9BYO: Glucagon-like peptide 1 receptor

Cryo-EM structure of glucagon-like peptide-1 receptor (GLP-1R)-Gs complex with Exendin-asp3. Determined by electron microscopy at 2.31 Å resolution. Released 11 Jun 2025.

Method: Electron microscopy
Resolution: 2.31 Å
Organisms: Homo sapiens, synthetic construct, Lama glama
Chains: 6
Atoms: 9,380
Mol. weight: 164.28 kDa
Released: 11 Jun 2025

Explore 9BYO in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9BYO contains 47 α-helices and 56 β-strands across 6 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: 12 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	12-38	27
β-strand	40-47	8	5
α-helix	49-51	3
α-helix	53-63	11
β-strand	207-214	8	5
β-strand	217-224	8	5
α-helix	234-238	5
β-strand	243-248	6	5
α-helix	265-277	13
α-helix	280-282	3
β-strand	286-291	6	5
α-helix	294-303	10
α-helix	308-311	4
α-helix	313-315	3
α-helix	326-327	2
α-helix	332-350	19
β-strand	359-363	5	5
α-helix	371-390	20

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-24	21
α-helix	30-34	5
α-helix	38-39	2
β-strand	47-51	5	6
β-strand	58-63	6	7
β-strand	69-74	6	7
β-strand	78-83	6	7
β-strand	88-94	7	7
β-strand	100-105	6	8
β-strand	111-116	6	8
β-strand	121-125	5	8
β-strand	134-139	6	8
β-strand	146-151	6	9
β-strand	156-161	6	9
β-strand	166-170	5	9
β-strand	175-180	6	9
β-strand	187-192	6	10
β-strand	198-203	6	10
β-strand	208-212	5	10
β-strand	217-222	6	10
β-strand	229-234	6	11
β-strand	240-245	6	11
β-strand	250-254	5	11
β-strand	259-264	6	11
β-strand	273-278	6	12
β-strand	284-289	6	12
β-strand	294-298	5	12
β-strand	303-308	6	12
β-strand	315-320	6	6
β-strand	327-331	5	6
β-strand	336-339	4	6

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	8-23	16
α-helix	30-43	14
α-helix	54-55	2

Chain N: 3 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	13
β-strand	10-11	2	14
β-strand	18-25	8	13
α-helix	29-31	3
β-strand	34-39	6	14
β-strand	45-51	7	14
β-strand	58-60	3	14
α-helix	62-64	3
β-strand	68-73	6	13
β-strand	78-83	6	13
α-helix	88-90	3
β-strand	92-98	7	14
β-strand	118	1	14
β-strand	120	1	13
β-strand	122-125	4	14

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-27	26

Chain R: 25 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	32-52	21
α-helix	54-55	2
β-strand	62	1	1
α-helix	63-64	2
β-strand	65-66	2	2
β-strand	71-72	2	2
β-strand	75	1	1
β-strand	79-84	6	3
α-helix	85-86	2
β-strand	99-104	6	3
β-strand	110	1	3
α-helix	111	1
β-strand	112	1	4
α-helix	113	1
β-strand	119	1	4
α-helix	120	1
β-strand	122	1	3
α-helix	137-168	32
α-helix	170-172	3
α-helix	175-204	30
α-helix	207-215	9
α-helix	220-222	3
α-helix	224-255	32
α-helix	262-270	9
α-helix	271-275	5
α-helix	278-291	14
α-helix	295-297	3
α-helix	303-337	35
α-helix	345-360	16
α-helix	362-364	3
α-helix	365-368	4
α-helix	372-374	3
α-helix	378-399	22
α-helix	400-404	5
α-helix	407-421	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Glucagon-like peptide 1 receptor	R	protein	491	Homo sapiens	P43220 (AlphaFold model)
Exendin-3	P	protein	39	synthetic construct	P20394 (AlphaFold model)
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	394	Homo sapiens	P63092 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	340	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	58	Homo sapiens	P59768
Nb35	N	protein	128	Lama glama

Sequence of entity 1 (R), FASTA

>9BYO_1 Glucagon-like peptide 1 receptor (chains R)
MKTIIALSYIFCLVFADYKDDDDLEVLFQGPARPQGATVSLWETVQKWREYRRQCQRSLT
EDPPPATDLFCNRTFDEYACWPDGEPGSFVNVSCPWYLPWASSVPQGHVYRFCTAEGLWL
QKDNSSLPWRDLSECEESKRGERSSPEEQLLFLYIIYTVGYALSFSALVIASAILLGFRH
LHCTRNYIHLNLFASFILRALSVFIKDAALKWMYSTAAQQHQWDGLLSYQDSLSCRLVFL
LMQYCVAANYYWLLVEGVYLYTLLAFSVFSEQWIFRLYVSIGWGVPLLFVVPWGIVKYLY
EDEGCWTRNSNMNYWLIIRLPILFAIGVNFLIFVRVICIVVSKLKANLMCKTDIKCRLAK
STLTLIPLLGTHEVIFAFVMDEHARGTLRFIKLFTELSFTSFQGLMVAILYCFVNNEVQL
EFRKSWERWRLEHLHIQRDSSMKPLKCPTSSLSSGATAGSSMYTATCQASCSPAGLEVLF
QGPHHHHHHHH

Sequence of entity 2 (P), FASTA

>9BYO_2 Exendin-3 (chains P)
HGDGTFTSDLSKQMEEEAVRLFIEWLKNGGPSSGAPPPS

Sequence of entity 3 (A), FASTA

>9BYO_3 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKNTIVKQM
RILHVNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELA
NPENQFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLD
KIDVIKQADYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFND
VTAIIFVVASSSYNMVIREDNQTNRLQAALKLFDSIWNNKWLRDTSVILFLNKQDLLAEK
VLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY
PHFTCAVDTENIRRVFNDCRDIIQRMHLRQYELL

Sequence of entity 4 (B), FASTA

>9BYO_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
QSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 5 (G), FASTA

>9BYO_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
NTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFR

Sequence of entity 6 (N), FASTA

>9BYO_6 Nb35 (chains N)
QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISY
TGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQ
GTQVTVSS

Primary citation

Structural insights in the activation of GLP-1R by biased ligands. Zhang, X., Belousoff, M.J., Danev, R. et al. To be published.

Other PDB entries of the same protein (UniProt P43220 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4ZGM 1.8 Å, Crystal structure of Semaglutide peptide backbone in complex with the GLP-1 receptor…
5OTU 1.8 Å, Extracellular domain of GLP-1 receptor in complex with GLP-1 variant Ala8Hcs/Thr11Hcs
5OTT 1.92 Å, Extracellular domain of GLP-1 receptor in complex with exendin-4 variant Gly2Hcs/Thr5Hcs
5E94 2.0 Å, Antibody-bound Glucagon-like Peptide-1 receptor extracellular domain
5OTV 2.0 Å, Extracellular domain of GLP-1 receptor in complex with GLP-1 variant Ala8Cyc/Thr11Hcs
5OTX 2.0 Å, Extracellular domain of GLP-1 receptor in complex with GLP-1 variant Ala8Cys/Thr11Cys
3C5T 2.1 Å, Crystal structure of the ligand-bound glucagon-like peptide-1 receptor extracellular…
3IOL 2.1 Å, Crystal structure of Glucagon-Like Peptide-1 in complex with the extracellular domain of…
5OTW 2.1 Å, Extracellular domain of GLP-1 receptor in complex with GLP-1 variant Ala8Hcs/Thr11Cys
6X18 2.1 Å, GLP-1 peptide hormone bound to Glucagon-Like peptide-1 (GLP-1) Receptor
6X19 2.1 Å, Non peptide agonist CHU-128, bound to Glucagon-Like peptide-1 (GLP-1) Receptor
9NTU 2.1 Å, Cryo-EM structure of BETP-GLP-1(9-36)-GLP-1R-Gs complex

Browse structure collections

About this viewer

MolViewer shows 9BYO directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.