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Crystal structure of trans-aconitate methyltransferase from Agrobacterium tumefaciens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 289 0.1M Na(OAC) pH 4.5, 25% PEG3350, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.83 56.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.097 α = 90 b = 103.097 β = 90 c = 107.457 γ = 120
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 ADSC QUANTUM 315 2007-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97926 APS 19-ID
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 1.95 50 99.3 0.081 30.65 10.5 47410 47098 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 93.8 0.677 1.6 5.8
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 1.95 41.24 44665 44665 2376 99.26 0.18713 0.18564 0.185 0.21435 0.2146 RANDOM 31.538
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] 0.5 0.25 0.5 -0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.847 r_dihedral_angle_3_deg 13.577 r_dihedral_angle_4_deg 12.196 r_dihedral_angle_1_deg 5.524 r_scangle_it 2.79 r_scbond_it 2.013 r_angle_refined_deg 1.24 r_mcangle_it 1.045 r_mcbond_it 0.895 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.847 r_dihedral_angle_3_deg 13.577 r_dihedral_angle_4_deg 12.196 r_dihedral_angle_1_deg 5.524 r_scangle_it 2.79 r_scbond_it 2.013 r_angle_refined_deg 1.24 r_mcangle_it 1.045 r_mcbond_it 0.895 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.246 r_symmetry_hbond_refined 0.239 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 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 3798 Nucleic Acid Atoms Solvent Atoms 403 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing