5VAI: Activated Glucagon-like peptide-1 receptor

Cryo-EM structure of the activated Glucagon-like peptide-1 receptor in complex with G protein. Determined by electron microscopy at 4.1 Å resolution. Released 24 May 2017.

Method: Electron microscopy
Resolution: 4.1 Å
Organisms: Oryctolagus cuniculus, Homo sapiens, Rattus norvegicus
Chains: 6
Atoms: 9,099
Mol. weight: 161.76 kDa
Released: 24 May 2017

Explore 5VAI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5VAI contains 45 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: 11 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	10-39	30
β-strand	41-46	6	5
α-helix	55-58	4
β-strand	210-214	5	5
β-strand	217-223	7	5
α-helix	234-237	4
β-strand	243-249	7	5
α-helix	265-278	14
β-strand	286-292	7	5
α-helix	294-303	10
α-helix	308-311	4
α-helix	313-315	3
α-helix	319-321	3
α-helix	326-327	2
α-helix	332-352	21
β-strand	359-360	2	5
β-strand	363	1	5
α-helix	372-390	19

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	3-24	22
α-helix	30-33	4
β-strand	47-52	6	6
β-strand	58-63	6	7
β-strand	69-74	6	7
β-strand	78-83	6	7
β-strand	89-94	6	7
β-strand	102-105	4	8
β-strand	111-115	5	8
β-strand	121-125	5	8
β-strand	135-139	5	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	218-222	5	10
β-strand	229-234	6	11
β-strand	240-245	6	11
β-strand	250-254	5	11
β-strand	260-264	5	11
α-helix	272	1
β-strand	273-278	6	12
β-strand	284-289	6	12
β-strand	294-298	5	12
β-strand	304-308	5	12
β-strand	315-320	6	6
β-strand	327-331	5	6
β-strand	335-339	5	6

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	9-23	15
α-helix	30-44	15
α-helix	45-47	3
α-helix	53-55	3

Chain N: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	13
β-strand	10-12	3	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
β-strand	68-73	6	13
β-strand	78-83	6	13
β-strand	92-98	7	14
β-strand	118	1	14
β-strand	122-126	5	14

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	8-33	26

Chain R: 25 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	32-52	21
α-helix	54-56	3
β-strand	62	1	1
α-helix	63	1
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	124-126	3
α-helix	138-168	31
α-helix	175-210	36
α-helix	213-222	10
α-helix	225-256	32
α-helix	262-273	12
α-helix	275-276	2
α-helix	277-281	5
α-helix	282-291	10
α-helix	305-334	30
α-helix	335-339	5
α-helix	340-342	3
α-helix	346-354	9
α-helix	357-360	4
α-helix	365-368	4
α-helix	380-399	20
α-helix	400-404	5
α-helix	407-420	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Uncharacterized protein	R	protein	461	Oryctolagus cuniculus	G1SGD4 (AlphaFold model)
Glucagon-like peptide 1	P	protein	31	Homo sapiens	P01275 (AlphaFold model)
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	380	Homo sapiens	P63092 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	351	Rattus norvegicus	P54311 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	68	Bos taurus	P63212
nanobody 35	N	protein	138	Lama glama

Sequence of entity 1 (R), FASTA

>5VAI_1 Uncharacterized protein (chains R)
MKTIIALSYIFCLVFADYKDDDDAAAGQPGNGSAFLLAPNRSHAPGGGGSLEVLFQGPGG
GSRPQGATVSLSETVQKWREYRRQCQHFLTEAPPLATGLFCNRTFDDYACWPDGAPGSFV
NVSCPWYLPWASNVLQGHVYRFCTAEGHWLPKDNSSLPWRDLSECEESRRGEKSSPEERL
LSLYIIYTVGYALSFSALVIASAILLGFRHLHCTRNYIHLNLFASFILRALSVFIKDAAL
KWMYSTAAQQHQWDGLLSYQDSLGCRLVFLLMQYCVAANYYWLLVEGAYLYTLLAFAVFS
EQRIFKLYLSIGWGVPLLFVIPWGIVKYLYEDEGCWTRNSNMNYWLIIRLPILFAIGVNF
LIFIRVICIVVSKLKANLMCKTDIKCRLAKSTLTLIPLLGTHEVIFAFVMDEHARGTLRF
VKLFTELSFTSFQGLMVAILYCFVNNEVQMEFRKSWERWRL

Sequence of entity 2 (P), FASTA

>5VAI_2 Glucagon-like peptide 1 (chains P)
HAEGTFTSDVSSYLEGQAAKEFIAWLVKGRG

Sequence of entity 3 (A), FASTA

>5VAI_3 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKSTIVKQM
RILHVNGFNGDSEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELANPENQFRVDYILSV
MNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLDKIDVIKQDDYVPSD
QDLLRCRVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYN
MVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPE
FARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRR
VFNDCRDIIQRMHLRQYELL

Sequence of entity 4 (B), FASTA

>5VAI_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRR
TLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSG
NYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALW
DIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDI
NAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGY
DDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 5 (G), FASTA

>5VAI_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFC

Sequence of entity 6 (N), FASTA

>5VAI_6 nanobody 35 (chains N)
QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISY
TGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQ
GTQVTVSSHHHHHHEPEA

Primary citation

Cryo-EM structure of the activated GLP-1 receptor in complex with a G protein. Zhang, Y., Sun, B., Feng, D. et al. Nature (2017) 546:248-253. DOI 10.1038/nature22394 · PubMed

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