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Crystal structure of XIAP BIR3 with CS3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G73 Chain D from PDB entry 1g73
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 294 drops contain 2 uL protein and 2 uL well solutions. protein solution: 4 mg/mL in 20 mM Tris pH 8.3, 200mM NaL. 2 mM CS3. well solution: 3.5 M Na Formate pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.32 47.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.913 α = 90 b = 39.94 β = 100 c = 49.929 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 2008-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.00 ALS 5.0.2
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 1.79 50 99.3 0.075 0.075 14.1 3.5 19119 19119 -3 16.6
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 1.79 1.85 94.8 0.096 2.8 2.7 1819
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 (All) 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 Chain D from PDB entry 1g73 1.8 49.15 16220 1855 95.47 0.17916 0.17916 0.17574 0.1754 0.20932 0.209 RANDOM 17.938
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] -0.71 -0.03 1.25 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.983 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_3_deg 12.769 r_dihedral_angle_1_deg 4.413 r_scangle_it 3.469 r_mcangle_it 2.979 r_scbond_it 2.268 r_mcbond_it 1.955 r_angle_refined_deg 1.126 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.983 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_3_deg 12.769 r_dihedral_angle_1_deg 4.413 r_scangle_it 3.469 r_mcangle_it 2.979 r_scbond_it 2.268 r_mcbond_it 1.955 r_angle_refined_deg 1.126 r_nbtor_refined 0.305 r_nbd_refined 0.191 r_symmetry_vdw_refined 0.152 r_symmetry_hbond_refined 0.117 r_xyhbond_nbd_refined 0.108 r_chiral_restr 0.073 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1506 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 76
Software Software Software Name Purpose BOS data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling