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CID of human RPRD1A in complex with a phosphorylated peptide from RPB1-CTD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HFG PDB entry 4HFG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 291 20% PEG-4000, 10% isopropanol, 0.1M HEPES., pH 7.5, vapor diffusion, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.4 48.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.264 α = 90 b = 93.264 β = 90 c = 36.027 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol XDSdataset 1 100 1 1 x-ray IMAGE PLATE RIGAKU RAXIS 2011-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 1.5418
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 1.9 30 98.26 0.119 14.7596 7.3 12196
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 1.9 2 96.34 0.93 7.2 1711
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 4HFG 1.9 29.51 12195 590 98.26 0.187 0.1843 0.194 0.2371 0.2456 RANDOM 23.393
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] 0.127 0.127 -0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.677 r_dihedral_angle_4_deg 22.862 r_dihedral_angle_3_deg 13.43 r_dihedral_angle_1_deg 5.439 r_angle_refined_deg 1.469 r_angle_other_deg 0.861 r_chiral_restr 0.08 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.677 r_dihedral_angle_4_deg 22.862 r_dihedral_angle_3_deg 13.43 r_dihedral_angle_1_deg 5.439 r_angle_refined_deg 1.469 r_angle_other_deg 0.861 r_chiral_restr 0.08 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1132 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 6
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction