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Structure and Function Analysis of Peptide Antagonists of Melanoma Inhibitor of Apoptosis (ML-IAP)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OXN PDB ENTRY 1OXN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 298 sodium acetate, PEG 300, DTT , pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.1 60.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.878 α = 90 b = 83.878 β = 90 c = 94.34 γ = 120
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 4 double crystal Si 111 monochromator 2002-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL1-5 1.033 SSRL BL1-5
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 2.7 30 99.8 0.141 0.141 8 2.1 20337 20139 53.112
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 2.7 2.8 99.4 0.35 0.35 2 2.1 2035
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1OXN 2.7 20 19324 19096 979 98.82 0.155 0.1553 0.15243 0.1512 0.21134 0.2053 copied from test set for 1OXN 44.175
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] 0.66 0.33 0.66 -1
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.421 r_mcangle_it 5.379 r_dihedral_angle_1_deg 5.141 r_scbond_it 3.908 r_mcbond_it 3.057 r_angle_refined_deg 1.079 r_nbd_refined 0.21 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.18 r_xyhbond_nbd_refined 0.15
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.421 r_mcangle_it 5.379 r_dihedral_angle_1_deg 5.141 r_scbond_it 3.908 r_mcbond_it 3.057 r_angle_refined_deg 1.079 r_nbd_refined 0.21 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.18 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3980 Nucleic Acid Atoms Solvent Atoms 403 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CNS phasing