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Crystal structure of Neuroblastoma suppressor of tumorigenicity 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4X1J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 PEG3350 25 %w/v, Magnesium Chloride 0.2M, bis-Tris 0.1M
Crystal Properties Matthews coefficient Solvent content 1.68 26.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.069 α = 90 b = 37.069 β = 90 c = 127.856 γ = 120
Symmetry Space Group P 31 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 MARMOSAIC 225 mm CCD 2005-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 1.27800 ESRF BM14
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 1.8 50 99.4 0.073 59 18.2 10031 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 94.5 2.3 9.4
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 4x1j 1.8 42.62 9496 479 99.22 0.21605 0.21411 0.2215 0.25778 0.2716 RANDOM 40.872
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] 0.39 0.2 0.39 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.243 r_dihedral_angle_4_deg 19.703 r_dihedral_angle_3_deg 11.349 r_dihedral_angle_1_deg 5.81 r_long_range_B_refined 4.648 r_long_range_B_other 4.299 r_scangle_other 2.08 r_mcangle_it 1.797 r_mcangle_other 1.796 r_angle_refined_deg 1.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.243 r_dihedral_angle_4_deg 19.703 r_dihedral_angle_3_deg 11.349 r_dihedral_angle_1_deg 5.81 r_long_range_B_refined 4.648 r_long_range_B_other 4.299 r_scangle_other 2.08 r_mcangle_it 1.797 r_mcangle_other 1.796 r_angle_refined_deg 1.306 r_scbond_it 1.241 r_scbond_other 1.239 r_mcbond_it 1.01 r_mcbond_other 0.999 r_angle_other_deg 0.765 r_chiral_restr 0.077 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 547 Nucleic Acid Atoms Solvent Atoms 50 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing