9VJG: 5-HT1AR-Gz

Cryo-EM structure of 5-HT1AR-Gz in complex with (R)-8-OH-DPAT. Determined by electron microscopy at 2.67 Å resolution. Released 12 Nov 2025.

Method: Electron microscopy
Resolution: 2.67 Å
Organisms: Homo sapiens, Mus musculus, Escherichia coli
Chains: 5
Atoms: 9,387
Mol. weight: 177.47 kDa
Ligands: A1ESE, T7M, CLR
Released: 12 Nov 2025

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

Secondary structure: helices and β-sheets

9VJG contains 47 α-helices and 62 β-strands across 5 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 B: 20 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	33-38	6	1
α-helix	46-55	10
α-helix	63-68	6
α-helix	70-91	22
α-helix	100-117	18
α-helix	122-133	12
α-helix	135-142	8
α-helix	144-146	3
α-helix	153-157	5
α-helix	160-163	4
α-helix	172-177	6
α-helix	180-182	3
β-strand	185-192	8	1
β-strand	195-202	8	1
α-helix	209-212	4
α-helix	213-216	4
β-strand	221-227	7	1
α-helix	229-232	4
α-helix	243-255	13
β-strand	264-270	7	1
α-helix	272-281	10
α-helix	284-286	3
α-helix	300-310	11
β-strand	320-324	5	1
α-helix	331-352	22

Chain C: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	8-24	17
α-helix	30-34	5
α-helix	38-40	3
β-strand	49-51	3	2
β-strand	58-63	6	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	89-94	6	3
α-helix	95	1
β-strand	100-105	6	4
β-strand	111-116	6	4
β-strand	121-125	5	4
β-strand	134-139	6	4
β-strand	146-151	6	5
β-strand	156-161	6	5
β-strand	166-170	5	5
β-strand	175-180	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	208-212	5	6
β-strand	218-222	5	6
β-strand	229-234	6	7
β-strand	240-245	6	7
β-strand	249-254	6	7
β-strand	259-265	7	7
α-helix	272	1
β-strand	273-278	6	8
β-strand	284-289	6	8
β-strand	294-298	5	8
β-strand	304-308	5	8
β-strand	315-320	6	2
β-strand	327-331	5	2
β-strand	336-339	4	2

Chain D: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	9-23	15
α-helix	30-42	13
α-helix	53-55	3

Chain E: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	9
β-strand	10-12	3	10
β-strand	17-25	9	9
α-helix	29-31	3
β-strand	33-39	7	10
β-strand	45-51	7	10
α-helix	52	1
β-strand	58-60	3	10
β-strand	65	1	9
β-strand	68-73	6	9
β-strand	78-84	7	9
β-strand	92-99	8	10
β-strand	110-111	2	10
β-strand	115-119	5	10
β-strand	128-129	2	11
β-strand	135-136	2	12
β-strand	143-149	7	11
β-strand	154	1	13
β-strand	160	1	13
β-strand	162	1	14
β-strand	164-167	4	12
β-strand	174-177	4	12
β-strand	183	1	12
α-helix	184	1
β-strand	191-196	6	11
β-strand	199-204	6	11
α-helix	209-211	3
β-strand	213-216	4	12
β-strand	218	1	15
β-strand	219	1	14
β-strand	227	1	15
β-strand	231-234	4	12

Chain R: 15 helices, 0 β-strands

Element	Residues	Length
α-helix	35-63	29
α-helix	65-67	3
α-helix	70-88	19
α-helix	90-98	9
α-helix	106-139	34
α-helix	141-145	5
α-helix	150-173	24
α-helix	193-200	8
α-helix	201-205	5
α-helix	206-228	23
α-helix	328-367	40
α-helix	368-370	3
α-helix	379-397	19
α-helix	398-402	5
α-helix	405-412	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(z) subunit alpha	B	protein	355	Homo sapiens
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C	protein	358	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	D	protein	71	Homo sapiens	P59768 (AlphaFold model)
ScFv16	E	protein	251	Mus musculus
Soluble cytochrome b562,5-hydroxytryptamine receptor 1A	R	protein	549	Escherichia coli, Homo sapiens	P08908 (AlphaFold model), P0ABE7 (AlphaFold model)

Sequence of entity 1 (B), FASTA

>9VJG_1 Guanine nucleotide-binding protein G(z) subunit alpha (chains B)
MGSTVSAEDKAAAERSKMIDKNLREDGEKQRREIKLLLLGTSNSGKNTIVKQMKIIHSGG
FNLEACKEYKPLIIYNAIDSLTRIIRALAALRIDFHNPDRAYDAVQLFALTGPAESKGEI
TPELLGVMRRLWADPGAQACFSRSSEYHLEDNAAYYLNDLERIAAADYIPTVEDILRSRD
MTTGIVENKFTFKELTFKMVDVGAQRSERKKWIHCFEGVTAIIFCVELSGYDLKLYEDNQ
TSRMAASLKLFDSICNNKWFIDTSLILFLNKKDLLAEKIRRIPLTICFPEYKGQNTYEEA
AVYIQRQFEDLNRNKETKEIYSHFTCSTDTSNIQFVFDAVTDVIIQNNLKYIGLC

Sequence of entity 2 (C), FASTA

>9VJG_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains C)
MHHHHHHLEVLFQGPGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGR
IQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMT
CAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSG
DTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTF
TGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSG
RLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (D), FASTA

>9VJG_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains D)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (E), FASTA

>9VJG_4 ScFv16 (chains E)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKAAA

Sequence of entity 5 (R), FASTA

>9VJG_5 Soluble cytochrome b562,5-hydroxytryptamine receptor 1A (chains R)
DYKDDDDAKLQTMHHHHHHHHHHENLYFQGGTTMADLEDNWETLNDNLKVIEKADNAAQV
KDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKE
AQAAAEQLKTTRNAYIQKYLGSTLEVLFQGPTTGISDVTVSYQVITSLLLGTLIFCAVLG
NACVVAAIALERSLQNVANYLIGSLAVTDLMVSVLVLPMAALYQVLNKWTLGQVTCDLFI
ALDVLCCTSSIWHLCAIALDRYWAITDPIDYVNKRTPRRAAALISLTWLIGFLISIPPML
GWRTPEDRSDPDACTISKDHGYTIYSTFGAFYIPLLLMLVLYGRIFRAARFRIRKTVKKV
EKTGADTRHGASPAPQPKKSVNGESGSRNWRLGVESKAGGALCANGAVRQGDDGAALEVI
EVHRVGNSKEHLPLPSEAGPTPCAPASFERKNERNAEAKRKMALARERKTVKTLGIIMGT
FILCWLPFFIVALVLPFCESSCHMPTLLGAIINWLGYSNSLLNPVIYAYFNKDFQNAFKK
IIKCKFCRQ

Ligands and cofactors

ID	Name	Formula	Copies
A1ESE	(7~{R})-7-(dipropylamino)-5,6,7,8-tetrahydronaphthalen-1-ol	C16 H25 N O	1
T7M	(2R)-1-(heptadecanoyloxy)-3-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahyd…	C46 H82 O16 P2	1
CLR	Cholesterol	C27 H46 O	2

Primary citation

Pathway-selective 5-HT 1A R agonist as a rapid antidepressant strategy. Wang, C., Zhang, N., Shao, Y. et al. Cell (2025) 188:7222-7237.e24. DOI 10.1016/j.cell.2025.10.022 · 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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