☰ Navigation Tabs
Structure of the mRNA binding fragment of elongation factor SelB in complex with SECIS RNA.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WSU PDB ENTRY 1WSU,1LVA experimental model PDB 1LVA PDB ENTRY 1WSU,1LVA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 294 25% PEG4000, 0.1M Na-Acetate pH 4.6, 0.2M Ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.23 61.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 158.64 α = 90 b = 120.838 β = 100.18 c = 50.865 γ = 90
Symmetry Space Group C 1 2 1
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 MAR CCD 165 mm 2003-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.9797 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.6 95.563 99.7 0.115 0.115 6 3.7 27498 28977
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.6 2.74 100 0.517 0.517 1.3 3.7
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 1WSU,1LVA 2.6 95.35 27498 1474 99.64 0.22978 0.22677 0.2269 0.28691 0.2749 RANDOM 28.325
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] -0.11 -0.92 0.06 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.276 r_dihedral_angle_3_deg 22.169 r_dihedral_angle_4_deg 21.1 r_dihedral_angle_1_deg 7.222 r_scangle_it 4.041 r_scbond_it 2.633 r_angle_refined_deg 2.237 r_mcangle_it 1.706 r_mcbond_it 0.894 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.276 r_dihedral_angle_3_deg 22.169 r_dihedral_angle_4_deg 21.1 r_dihedral_angle_1_deg 7.222 r_scangle_it 4.041 r_scbond_it 2.633 r_angle_refined_deg 2.237 r_mcangle_it 1.706 r_mcbond_it 0.894 r_nbtor_refined 0.316 r_xyhbond_nbd_refined 0.305 r_metal_ion_refined 0.272 r_nbd_refined 0.247 r_symmetry_hbond_refined 0.246 r_chiral_restr 0.226 r_symmetry_vdw_refined 0.205 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 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_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 3313 Nucleic Acid Atoms 976 Solvent Atoms 109 Heterogen Atoms 24
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction Xnemo data collection MOSFLM data reduction