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RVD HA specifically contacts 5mC through van der Waals interactions
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 8-10% PEG3350 (w/v), 10% ethanol, 0.1 M MES pH 6.7
Crystal Properties Matthews coefficient Solvent content 2.62 53.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.786 α = 90 b = 88.022 β = 104.77 c = 89.349 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 CCD MAR CCD 130 mm 2017-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.9793 SSRF BL17U1
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 2.48 50 98.8 2.03 3.5 39755
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 2.48 2.547
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 2.48 50 39755 2095 91.79 0.22107 0.21778 0.22 0.28338 0.2789 RANDOM 46.039
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] 0.15 0.15 -1.15 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.154 r_dihedral_angle_4_deg 21.503 r_dihedral_angle_3_deg 19.028 r_long_range_B_other 10.206 r_long_range_B_refined 10.198 r_dihedral_angle_1_deg 9.69 r_mcangle_it 5.852 r_mcangle_other 5.852 r_scangle_other 5.58 r_mcbond_it 3.558
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.154 r_dihedral_angle_4_deg 21.503 r_dihedral_angle_3_deg 19.028 r_long_range_B_other 10.206 r_long_range_B_refined 10.198 r_dihedral_angle_1_deg 9.69 r_mcangle_it 5.852 r_mcangle_other 5.852 r_scangle_other 5.58 r_mcbond_it 3.558 r_mcbond_other 3.549 r_scbond_it 3.42 r_scbond_other 3.419 r_angle_refined_deg 1.813 r_angle_other_deg 1.207 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7210 Nucleic Acid Atoms 1382 Solvent Atoms 112 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing