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Structure of an ML-IAP/XIAP chimera bound to a peptidomimetic
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 1.3 A structure of the ML-IAP/XIAP protein bound to a different peptidomimetic, with the ligand and surrounding waters removed
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 Lithium sulfate, PEG 3350, Bis-tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.33 47.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.356 α = 90 b = 87.356 β = 90 c = 73.196 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate Osmic mirrors 2005-02-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 2.3 25 99.8 0.169 11 6.1 13116 13095 -3 26.4
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 2.3 2.38 100 0.597 3.4 6.1 1277
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.3 A structure of the ML-IAP/XIAP protein bound to a different peptidomimetic, with the ligand and surrounding waters removed 2.3 24.34 13116 12395 644 99.71 0.189 0.18954 0.18783 0.22385 0.2338 RANDOM 1.897
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] -0.8 -0.8 1.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.892 r_dihedral_angle_3_deg 14.717 r_dihedral_angle_4_deg 14.587 r_dihedral_angle_1_deg 5.036 r_angle_refined_deg 1.363 r_scangle_it 0.849 r_angle_other_deg 0.827 r_mcangle_it 0.611 r_scbond_it 0.528 r_mcbond_it 0.463
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.892 r_dihedral_angle_3_deg 14.717 r_dihedral_angle_4_deg 14.587 r_dihedral_angle_1_deg 5.036 r_angle_refined_deg 1.363 r_scangle_it 0.849 r_angle_other_deg 0.827 r_mcangle_it 0.611 r_scbond_it 0.528 r_mcbond_it 0.463 r_nbd_refined 0.218 r_symmetry_vdw_other 0.206 r_nbtor_refined 0.191 r_xyhbond_nbd_refined 0.187 r_nbd_other 0.182 r_symmetry_hbond_refined 0.154 r_symmetry_vdw_refined 0.125 r_nbtor_other 0.083 r_chiral_restr 0.077 r_mcbond_other 0.051 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1494 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms 95
Software Software Software Name Purpose REFMAC refinement MAR345 data collection DENZO data reduction SCALEPACK data scaling