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Methyltransferase domain of human suppressor of variegation 3-9 homolog 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MHV PDB entry 1MHV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 20% PEG 10000, 0.1 M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.62 53.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.748 α = 90 b = 63.925 β = 109.33 c = 64.529 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 IMAGE PLATE RIGAKU RAXIS IV++ 2007-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 96.9 0.084 15 2.4 22956 22956
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.08 92.9 0.336 3.4 2.3 2190
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 (All) 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 PDB entry 1MHV 2 35.38 21763 21763 1182 96.66 0.17851 0.17851 0.17659 0.1737 0.21252 0.2126 RANDOM 29.989
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] 0.39 0.41 -1.75 1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.523 r_dihedral_angle_4_deg 16.6 r_dihedral_angle_3_deg 14.017 r_dihedral_angle_1_deg 6.371 r_scangle_it 3.833 r_scbond_it 2.591 r_mcangle_it 1.585 r_angle_refined_deg 1.551 r_mcbond_it 0.966 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.523 r_dihedral_angle_4_deg 16.6 r_dihedral_angle_3_deg 14.017 r_dihedral_angle_1_deg 6.371 r_scangle_it 3.833 r_scbond_it 2.591 r_mcangle_it 1.585 r_angle_refined_deg 1.551 r_mcbond_it 0.966 r_nbtor_refined 0.306 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.167 r_xyhbond_nbd_refined 0.146 r_symmetry_hbond_refined 0.119 r_chiral_restr 0.112 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 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 2153 Nucleic Acid Atoms Solvent Atoms 254 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing