☰ Navigation Tabs
Crystal structure of Bacillus stearothermophilus Farnesyl pyrophosphate synthase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RTR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 PEG 400, 0.1M Na accetate, 0.1M LiCl
Crystal Properties Matthews coefficient Solvent content 1.86 33.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.015 α = 90 b = 95.156 β = 90 c = 103.349 γ = 90
Symmetry Space Group P 21 21 21
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 270 2015-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.000 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.31 20 99.9 19.3 6.2 21879
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.34
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1RTR 2.31 20 20709 1120 99.34 0.21324 0.21117 0.2187 0.25221 0.2525 RANDOM 49.194
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] 0.38 -1.81 1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.177 r_dihedral_angle_4_deg 20.018 r_dihedral_angle_3_deg 18.552 r_long_range_B_other 7.607 r_long_range_B_refined 7.605 r_dihedral_angle_1_deg 6.315 r_scangle_other 5.566 r_mcangle_it 4.239 r_mcangle_other 4.239 r_scbond_it 3.643
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.177 r_dihedral_angle_4_deg 20.018 r_dihedral_angle_3_deg 18.552 r_long_range_B_other 7.607 r_long_range_B_refined 7.605 r_dihedral_angle_1_deg 6.315 r_scangle_other 5.566 r_mcangle_it 4.239 r_mcangle_other 4.239 r_scbond_it 3.643 r_scbond_other 3.642 r_mcbond_it 2.86 r_mcbond_other 2.858 r_angle_other_deg 2.768 r_angle_refined_deg 1.432 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3997 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Coot model building