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Mu2 adaptin subunit of the AP2 adaptor (C-terminal domain) complexed with Integrin alpha4 internalisation peptide QYKSILQE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BXX PDB ENTRY 1BXX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 2.2M NACL, 0.4M NAKPHOSPHATE, 20% V/V GLYCEROL, 0.1M MES PH6.5, 5MM DTT
Crystal Properties Matthews coefficient Solvent content 3.26 62.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.65 α = 90 b = 125.65 β = 90 c = 74.41 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 MARRESEARCH MIRRORS 2015-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E
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 2.75 74 97.2 0.06 14.2 4.9 17034 -9.9
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 2.75 2.9 80.8 0.32 3.7 4.6
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 PDB ENTRY 1BXX 2.77 108.82 16115 893 99.26 0.17697 0.17443 0.2006 0.2242 0.1913 RANDOM 62.116
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] -0.45 -0.23 -0.45 1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.072 r_dihedral_angle_4_deg 22.816 r_dihedral_angle_3_deg 20.605 r_dihedral_angle_1_deg 8.41 r_mcangle_it 7.868 r_scbond_it 7.179 r_mcbond_it 5.487 r_mcbond_other 5.486 r_angle_refined_deg 2.084 r_angle_other_deg 1.061
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.072 r_dihedral_angle_4_deg 22.816 r_dihedral_angle_3_deg 20.605 r_dihedral_angle_1_deg 8.41 r_mcangle_it 7.868 r_scbond_it 7.179 r_mcbond_it 5.487 r_mcbond_other 5.486 r_angle_refined_deg 2.084 r_angle_other_deg 1.061 r_chiral_restr 0.109 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2130 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing