☰ Navigation Tabs
The structure of UBR box (HIAA)
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 0.16M ammonium acetate, 0.01M calcium chloride dihydrate, 0.05M sodium cacodylate trihydrate pH 6.5, 8%(w/v) PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.83 56.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.323 α = 90 b = 58.323 β = 90 c = 111.22 γ = 120
Symmetry Space Group P 61 2 2
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 2009-03-25 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 2.1 50 99.6 0.082 13.7 21 7022
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) 2.1 2.18 100 0.522 20.6 673
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 2.1 23 6980 333 99.69 0.2631 0.2616 0.2682 0.2941 0.2817 RANDOM 63.926
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] -0.03 -0.02 -0.03 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.45 r_dihedral_angle_3_deg 14.916 r_dihedral_angle_4_deg 14.288 r_dihedral_angle_1_deg 5.148 r_scangle_it 1.251 r_angle_refined_deg 0.935 r_scbond_it 0.8 r_mcangle_it 0.749 r_mcbond_it 0.426 r_symmetry_vdw_refined 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.45 r_dihedral_angle_3_deg 14.916 r_dihedral_angle_4_deg 14.288 r_dihedral_angle_1_deg 5.148 r_scangle_it 1.251 r_angle_refined_deg 0.935 r_scbond_it 0.8 r_mcangle_it 0.749 r_mcbond_it 0.426 r_symmetry_vdw_refined 0.39 r_nbtor_refined 0.29 r_nbd_refined 0.177 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.079 r_metal_ion_refined 0.032 r_symmetry_hbond_refined 0.013 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 641 Nucleic Acid Atoms Solvent Atoms 19 Heterogen Atoms 3
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