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Crystal structure of the Pcryo_0619 N-acetyltransferase from Psychrobacter cryohalolentis K5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8VR6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 2.2-2.5 M ammonium sulfate, 2% hexyleneglycol, 100 mM HEPPS (pH 8)
Crystal Properties Matthews coefficient Solvent content 2.52 51.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.67 α = 90 b = 106.67 β = 90 c = 180.4 γ = 120
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 ADSC QUANTUM 270 2019-08-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9792 APS 19-BM
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 1.75 50 98.5 0.066 31.5 8 114484
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 1.75 1.78 95.7 0.44 1.9 4.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.75 46.19 108704 5779 98.37 0.18893 0.18683 0.1956 0.2297 0.2358 RANDOM 31.142
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.602 r_dihedral_angle_2_deg 8.843 r_long_range_B_refined 8.042 r_long_range_B_other 8.042 r_dihedral_angle_1_deg 6.622 r_scangle_other 6.515 r_scbond_it 4.393 r_scbond_other 4.392 r_mcangle_it 3.394 r_mcangle_other 3.394
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.602 r_dihedral_angle_2_deg 8.843 r_long_range_B_refined 8.042 r_long_range_B_other 8.042 r_dihedral_angle_1_deg 6.622 r_scangle_other 6.515 r_scbond_it 4.393 r_scbond_other 4.392 r_mcangle_it 3.394 r_mcangle_other 3.394 r_mcbond_it 2.518 r_mcbond_other 2.517 r_angle_refined_deg 1.342 r_angle_other_deg 0.447 r_chiral_restr 0.058 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8066 Nucleic Acid Atoms Solvent Atoms 414 Heterogen Atoms 270
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing