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The structure of UBR box (RDAA)
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 0.1M Bis-Tris pH 5.5, 0.2M ammonium acetate, 25%(w/v) PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.12 41.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.323 α = 90 b = 44.323 β = 90 c = 139.506 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 2009-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 4A 1.0000 PAL/PLS 4A
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 1.75 50 99.2 0.064 10.8 6.5 30761
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) 1.75 1.78 96.8 0.498 6.2 1530
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 1.75 38.38 30607 1540 98.87 0.2103 0.2075 0.2068 0.2616 0.2575 RANDOM 31.4541
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.944 r_dihedral_angle_3_deg 14.205 r_dihedral_angle_4_deg 9.622 r_dihedral_angle_1_deg 5.402 r_scangle_it 2.458 r_scbond_it 1.561 r_mcangle_it 1.276 r_angle_refined_deg 1.133 r_mcbond_it 0.679 r_chiral_restr 0.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.944 r_dihedral_angle_3_deg 14.205 r_dihedral_angle_4_deg 9.622 r_dihedral_angle_1_deg 5.402 r_scangle_it 2.458 r_scbond_it 1.561 r_mcangle_it 1.276 r_angle_refined_deg 1.133 r_mcbond_it 0.679 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2546 Nucleic Acid Atoms Solvent Atoms 463 Heterogen Atoms 20
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