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x-ray structure of the psychrobacter cryohalolentis N-acetyltransferase Pcryo_0637 in the presence of coenzyme A and
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7L7Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 23-26 % MPD, 100 mM HEPES.
protein incubated with 5 mM coenzyme A and 10 mM UDP-2-acetamido-4-amino-2,4,3-trideoxy-D-glucose
Crystal Properties Matthews coefficient Solvent content 2.53 51.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.05 α = 90 b = 97.05 β = 90 c = 66.032 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 PIXEL Bruker PHOTON II 2019-03-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE BRUKER D8 QUEST 1.5418
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 1.3 50 98.3 0.054 20.3 8.1 56136
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 1.3 1.4 94.6 0.448 2.4 2.5
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 FOURIER SYNTHESIS FREE R-VALUE 7l7y 1.3 28.643 56136 2857 98.332 0.174 0.1731 0.1731 0.1945 0.194 15.413
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] 0.07 0.035 0.07 -0.228
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.14 r_dihedral_angle_4_deg 19.98 r_dihedral_angle_3_deg 12.503 r_dihedral_angle_1_deg 7.59 r_lrange_other 5.191 r_lrange_it 5.189 r_scangle_it 3.649 r_scangle_other 3.648 r_scbond_it 2.535 r_scbond_other 2.534
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.14 r_dihedral_angle_4_deg 19.98 r_dihedral_angle_3_deg 12.503 r_dihedral_angle_1_deg 7.59 r_lrange_other 5.191 r_lrange_it 5.189 r_scangle_it 3.649 r_scangle_other 3.648 r_scbond_it 2.535 r_scbond_other 2.534 r_mcangle_other 2.012 r_mcangle_it 2.01 r_angle_refined_deg 1.605 r_mcbond_it 1.434 r_angle_other_deg 1.427 r_mcbond_other 1.394 r_symmetry_xyhbond_nbd_refined 0.279 r_nbd_other 0.252 r_symmetry_nbd_refined 0.249 r_xyhbond_nbd_refined 0.218 r_nbd_refined 0.209 r_symmetry_nbd_other 0.184 r_nbtor_refined 0.163 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.073 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1612 Nucleic Acid Atoms Solvent Atoms 246 Heterogen Atoms 127
Software Software Software Name Purpose REFMAC refinement SAINT data reduction SADABS data scaling PHASER phasing