☰ Navigation Tabs
Crystal structure of a glycosyltransferase involved in the glycosylation of the major capsid of PBCV-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 50mM socium citrate, 200mM NaCl, 25% PEG3500, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.24 45.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.229 α = 90 b = 63.017 β = 115.42 c = 44.772 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2006-08-15 M SINGLE WAVELENGTH 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 1.5 30 90.6 0.067 15.3 3.4 31588
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 1.5 1.55 36.2 0.429 1.7 1256
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 THROUGHOUT 1.6 8 28206 2812 99.21 0.175 0.172 0.1817 0.195 0.2103 RANDOM 24.577
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] 1.2 1.44 -0.73 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.003 r_dihedral_angle_4_deg 17.859 r_dihedral_angle_3_deg 10.86 r_dihedral_angle_1_deg 5.671 r_scangle_it 2.557 r_scbond_it 1.783 r_angle_refined_deg 1.397 r_mcangle_it 1.066 r_mcbond_it 0.721 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.003 r_dihedral_angle_4_deg 17.859 r_dihedral_angle_3_deg 10.86 r_dihedral_angle_1_deg 5.671 r_scangle_it 2.557 r_scbond_it 1.783 r_angle_refined_deg 1.397 r_mcangle_it 1.066 r_mcbond_it 0.721 r_nbtor_refined 0.318 r_chiral_restr 0.231 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.15 r_xyhbond_nbd_refined 0.097 r_symmetry_hbond_refined 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1733 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 14
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction SHARP phasing