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Crystal structure of the C-terminal domain of mouse Nrdp1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 293 25% (w/v) polyethylene glycol 8000, 180 mM potassium thiocyanate, 100 mM Tris-HCl, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.89 57.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 157.427 α = 90 b = 58.227 β = 101.53 c = 37.387 γ = 90
Symmetry Space Group C 1 2 1
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 4 2005-01-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A NSLS X4A
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 1.95 30 85.2 0.092 25.3 4.3 20628
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 1.95 2.02 56.6 0.336 2.3 1348
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.95 20 20090 972 97.45 0.213 0.212 0.2108 0.234 0.2354 RANDOM 43.318
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] 1.68 0.8 0.46 -1.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.263 r_dihedral_angle_4_deg 15.593 r_dihedral_angle_3_deg 9.979 r_scangle_it 8.797 r_scbond_it 5.334 r_mcangle_it 2.865 r_mcbond_it 1.539 r_dihedral_angle_1_deg 1.463 r_angle_refined_deg 1.373 r_symmetry_vdw_refined 0.382
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.263 r_dihedral_angle_4_deg 15.593 r_dihedral_angle_3_deg 9.979 r_scangle_it 8.797 r_scbond_it 5.334 r_mcangle_it 2.865 r_mcbond_it 1.539 r_dihedral_angle_1_deg 1.463 r_angle_refined_deg 1.373 r_symmetry_vdw_refined 0.382 r_nbtor_refined 0.325 r_nbd_refined 0.281 r_symmetry_hbond_refined 0.226 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.092 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1960 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 15
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection