☰ Navigation Tabs
EthR2 in complex with SMARt-420 compound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5N1I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 293 0.2 M NaCl, 0.2 M Na citrate pH 4.2 and 15% PEG-MME 5000
Crystal Properties Matthews coefficient Solvent content 2.09 41.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.4 α = 90 b = 74.29 β = 90 c = 91.5 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 PIXEL DECTRIS PILATUS3 S 6M 2013-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97934 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) 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 2.3 60 98.4 0.118 0.998 20.4 10.3 18592 39.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.44 92.1 0.52 0.97 5.9 11.1
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 5N1I 2.3 57.67 17607 927 99.7 0.21653 0.21487 0.2197 0.24764 0.2568 RANDOM 36.571
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.803 r_dihedral_angle_4_deg 15.526 r_dihedral_angle_3_deg 14.656 r_long_range_B_other 8.434 r_long_range_B_refined 8.431 r_scangle_other 6.788 r_dihedral_angle_1_deg 5.02 r_scbond_it 4.274 r_scbond_other 4.273 r_mcangle_it 4.252
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.803 r_dihedral_angle_4_deg 15.526 r_dihedral_angle_3_deg 14.656 r_long_range_B_other 8.434 r_long_range_B_refined 8.431 r_scangle_other 6.788 r_dihedral_angle_1_deg 5.02 r_scbond_it 4.274 r_scbond_other 4.273 r_mcangle_it 4.252 r_mcangle_other 4.252 r_mcbond_it 2.916 r_mcbond_other 2.877 r_angle_refined_deg 1.767 r_angle_other_deg 1.026 r_chiral_restr 0.096 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 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 2896 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing