625 2.3 4.3
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 NONE 2CKQ 2 41.128 60256 3047 99.45 0.192 0.1893 0.1893 0.2342 0.2343 40.519
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] -0.86 2.442 -1.582
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.949 r_dihedral_angle_4_deg 18.383 r_dihedral_angle_3_deg 14.998 r_lrange_it 8.289 r_scangle_it 6.652 r_dihedral_angle_1_deg 6.206 r_mcangle_it 4.754 r_scbond_it 4.598 r_mcbond_it 3.41 r_angle_refined_deg 1.511
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.949 r_dihedral_angle_4_deg 18.383 r_dihedral_angle_3_deg 14.998 r_lrange_it 8.289 r_scangle_it 6.652 r_dihedral_angle_1_deg 6.206 r_mcangle_it 4.754 r_scbond_it 4.598 r_mcbond_it 3.41 r_angle_refined_deg 1.511 r_nbtor_refined 0.322 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.158 r_symmetry_xyhbond_nbd_refined 0.144 r_symmetry_nbd_refined 0.143 r_chiral_restr 0.106 r_metal_ion_refined 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5749 Nucleic Acid Atoms Solvent Atoms 283 Heterogen Atoms 113
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing