☰ Navigation Tabs
Synthetic Gene Encoded DcpS bound to inhibitor DG156844
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ST0 PDB entry 1ST0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 PEG 3350, Ammonium Formate, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.05 39.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.257 α = 118.81 b = 56.271 β = 92.39 c = 60.334 γ = 99.99
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 RIGAKU SATURN 944 MIRRORS 2007-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
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 2.31 50 96.2 0.123 7.2 2 23402 1 1
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) 2.31 2.39 94.4 0.43 2 2293
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 PDB entry 1ST0 2.31 28.95 22214 1184 96.05 0.21404 0.21071 0.2162 0.27605 0.2294 RANDOM 16.827
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 -0.06 0.21 -0.14 -0.29 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.606 r_dihedral_angle_4_deg 19.17 r_dihedral_angle_3_deg 16.436 r_dihedral_angle_1_deg 6.167 r_scangle_it 1.524 r_angle_refined_deg 1.21 r_scbond_it 0.983 r_angle_other_deg 0.877 r_mcangle_it 0.675 r_mcbond_it 0.594
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.606 r_dihedral_angle_4_deg 19.17 r_dihedral_angle_3_deg 16.436 r_dihedral_angle_1_deg 6.167 r_scangle_it 1.524 r_angle_refined_deg 1.21 r_scbond_it 0.983 r_angle_other_deg 0.877 r_mcangle_it 0.675 r_mcbond_it 0.594 r_symmetry_vdw_other 0.211 r_xyhbond_nbd_refined 0.198 r_nbd_refined 0.195 r_nbd_other 0.194 r_symmetry_vdw_refined 0.178 r_symmetry_hbond_refined 0.176 r_nbtor_refined 0.171 r_nbtor_other 0.082 r_mcbond_other 0.068 r_chiral_restr 0.067 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4759 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing