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Crystal structure of hnRNPA2B1 in complex with RNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5EN1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.2 M Lithium sulfate monohydrate, 0.1 M BIS-TRIS pH 6.5, 25% w/v Polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.13 42.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.351 α = 90 b = 38.301 β = 92.43 c = 107.931 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS3 S 6M 2016-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97776 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.15 30 96.8 2.25 4.7 21583
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.23
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 5EN1 2.15 30 19662 1081 92.87 0.20549 0.20255 0.211 0.25772 0.2639 RANDOM 29.476
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] 0.33 -0.52 -0.49 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.917 r_dihedral_angle_3_deg 18.086 r_dihedral_angle_4_deg 16.402 r_dihedral_angle_1_deg 7.008 r_long_range_B_refined 6.045 r_long_range_B_other 6.038 r_scangle_other 3.994 r_mcangle_other 3.595 r_mcangle_it 3.594 r_scbond_it 2.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.917 r_dihedral_angle_3_deg 18.086 r_dihedral_angle_4_deg 16.402 r_dihedral_angle_1_deg 7.008 r_long_range_B_refined 6.045 r_long_range_B_other 6.038 r_scangle_other 3.994 r_mcangle_other 3.595 r_mcangle_it 3.594 r_scbond_it 2.48 r_scbond_other 2.479 r_mcbond_it 2.257 r_mcbond_other 2.245 r_angle_refined_deg 1.757 r_angle_other_deg 1.139 r_chiral_restr 0.115 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 2849 Nucleic Acid Atoms 426 Solvent Atoms 60 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction HKL-3000 data scaling PHASER phasing