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Crystal structure of Methyltransferase from Pyrococcus furiosus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291 D9. 0.1 M Tris pH 8.5,
25% w/v PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2 38.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.877 α = 90 b = 46.877 β = 90 c = 331.412 γ = 120
Symmetry Space Group P 61 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 210 mirrors 2008-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.2 55.22 92.3 0.111 0.114 29.1 28.4 11261 10605
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 85 0.331 0.342 8.6 27.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.2 55.22 11261 10605 535 92.38 0.20195 0.19916 0.207 0.259 0.2602 RANDOM 33.206
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] 1.02 0.51 1.02 -1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.744 r_dihedral_angle_3_deg 21.407 r_dihedral_angle_4_deg 20.797 r_dihedral_angle_1_deg 7.263 r_scangle_it 5.154 r_scbond_it 3.373 r_angle_refined_deg 2.102 r_mcangle_it 1.911 r_mcbond_it 1.306 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.744 r_dihedral_angle_3_deg 21.407 r_dihedral_angle_4_deg 20.797 r_dihedral_angle_1_deg 7.263 r_scangle_it 5.154 r_scbond_it 3.373 r_angle_refined_deg 2.102 r_mcangle_it 1.911 r_mcbond_it 1.306 r_nbtor_refined 0.32 r_nbd_refined 0.251 r_symmetry_vdw_refined 0.218 r_symmetry_hbond_refined 0.19 r_xyhbond_nbd_refined 0.182 r_chiral_restr 0.181 r_bond_refined_d 0.024 r_gen_planes_refined 0.009 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1575 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms
Software Software Software Name Purpose CBASS data collection SHELXS phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling