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crystal structure of a glycosyltransferase involved in the glycosylation of the major capsid of PBCV-1
Crystallization Crystal Properties Matthews coefficient Solvent content 2.43 49.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.448 α = 90 b = 61.776 β = 126.56 c = 76.091 γ = 90
Symmetry Space Group C 1 2 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 2007-02-15 M SINGLE WAVELENGTH
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 1.95 20 94.9 0.068 16.3 3.3 32704
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 1.95 2.02 92.8 0.456 3.4 3175
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 2 10 30485 1549 96.09 0.208 0.207 0.2083 0.233 0.2318 RANDOM 44.573
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] -0.51 0.12 0.2 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.795 r_dihedral_angle_4_deg 15.848 r_dihedral_angle_3_deg 13.159 r_dihedral_angle_1_deg 5.907 r_scangle_it 2.479 r_scbond_it 1.795 r_angle_refined_deg 1.274 r_mcangle_it 1.069 r_mcbond_it 0.718 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.795 r_dihedral_angle_4_deg 15.848 r_dihedral_angle_3_deg 13.159 r_dihedral_angle_1_deg 5.907 r_scangle_it 2.479 r_scbond_it 1.795 r_angle_refined_deg 1.274 r_mcangle_it 1.069 r_mcbond_it 0.718 r_nbtor_refined 0.311 r_symmetry_hbond_refined 0.225 r_nbd_refined 0.192 r_symmetry_vdw_refined 0.181 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.086 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3379 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms 38
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction