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The structure of the trp RNA-binding attenuation protein (TRAP) bound to a 53-nucleotide RNA molecule containing GAGUU repeats
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C9S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 0.2M K-GLUTAMATE, 50 MM TRIETHANOLAMINE PH8.0, 10MM MGCL2, 8-11% MONOMETHYL ETHER PEG 2000 + 0.4M KCL AT END, pH 8.00
Crystal Properties Matthews coefficient Solvent content 2.4 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 142.077 α = 90 b = 111.493 β = 117.28 c = 138.232 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 120 1999-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.75 50 96.1 0.073 15 3 546919
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 1.75 1.78 82.6 0.45 1.7 2.2
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 1C9S 1.75 47.67 182643 1848 100 0.194 0.194 0.2339 0.242 0.2597 RANDOM
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_4_deg 21.025 r_dihedral_angle_3_deg 14.181 r_scangle_it 4.077 r_scbond_it 2.862 r_mcangle_it 1.698 r_angle_other_deg 1.694 r_mcbond_it 0.975 r_symmetry_vdw_refined 0.302 r_nbd_refined 0.228 r_symmetry_hbond_refined 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_4_deg 21.025 r_dihedral_angle_3_deg 14.181 r_scangle_it 4.077 r_scbond_it 2.862 r_mcangle_it 1.698 r_angle_other_deg 1.694 r_mcbond_it 0.975 r_symmetry_vdw_refined 0.302 r_nbd_refined 0.228 r_symmetry_hbond_refined 0.21 r_xyhbond_nbd_refined 0.19 r_chiral_restr 0.126 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d r_angle_refined_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11843 Nucleic Acid Atoms 968 Solvent Atoms 1466 Heterogen Atoms 330
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing