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Crystal structure of the C-terminal domain from the nuclear pore complex component NUP133 from Saccharomyces cerevisiae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 20% PEG 3350, 200mM Potassium Thiocyanate, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.433 α = 90 b = 52.678 β = 90 c = 76.674 γ = 90
Symmetry Space Group P 21 21 21
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 RAYONIX MX225HE 2009-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 31 99.7 0.121 10.6 7.7 15683 19.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 100 0.414 4.6 7.8 2236
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 1.9 23 15628 811 99.67 0.193 0.191 0.1987 0.245 0.2521 RANDOM 23.975
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] 0.01 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.694 r_dihedral_angle_3_deg 13.929 r_dihedral_angle_4_deg 13.775 r_dihedral_angle_1_deg 5.34 r_scangle_it 4.728 r_scbond_it 3.172 r_mcangle_it 1.991 r_angle_refined_deg 1.635 r_mcbond_it 1.282 r_angle_other_deg 1.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.694 r_dihedral_angle_3_deg 13.929 r_dihedral_angle_4_deg 13.775 r_dihedral_angle_1_deg 5.34 r_scangle_it 4.728 r_scbond_it 3.172 r_mcangle_it 1.991 r_angle_refined_deg 1.635 r_mcbond_it 1.282 r_angle_other_deg 1.001 r_mcbond_other 0.3 r_symmetry_vdw_refined 0.28 r_nbd_refined 0.226 r_nbd_other 0.193 r_nbtor_refined 0.187 r_symmetry_vdw_other 0.183 r_xyhbond_nbd_refined 0.164 r_symmetry_hbond_refined 0.149 r_chiral_restr 0.099 r_nbtor_other 0.092 r_bond_refined_d 0.018 r_bond_other_d 0.008 r_gen_planes_refined 0.007 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1669 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction SCALA data scaling SHELX phasing SHELXD phasing SHELXE model building