8C1R: Glutamate receptor 2

Resting state homomeric GluA2 F231A mutant AMPA receptor in complex with TARP gamma-2. Determined by electron microscopy at 3.2 Å resolution. Released 30 Aug 2023.

Method: Electron microscopy
Resolution: 3.2 Å
Organism: Rattus norvegicus
Chains: 8
Atoms: 18,333
Mol. weight: 551.41 kDa
Ligands: POV, OLC, PLM, ZK1
Released: 30 Aug 2023

Explore 8C1R in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8C1R contains 106 α-helices and 111 β-strands across 8 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 22 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	395-399	5	1
β-strand	402	1	2
β-strand	406	1	2
β-strand	407-408	2	3
α-helix	412-414	3
α-helix	418-420	3
β-strand	421-422	2	3
α-helix	424-436	13
β-strand	440-444	5	1
β-strand	453	1	4
β-strand	460	1	4
α-helix	462-468	7
β-strand	474-475	2	1
β-strand	480	1	5
α-helix	483-488	6
β-strand	489-491	3	1
β-strand	496-498	3	5
β-strand	500-505	6	6
α-helix	510-513	4
α-helix	516-518	3
β-strand	521	1	7
α-helix	523-545	23
α-helix	548-550	3
α-helix	573-584	12
α-helix	596-628	33
α-helix	636-641	6
β-strand	646-648	3	6
β-strand	650	1	8
α-helix	654-660	7
α-helix	665-675	11
β-strand	683	1	8
α-helix	686-695	10
β-strand	700-705	6	6
α-helix	706-713	8
β-strand	720-722	3	6
β-strand	730-732	3	5
β-strand	735-737	3	1
α-helix	743-756	14
α-helix	758-763	6
α-helix	764-769	6
β-strand	787	1	9
α-helix	788	1
α-helix	789-791	3
α-helix	793-819	27

Chain B: 21 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	396-399	4	10
β-strand	407-408	2	11
β-strand	421-422	2	11
α-helix	424-436	13
β-strand	441-444	4	10
β-strand	451-452	2	12
β-strand	461-462	2	12
α-helix	463-469	7
β-strand	474-475	2	10
β-strand	480	1	13
α-helix	483-488	6
α-helix	491-492	2
α-helix	494	1
β-strand	496-498	3	13
β-strand	500-505	6	14
α-helix	510-513	4
α-helix	516-518	3
β-strand	521	1	15
α-helix	523-545	23
α-helix	573-584	12
α-helix	596-625	30
α-helix	636-641	6
β-strand	646-648	3	14
β-strand	650	1	16
α-helix	654-660	7
α-helix	665-675	11
β-strand	683	1	16
α-helix	686-695	10
β-strand	700-705	6	14
α-helix	706-714	9
β-strand	720-723	4	14
β-strand	730-732	3	13
β-strand	735	1	10
α-helix	743-756	14
α-helix	758-764	7
α-helix	765-769	5
α-helix	783-786	4
β-strand	787	1	7
α-helix	788	1
α-helix	793-822	30

Chain C: 24 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	395-399	5	17
β-strand	402	1	18
β-strand	406	1	18
β-strand	407-408	2	19
α-helix	412-414	3
α-helix	418-420	3
β-strand	421-422	2	19
α-helix	424-436	13
β-strand	440-444	5	17
β-strand	452-453	2	20
β-strand	460-461	2	20
α-helix	463-468	6
β-strand	474-480	7	17
α-helix	483-486	4
β-strand	489-491	3	17
α-helix	492	1
α-helix	494	1
β-strand	496-498	3	17
β-strand	500-505	6	21
α-helix	509-513	5
α-helix	516-518	3
β-strand	521	1	22
α-helix	523-545	23
α-helix	548-550	3
α-helix	573-584	12
α-helix	596-628	33
α-helix	637-641	5
β-strand	646-648	3	21
β-strand	650	1	23
α-helix	654-660	7
α-helix	665-675	11
β-strand	683	1	23
α-helix	686-695	10
β-strand	700-705	6	21
α-helix	706-713	8
β-strand	720-722	3	21
α-helix	725-726	2
β-strand	730-737	8	17
α-helix	743-756	14
α-helix	758-764	7
α-helix	765-769	5
β-strand	787	1	15
α-helix	788	1
α-helix	793-820	28

Chain D: 19 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	395-397	3	24
β-strand	402	1	25
β-strand	406-408	3	25
α-helix	410-412	3
β-strand	421-423	3	25
α-helix	424-436	13
β-strand	440-442	3	24
β-strand	451-454	4	26
β-strand	459-462	4	26
α-helix	463-468	6
β-strand	474	1	24
β-strand	475-480	6	27
α-helix	483-486	4
β-strand	489-490	2	28
β-strand	496-498	3	27
β-strand	500-505	6	29
α-helix	508-513	6
α-helix	516-518	3
β-strand	521	1	9
α-helix	523-544	22
α-helix	573-584	12
α-helix	596-625	30
α-helix	636-641	6
β-strand	646-648	3	29
β-strand	650	1	30
α-helix	654-661	8
α-helix	665-675	11
β-strand	683	1	30
α-helix	686-695	10
β-strand	700-705	6	29
α-helix	706-713	8
β-strand	720-723	4	29
β-strand	730-735	6	27
β-strand	736-737	2	28
α-helix	743-756	14
α-helix	758-764	7
α-helix	765-769	5
β-strand	787	1	22
α-helix	789-791	3
α-helix	793-822	30

Chain E: 5 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	8-29	22
β-strand	34-38	5	31
β-strand	57-61	5	31
β-strand	67-68	2	31
β-strand	77	1	31
α-helix	93-103	11
α-helix	106-124	19
α-helix	133-159	27
β-strand	176	1	31
α-helix	178-209	32

Chain F: 5 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	6-29	24
β-strand	34	1	32
β-strand	37-38	2	33
β-strand	57-58	2	33
β-strand	59	1	34
β-strand	65	1	35
β-strand	68	1	34
β-strand	79	1	35
α-helix	93-104	12
α-helix	106-126	21
α-helix	134-159	26
β-strand	176	1	32
α-helix	178-208	31

Chain G: 5 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	8-29	22
β-strand	34	1	36
β-strand	37-38	2	37
β-strand	57-58	2	37
β-strand	59	1	38
β-strand	61	1	36
β-strand	65-67	3	39
β-strand	68	1	38
β-strand	77-79	3	39
α-helix	93-103	11
α-helix	106-126	21
α-helix	133-161	29
β-strand	176	1	36
α-helix	178-209	32

Chain H: 5 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	6-29	24
β-strand	34	1	40
β-strand	36-38	3	41
β-strand	57-59	3	41
β-strand	65-67	3	42
β-strand	68	1	41
β-strand	77-79	3	42
α-helix	94-103	10
α-helix	106-127	22
α-helix	133-160	28
β-strand	176	1	40
α-helix	178-208	31

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Glutamate receptor 2	A, B, C, D	protein	891	Rattus norvegicus	P19491 (AlphaFold model)
Voltage-dependent calcium channel gamma-2 subunit	E, F, G, H	protein	322	Rattus norvegicus	Q71RJ2 (AlphaFold model)

Sequence of entity 1 (A, B, C, D), FASTA

>8C1R_1 Glutamate receptor 2 (chains A, B, C, D)
MQKIMHISVLLSPVLWGLIFGDYKDDDDKVSSNSIQIGGLFPRGADQEYSAFRVGMVQFS
TSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFI
TPSFPTDGTHPFVIQMRPDLKGALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKK
WQVTAINVGNINNDKKDETYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKG
YHYIIANLGFTDGDLLKIQFGGANVSGFQIVDYDDSLVSKFIERWSTLEEKEYPGAHTAT
IKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQ
VEGLSGNIKFDQNGKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLTELPSGNDTSGLE
NKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYG
ARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSK
PGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEF
GIFNSLWFSLGAFMRQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVS
PIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVA
RVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGTPVNLAVL
KLSEQGVLDKLKNKWWYDKGECGAKDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVAL
IEFCYKSRAEAKRMKVAKNPQNINPSSSQNSQNFATYKEGYNVYGIESVKI

Sequence of entity 2 (E, F, G, H), FASTA

>8C1R_2 Voltage-dependent calcium channel gamma-2 subunit (chains E, F, G, H)
GLFDRGVQMLLTTVGAFAAFSLMTIAVGTDYWLYSRGVCKTKSVSENETSKKNEEVMTHS
GLWRTCCLEGNFKGLCKQIDHFPEDADYEADTAEYFLRAVRASSIFPILSVILLFMGGLC
IAASEFYKTRHNIILSAGIFFVSAGLSNIIGIIVYISANAGDPSKSDSKKNSYSYGWSFY
FGALSFIIAEMVGVLAVHMFIDRHKQLRATARATDYLQASAITRIPSYRYRYQRRSRSSS
RSTEPSHSRDASPVGVKGFNTLPSTEISMYTLSRDPLKAATTPTATYNSDRDNSFLQVHN
CIQKDSKDSLHANTANRRTTPV

Ligands and cofactors

ID	Name	Formula	Copies
POV	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl…	C42 H82 N O8 P	5
OLC	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate	C21 H40 O4	4
PLM	Palmitic acid	C16 H32 O2	7
ZK1	{[7-morpholin-4-yl-2,3-dioxo-6-(trifluoromethyl)-3,4-dihydroquinoxalin-1(2H)-yl…	C14 H15 F3 N3 O6 P	4

Primary citation

Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Zhang, D., Ivica, J., Krieger, J.M. et al. Nature (2023) 621:877-882. DOI 10.1038/s41586-023-06528-0 · PubMed

Other PDB entries of the same protein (UniProt P19491 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6YK4 1.0 Å, Structure of the AMPA receptor GluA2o ligand-binding domain (S1S2J) in complex with the…
5NG9 1.15 Å, Crystal structure of the GluA2 ligand-binding domain (S1S2J) in complex with agonist…
6YK5 1.15 Å, Structure of the AMPA receptor GluA2o ligand-binding domain (S1S2J) in complex with the…
6YK3 1.2 Å, Structure of the AMPA receptor GluA2o ligand-binding domain (S1S2J) in complex with the…
5JEI 1.23 Å, Crystal structure of the GluA2 LBD in complex with FW
4IGT 1.24 Å, Crystal structure of the GluA2 ligand-binding domain (S1S2J) in complex with the agonist…
4YU0 1.26 Å, Crystal structure of a tetramer of GluA2 TR mutant ligand binding domains bound with…
5NIH 1.3 Å, Crystal structure of the GluA2 ligand-binding domain (S1S2J) in complex with agonist…
1MQI 1.35 Å, Crystal Structure of the GluR2 Ligand Binding Core (S1S2J) in Complex with…
5FTI 1.35 Å, Crystal structure of the GluA2 K738M-T744K LBD in complex with glutamate (lithium form)
4U21 1.39 Å, GluA2flip sLBD complexed with FW and (R,R)-2b crystal form E
4FAT 1.4 Å, Ligand-binding domain of GluA2 (flip) ionotropic glutamate receptor in complex with an…

Browse structure collections

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