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Spinosyn Rhamnosyltransferase SpnG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2P6P PDB ENTRY 2P6P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.9 298.15 18% w/v PEG3350, 1% v/v glycerol, 13% w/v glucose, 0.1 M sodium cacodylate, pH 6.9, VAPOR DIFFUSION, SITTING DROP, temperature 298.15K
Crystal Properties Matthews coefficient Solvent content 2.42 49.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.16 α = 81.46 b = 57.06 β = 73.84 c = 68.113 γ = 85.95
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++ 2010-05-31 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.7 19.41 89.44 76134 72305
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 85.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2P6P 1.7 19.37 76134 72303 3801 89.45 0.18384 0.1814 0.1796 0.23053 0.229 RANDOM 21.533
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.969 r_dihedral_angle_4_deg 20.925 r_dihedral_angle_3_deg 14.317 r_dihedral_angle_1_deg 6.243 r_scangle_it 5.613 r_scbond_it 3.661 r_angle_other_deg 3.577 r_mcangle_it 2.183 r_angle_refined_deg 2.166 r_mcbond_it 1.347
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.969 r_dihedral_angle_4_deg 20.925 r_dihedral_angle_3_deg 14.317 r_dihedral_angle_1_deg 6.243 r_scangle_it 5.613 r_scbond_it 3.661 r_angle_other_deg 3.577 r_mcangle_it 2.183 r_angle_refined_deg 2.166 r_mcbond_it 1.347 r_chiral_restr 0.156 r_bond_refined_d 0.025 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5542 Nucleic Acid Atoms Solvent Atoms 578 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement CNS refinement StructureStudio data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing