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The 1.6A crystal structure of the geranyltransferase from Agrobacterium tumefaciens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 0.2M NaH2PO4, 20% PEG3350, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.83 32.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.341 α = 90 b = 79.807 β = 90 c = 51.85 γ = 90
Symmetry Space Group P 21 21 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 ADSC QUANTUM 315 mirrors 2006-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9798 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 1.6 51.85 98.61 0.067 30.73 8.9 33621 33154 2 2 18
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 1.6 1.642 86.99 0.362 2.31 5.9 2567
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 (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 SAD THROUGHOUT 1.6 33.8 33621 33154 1751 98.61 0.16914 0.16914 0.16813 0.1752 0.18804 0.198 RANDOM 17.106
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] -0.76 0.4 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.002 r_dihedral_angle_4_deg 14.488 r_dihedral_angle_3_deg 14.121 r_dihedral_angle_1_deg 4.58 r_scangle_it 3.385 r_scbond_it 2.387 r_angle_refined_deg 1.186 r_mcangle_it 1.133 r_mcbond_it 1.005 r_angle_other_deg 0.914
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.002 r_dihedral_angle_4_deg 14.488 r_dihedral_angle_3_deg 14.121 r_dihedral_angle_1_deg 4.58 r_scangle_it 3.385 r_scbond_it 2.387 r_angle_refined_deg 1.186 r_mcangle_it 1.133 r_mcbond_it 1.005 r_angle_other_deg 0.914 r_symmetry_vdw_other 0.31 r_symmetry_vdw_refined 0.237 r_nbd_refined 0.229 r_nbd_other 0.188 r_symmetry_hbond_refined 0.187 r_mcbond_other 0.181 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.173 r_nbtor_other 0.085 r_chiral_restr 0.062 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2114 Nucleic Acid Atoms Solvent Atoms 331 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data scaling HKL-3000 phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building