☰ Navigation Tabs
Structure of the BIR domain from ML-IAP bound to a peptidomimetic
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 2.44 49.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.016 α = 90 b = 84.016 β = 90 c = 94.476 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 IMAGE PLATE MAR scanner 345 mm plate 2002-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 1.08 SSRL BL7-1
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 2.3 30 98.9 0.061 0.061 11.8 1.9 33128 32773 -3 40.6
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 2.3 2.38 98.3 0.431 0.431 1.9 1.9 3304
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 difference Fourier THROUGHOUT PDB entry 1OXN 2.3 20 31460 31130 1589 98.95 0.17 0.16916 0.16714 0.1734 0.20877 0.2117 RANDOM 33.954
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] 0.25 0.13 0.25 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.828 r_dihedral_angle_3_deg 16.939 r_dihedral_angle_4_deg 15.757 r_dihedral_angle_1_deg 4.776 r_scangle_it 3.428 r_mcangle_it 3.387 r_scbond_it 2.384 r_mcbond_it 2.33 r_angle_other_deg 1.168 r_angle_refined_deg 1.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.828 r_dihedral_angle_3_deg 16.939 r_dihedral_angle_4_deg 15.757 r_dihedral_angle_1_deg 4.776 r_scangle_it 3.428 r_mcangle_it 3.387 r_scbond_it 2.384 r_mcbond_it 2.33 r_angle_other_deg 1.168 r_angle_refined_deg 1.065 r_mcbond_other 0.419 r_nbd_refined 0.197 r_nbd_other 0.189 r_nbtor_refined 0.185 r_symmetry_vdw_other 0.161 r_symmetry_hbond_refined 0.161 r_xyhbond_nbd_refined 0.141 r_nbtor_other 0.088 r_symmetry_vdw_refined 0.074 r_chiral_restr 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3952 Nucleic Acid Atoms Solvent Atoms 270 Heterogen Atoms 61
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling