9P93: PAC1sR-VIP-Gs complex

Cryo-EM structure of the PAC1sR-VIP-Gs complex. Determined by electron microscopy at 3.2 Å resolution. Released 19 Nov 2025.

Method: Electron microscopy
Resolution: 3.2 Å
Organisms: Homo sapiens, Lama glama
Chains: 6
Atoms: 8,567
Mol. weight: 163.72 kDa
Released: 19 Nov 2025

Explore 9P93 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9P93 contains 36 α-helices and 50 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: 10 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	13-39	27
β-strand	41-47	7	13
α-helix	53-59	7
β-strand	210-214	5	13
β-strand	217-222	6	13
α-helix	234-238	5
β-strand	243-249	7	13
α-helix	265-277	13
α-helix	281-284	4
β-strand	286-292	7	13
α-helix	294-301	8
α-helix	313-315	3
α-helix	326-327	2
α-helix	332-350	19
β-strand	359-363	5	13
α-helix	371-390	20

Chain B: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-25	22
α-helix	33-35	3
α-helix	38-39	2
β-strand	47-51	5	1
β-strand	58-62	5	2
β-strand	69-74	6	2
β-strand	78-83	6	2
β-strand	89-94	6	2
β-strand	100-105	6	3
β-strand	111-116	6	3
β-strand	120-125	6	3
β-strand	135-140	6	3
β-strand	146-151	6	4
β-strand	156-161	6	4
β-strand	165-170	6	4
β-strand	176-181	6	4
α-helix	186	1
β-strand	187-192	6	5
β-strand	198-203	6	5
β-strand	207-212	6	5
β-strand	218-223	6	5
β-strand	229-234	6	6
β-strand	240-245	6	6
β-strand	249-254	6	6
β-strand	260-265	6	6
β-strand	276-278	3	7
β-strand	284-287	4	7
β-strand	294-298	5	7
β-strand	304-308	5	7
β-strand	317-320	4	1
β-strand	327-330	4	1
β-strand	336-339	4	1

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	9-24	16
α-helix	30-43	14
α-helix	53-55	3
α-helix	56-58	3

Chain N: 2 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	8
β-strand	10-11	2	9
β-strand	18-25	8	8
β-strand	34-39	6	10
β-strand	45-51	7	10
β-strand	58-60	3	10
α-helix	62-64	3
β-strand	68-73	6	8
β-strand	78-83	6	8
α-helix	88-90	3
β-strand	93-98	6	10
β-strand	118	1	10
β-strand	122-123	2	10
β-strand	124-125	2	9

Chain P: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-27	26

Chain R: 15 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	27-40	14
β-strand	73-74	2	11
α-helix	81-83	3
β-strand	115-116	2	11
β-strand	118-119	2	12
β-strand	122-123	2	12
α-helix	130-132	3
α-helix	144-177	34
α-helix	184-210	27
α-helix	225-256	32
α-helix	265-290	26
α-helix	303-335	33
α-helix	348-362	15
α-helix	366-370	5
α-helix	378-381	4
α-helix	382-387	6
α-helix	389-391	3
α-helix	392-399	8
α-helix	405-417	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	350	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Homo sapiens	P59768 (AlphaFold model)
Nanobody 35	N	protein	138	Lama glama
Vasoactive intestinal peptide	P	protein	28	Homo sapiens	P01282 (AlphaFold model)
Isoform S of Pituitary adenylate cyclase-activating polypeptide type I receptor	R	protein	462	Homo sapiens	P41586 (AlphaFold model)
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	A	protein	394	Homo sapiens	P63092

Sequence of entity 1 (B), FASTA

>9P93_1 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRT
LRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGN
YVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWD
IETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDIN
AICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYD
DFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 2 (G), FASTA

>9P93_2 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 3 (N), FASTA

>9P93_3 Nanobody 35 (chains N)
QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISY
TGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQ
GTQVTVSSHHHHHHEPEA

Sequence of entity 4 (P), FASTA

>9P93_4 Vasoactive intestinal peptide (chains P)
HSDAVFTDNYTRLRKQMAVKKYLNSILN

Sequence of entity 5 (R), FASTA

>9P93_5 Isoform S of Pituitary adenylate cyclase-activating polypeptide type I receptor (chains R)
DYKDDDDLEVLFQGPAMHSDCIFKKEQAMCLEKIQRANELMGFNDSSPGCPGMWDNITCW
KPAHVGEMVLVSCPELFRIFNPDQDMGVVSRNCTEDGWSEPFPHYFDACGFDEYESETGD
QDYYYLSVKALYTVGYSTSLVTLTTAMVILCRFRKLHCTRNFIHMNLFVSFMLRAISVFI
KDWILYAEQDSNHCFISTVECKAVMVFFHYCVVSNYFWLFIEGLYLFTLLVETFFPERRY
FYWYTIIGWGTPTVCVTVWATLRLYFDDTGCWDMNDSTALWWVIKGPVVGSIMVNFVLFI
GIIVILVQKLQSPDMGGNESSIYLRLARSTLLLIPLFGIHYTVFAFSPENVSKRERLVFE
LGLGSFQGFVVAVLYCFLNGEVQAEIKRKWRSWKVNRYFAVDFKHRHPSLASSGVNGGTQ
LSILSKSSSQIRMSGLPADNLATPAGLEVLFQGPHHHHHHHH

Sequence of entity 6 (A), FASTA

>9P93_6 Guanine nucleotide-binding protein G(s) subunit alpha isoforms short (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGAGESGKNTIVKQM
RILHVNGFNGEGGEEDPQAARSNSDGEKATKVQDIKNNLKEAIETIVAAMSNLVPPVELA
NPENQFRVDYILSVMNVPDFDFPPEFYEHAKALWEDEGVRACYERSNEYQLIDCAQYFLD
KIDVIKQADYVPSDQDLLRCRVLTSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFND
VTAIIFVVASSSYNMVIREDNQTNRLQAALKLFDSIWNNKWLRDTSVILFLNKQDLLAEK
VLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY
PHFTCSVDTENIRRVFNDCRDIIQRMHLRQYELL

Primary citation

Structural basis of modified ligand selectivity from N-terminal PAC1R alternative splicing. Lu, J.J., Deganutti, G., Li, M. et al. Proc Natl Acad Sci U S A (2025) 122:e2521157122-e2521157122. DOI 10.1073/pnas.2521157122 · PubMed

Other PDB entries of the same protein (UniProt P62873 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8QEH 1.43 Å, Crystal structure of the G11 protein heterotrimer bound to FR900359 inhibitor
8QEG 1.7 Å, Crystal structure of the G11 protein heterotrimer bound to YM-254890 inhibitor
8F0K 1.9 Å, Human Amylin3 Receptor in complex with Gs and Pramlintide analogue peptide San385
9YDQ 1.94 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE and allosteric…
9YDP 1.95 Å, Human delta opioid receptor complex with mini-Gi and agonist DADLE
6CRK 2.0 Å, Heterotrimeric G-protein in complex with an antibody fragment
8F0J 2.0 Å, Calcitonin Receptor in complex with Gs and Pramlintide analogue peptide San45
8F2B 2.0 Å, Amylin 3 Receptor in complex with Gs and Pramlintide analogue peptide San45
9XXT 2.0 Å, Cryo-EM structure of lysophosphatidylserine (18:0)-bound GPR174-Gs complex
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

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