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Crystal structure of fragment 137 to 238 of the human Ski-like protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SBX PDB ENTRY 1SBX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 20% PEG 3350, 0.2M Ammonium nitrate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.51 51.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 210.82 α = 90 b = 70.12 β = 100.95 c = 116.28 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 315 MIRRORS 2008-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97623 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.45 19.83 97.8 0.074 0.074 12 2.6 61694 60345 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.45 2.51 98.7 0.597 0.597 2.26 2.63 4488
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 1SBX 2.45 19.83 57326 3018 100 0.23449 0.23239 0.2774 0.27428 0.3165 RANDOM 3.018
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] 0.52 -0.15 -0.46 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.031 r_dihedral_angle_4_deg 14.689 r_dihedral_angle_3_deg 13.034 r_dihedral_angle_1_deg 4.233 r_angle_other_deg 1.278 r_angle_refined_deg 0.808 r_scangle_it 0.499 r_scbond_it 0.318 r_mcangle_it 0.162 r_mcbond_it 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.031 r_dihedral_angle_4_deg 14.689 r_dihedral_angle_3_deg 13.034 r_dihedral_angle_1_deg 4.233 r_angle_other_deg 1.278 r_angle_refined_deg 0.808 r_scangle_it 0.499 r_scbond_it 0.318 r_mcangle_it 0.162 r_mcbond_it 0.078 r_chiral_restr 0.044 r_mcbond_other 0.021 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8968 Nucleic Acid Atoms Solvent Atoms 343 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling