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CRYSTAL STRUCTURE OF a SAM dependent methyl-transferase type 12 family protein (ECA1738) FROM PECTOBACTERIUM ATROSEPTICUM SCRI1043 AT 1.74 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 NANODROP, 64.4% 2-methyl-2,4-pentanediol, 0.1M Tris-HCl pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.38 48.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.83 α = 90 b = 120.83 β = 90 c = 149.967 γ = 90
Symmetry Space Group I 4 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 100 CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2007-03-02 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97899, 0.97925 SSRL BL11-1
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 1.74 29.111 100 0.09 0.09 6.3 7.3 56875 25.14
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 1.74 1.79 100 0.011 1.108 0.7 7.4 4169
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 (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 MAD THROUGHOUT 1.74 29.111 56875 2883 99.92 0.156 0.156 0.155 0.1633 0.18 0.1907 RANDOM 26.628
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] 1.35 1.35 -2.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.528 r_dihedral_angle_3_deg 13.212 r_dihedral_angle_4_deg 12.778 r_scangle_it 6.885 r_dihedral_angle_1_deg 5.883 r_scbond_it 4.692 r_mcangle_it 2.829 r_mcbond_it 1.734 r_angle_refined_deg 1.45 r_angle_other_deg 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.528 r_dihedral_angle_3_deg 13.212 r_dihedral_angle_4_deg 12.778 r_scangle_it 6.885 r_dihedral_angle_1_deg 5.883 r_scbond_it 4.692 r_mcangle_it 2.829 r_mcbond_it 1.734 r_angle_refined_deg 1.45 r_angle_other_deg 0.9 r_mcbond_other 0.71 r_symmetry_vdw_refined 0.322 r_symmetry_vdw_other 0.276 r_nbd_refined 0.216 r_nbd_other 0.198 r_nbtor_refined 0.188 r_symmetry_hbond_refined 0.167 r_xyhbond_nbd_refined 0.142 r_metal_ion_refined 0.109 r_chiral_restr 0.091 r_nbtor_other 0.087 r_symmetry_metal_ion_refined 0.067 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3616 Nucleic Acid Atoms Solvent Atoms 366 Heterogen Atoms 26
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing autoSHARP phasing