2021-05-26 REL PDBe PDBe PDBe 2020-07-16 2021-05-26 2021-05-26 2021-05-26 European Commission FP7 GA ERC-2012 SyG_318987 ToPAG European Union Seneca Foundation Spain Native putative AMPAR-type glutamate receptor, de novo 3D classification C2 Martinez A Lucic V Martinez-Sanchez A Laugks U Kochovski Z Papantoniou C Zinzula L Baumeister W Lucic V Trans-synaptic assemblies link synaptic vesicles and neuroreceptors. Sci Adv US 7 2021 33674312 doi:10.1126/sciadv.abe6204 2375-2548 EMD-11404 other EM volume EMD-11405 other EM volume EMD-11406 other EM volume EMD-11407 other EM volume EMD-11408 associated EM volume Native putative AMPA-type ionotropic glutamate receptor imaged at excitatory neocortical rodent synapses Native putative AMPA-type ionotropic glutamate receptor imaged at excitatory neocortical rodent synapses 0
Postsynaptic complexes were detected by Morse density tracing and classified by Affinity propagation (both implemented in PySeg) to obtain putative AMPA receptor particles
Rattus norvegicus brain neocortex excitatory synapse postsynaptic 0.4 subtomogramAveraging cell 0.7 7.4 HEPES-buffered saline
140 mM NaCl, 5 mM KCl, 5 mM NaHCO3, 1.2 mM Na2HPO4, 1 mM MgCl2, 10 mM glucose, and 10 mM Hepes
 Quantifoil CARBON HOLEY ETHANE 300 HOMEMADE PLUNGER
Neocortical synaptosomal fraction
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.5 1.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 1.66 1 C2 31.268572 FSC 0.143 CUT-OFF RELION 2.1 318 17 5688 De novo Automated PySeg
Morse density tracing and affinity propagation classification. Afterwards, it is further classified in 3D with relion and using PDB-6QKZ as initial reference.
 4 206.0 RELION 2.1
3D classification by Relion
 MAXIMUM LIKELIHOOD RELION 2.1 emd_11408.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 64 64 64 0 0 0 64 64 64 437.76 437.76 437.76 90.0 90.0 90.0 X Y Z -1.5736395 1.4881498 -0.0011414903 0.16361813 6.84 6.84 6.84 0.166 AUTHOR Averaged density map.