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Crystal structure of the DAP BII hexapeptide complex I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WOI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9.5 293 18% PEG 8000, 20% Glycerol, 2mM ZnCl2, 80mM CHES, 2mM Angiotensin II, pH 9.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.54 51.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.7 α = 90 b = 121.7 β = 90 c = 218.97 γ = 90
Symmetry Space Group P 43 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 CCD ADSC QUANTUM 270 2013-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.98000 Photon Factory BL-17A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 40 99.6 143581 2
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 3WOI 1.8 39.92 143581 7598 99.49 0.18441 0.18228 0.1905 0.22436 0.2302 RANDOM 27.198
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] 0.36 0.36 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.083 r_dihedral_angle_3_deg 15.895 r_dihedral_angle_4_deg 13.4 r_dihedral_angle_1_deg 6.316 r_long_range_B_refined 5.94 r_long_range_B_other 5.843 r_scangle_other 4.553 r_scbond_it 3.098 r_scbond_other 3.094 r_mcangle_other 3.051
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.083 r_dihedral_angle_3_deg 15.895 r_dihedral_angle_4_deg 13.4 r_dihedral_angle_1_deg 6.316 r_long_range_B_refined 5.94 r_long_range_B_other 5.843 r_scangle_other 4.553 r_scbond_it 3.098 r_scbond_other 3.094 r_mcangle_other 3.051 r_mcangle_it 3.05 r_mcbond_it 2.312 r_mcbond_other 2.303 r_angle_refined_deg 1.881 r_angle_other_deg 0.92 r_chiral_restr 0.119 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10820 Nucleic Acid Atoms Solvent Atoms 974 Heterogen Atoms 76
Software Software Software Name Purpose ADSC data collection REFMAC refinement MOSFLM data reduction SCALA data scaling