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Crystal Structure of Aeropyrum pernix fibrillarin in complex with natively bound S-adenosyl-L-methionine at 1.7A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 296.15 20mM Tris.HCL pH8, 150mM NaCl, 200mM Imidazole, 20mM Tris.HCl pH7, 5% Isopropanol, 10% PEG 4000, pH 6.5, Vapor DIffusion, Sitting Drop, temperature 296.15K
Crystal Properties Matthews coefficient Solvent content 2.22 44.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.639 α = 66.28 b = 52.087 β = 84.55 c = 63.03 γ = 77.61
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 RIGAKU SATURN 92 2007-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54187
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 1.73 46.78 90.6 0.066 0.189 9.1 47059 2 1
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 1.73 46.78 40488 2163 90.64 0.18954 0.1871 0.1839 0.2335 0.2311 RANDOM 21.715
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] 0.05 -0.06 -0.09 0.08 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.392 r_dihedral_angle_4_deg 21.415 r_dihedral_angle_3_deg 13.027 r_dihedral_angle_1_deg 6.333 r_scangle_it 5.649 r_scbond_it 3.59 r_mcangle_it 2.318 r_angle_refined_deg 1.907 r_mcbond_it 1.376 r_chiral_restr 0.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.392 r_dihedral_angle_4_deg 21.415 r_dihedral_angle_3_deg 13.027 r_dihedral_angle_1_deg 6.333 r_scangle_it 5.649 r_scbond_it 3.59 r_mcangle_it 2.318 r_angle_refined_deg 1.907 r_mcbond_it 1.376 r_chiral_restr 0.143 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg 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 3694 Nucleic Acid Atoms Solvent Atoms 334 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement CNS refinement CrystalClear data collection d*TREK data reduction d*TREK data scaling CNS phasing