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Crystal structure of the AMPA receptor GluA2/A4 N-terminal domain heterodimer
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GPA PDB ENTRIES 4GPA AND 3HSY experimental model PDB 3HSY PDB ENTRIES 4GPA AND 3HSY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 17% PEG 3350 WITH 0.1-0.35 M AMMONIUM SULPHATE
Crystal Properties Matthews coefficient Solvent content 2.5 40.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.07 α = 90 b = 156.63 β = 90.02 c = 77.12 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2012-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 Diamond I04-1
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 2.5 39.68 96.3 0.06 12.2 3.2 45771 2
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 2.5 2.64 96 0.35 3 3.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRIES 4GPA AND 3HSY 2.5 39.16 45771 2398 96.15 0.17507 0.17159 0.23816 0.2527 RANDOM 58.23
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] 33.78 9.74 -46.52 12.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.892 r_dihedral_angle_4_deg 18.993 r_dihedral_angle_3_deg 16.243 r_dihedral_angle_1_deg 7.048 r_mcangle_it 4.443 r_mcbond_it 2.721 r_mcbond_other 2.721 r_scbond_it 2.275 r_angle_refined_deg 1.624 r_angle_other_deg 1.022
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.892 r_dihedral_angle_4_deg 18.993 r_dihedral_angle_3_deg 16.243 r_dihedral_angle_1_deg 7.048 r_mcangle_it 4.443 r_mcbond_it 2.721 r_mcbond_other 2.721 r_scbond_it 2.275 r_angle_refined_deg 1.624 r_angle_other_deg 1.022 r_chiral_restr 0.092 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 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_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 11148 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing