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The structure of UBR box (RRAA)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NIS PDB ENTRY 3NIS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 0.04M sodium cacodylate trihydrate pH 6.0, 0.04M magnesium acetate tetrahydrate, 30%(v/v) MPD, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.18 43.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.868 α = 90 b = 44.868 β = 90 c = 140.136 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 CCD ADSC QUANTUM 210 2009-12-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
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 2 50 92.8 0.08 12.4 4.9 19874
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) 2 2.07 91.3 0.596 5.1 1930
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 3NIS 2 22.73 19825 1039 92.76 0.1932 0.1906 0.1901 0.24 0.2393 RANDOM 39.8407
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] -0.02 -0.01 -0.02 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.502 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_4_deg 14.507 r_dihedral_angle_1_deg 5.647 r_scangle_it 2.53 r_scbond_it 1.591 r_mcangle_it 1.453 r_angle_refined_deg 1.211 r_mcbond_it 0.843 r_nbtor_refined 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.502 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_4_deg 14.507 r_dihedral_angle_1_deg 5.647 r_scangle_it 2.53 r_scbond_it 1.591 r_mcangle_it 1.453 r_angle_refined_deg 1.211 r_mcbond_it 0.843 r_nbtor_refined 0.296 r_symmetry_vdw_refined 0.241 r_nbd_refined 0.207 r_xyhbond_nbd_refined 0.155 r_symmetry_hbond_refined 0.145 r_chiral_restr 0.079 r_metal_ion_refined 0.028 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2571 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 12
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing