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Crystal structure of Vinorine Synthase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 0.1 M TRIS-HCL PH 8.7, 2M AMMONIUM SULPHATE, 2% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.8 0.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.715 α = 90 b = 90.455 β = 90 c = 136.966 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 CCD MARRESEARCH 2004-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A EMBL/DESY, HAMBURG BW7A
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 2.6 20 98.6 0.03 7.1 3.4 31740 -3 76
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 2.6 2.64 99.1 0.03 29 3.4
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 MAD THROUGHOUT 2.6 20 30713 1004 98.6 0.213 0.211 0.207 0.272 0.2631 RANDOM 64.52
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] 1.9 2.15 -4.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.646 r_dihedral_angle_4_deg 21.792 r_dihedral_angle_3_deg 20.222 r_dihedral_angle_1_deg 6.617 r_scangle_it 4.77 r_scbond_it 3.168 r_angle_refined_deg 1.594 r_mcangle_it 1.17 r_mcbond_it 0.625 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.646 r_dihedral_angle_4_deg 21.792 r_dihedral_angle_3_deg 20.222 r_dihedral_angle_1_deg 6.617 r_scangle_it 4.77 r_scbond_it 3.168 r_angle_refined_deg 1.594 r_mcangle_it 1.17 r_mcbond_it 0.625 r_nbtor_refined 0.314 r_nbd_refined 0.23 r_symmetry_hbond_refined 0.228 r_symmetry_vdw_refined 0.206 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.136 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6465 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms
Software Software Software Name Purpose DM model building SCALEPACK data scaling Auto-Rickshaw phasing SHELXD phasing MLPHARE phasing DM phasing REFMAC refinement