☰ Navigation Tabs
Structure of a human Prp31-15.5K-U4 snRNA complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E7K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 0.1 M calcium acetate, 0.1 M HEPES-NaOH, pH 7.0, 6 % PEG 6000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.31 62.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.555 α = 90 b = 99.896 β = 90 c = 169.645 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 MAR CCD 165 mm mirrors 2006-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.05 MPG/DESY, HAMBURG BW6
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 30 99.7 0.107 0.076 13.7 10.8 42155 42029 1 1
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) 1 2.6 2.7 97.6 0.663 0.663 1.5 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1E7K 2.6 30 42155 42029 2227 99.67 0.20784 0.20569 0.1952 0.24756 0.2317 RANDOM 53.782
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] 0.99 0.35 -1.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.293 r_dihedral_angle_3_deg 20.839 r_dihedral_angle_4_deg 20.115 r_dihedral_angle_1_deg 5.411 r_scangle_it 2.622 r_scbond_it 1.563 r_angle_refined_deg 1.501 r_mcangle_it 1.19 r_mcbond_it 0.661 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.293 r_dihedral_angle_3_deg 20.839 r_dihedral_angle_4_deg 20.115 r_dihedral_angle_1_deg 5.411 r_scangle_it 2.622 r_scbond_it 1.563 r_angle_refined_deg 1.501 r_mcangle_it 1.19 r_mcbond_it 0.661 r_nbtor_refined 0.305 r_nbd_refined 0.217 r_symmetry_vdw_refined 0.204 r_xyhbond_nbd_refined 0.15 r_symmetry_hbond_refined 0.138 r_chiral_restr 0.1 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_metal_ion_refined 0.003 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 5707 Nucleic Acid Atoms 1406 Solvent Atoms 228 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement MAR345 data collection DENZO data reduction SCALEPACK data scaling