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Crystal structure of the first RRM domain of heterogeneous nuclear ribonucleoprotein L (HnRNP L)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WEX PDB ENTRY 1WEX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 287 0.1M HEPES, 25%w/v Polyethylene glycol 3,350, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 1.9 35.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.17 α = 90 b = 43.17 β = 90 c = 78.53 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2009-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 2.03 78.57 99.6 0.071 0.071 14 3.5 10581 10541 2 2
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 2.03 2.14 97.6 0.341 0.037 3.7 3.5 1521
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 PDB ENTRY 1WEX 2.04 39.25 10007 9988 502 99.81 0.20682 0.20437 0.2058 0.25473 0.2563 RANDOM 20.021
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] 0.72 0.36 0.72 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.75 r_dihedral_angle_4_deg 28.141 r_dihedral_angle_3_deg 14.921 r_dihedral_angle_1_deg 5.982 r_scangle_it 2.407 r_scbond_it 1.468 r_angle_refined_deg 1.112 r_mcangle_it 0.85 r_mcbond_it 0.422 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.75 r_dihedral_angle_4_deg 28.141 r_dihedral_angle_3_deg 14.921 r_dihedral_angle_1_deg 5.982 r_scangle_it 2.407 r_scbond_it 1.468 r_angle_refined_deg 1.112 r_mcangle_it 0.85 r_mcbond_it 0.422 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1278 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 30
Software Software Software Name Purpose MAR345dtb data collection PHASES phasing REFMAC refinement MOSFLM data reduction SCALA data scaling