7QVM: PDB entry 7QVM

Human Oxytocin receptor (OTR) oxytocin Gq chimera (mGoqi) complex. Determined by electron microscopy at 3.25 Å resolution. Released 10 Aug 2022.

Method: Electron microscopy
Resolution: 3.25 Å
Organisms: Homo sapiens, Mus musculus
Chains: 6
Atoms: 8,528
Mol. weight: 140.06 kDa
Released: 10 Aug 2022

Explore 7QVM in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7QVM contains 31 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 A: 8 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	33-39	7	1
β-strand	186-191	6	1
β-strand	196-201	6	1
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-227	7	1
α-helix	244-255	12
β-strand	264-270	7	1
α-helix	272-281	10
α-helix	284-286	3
α-helix	297-310	14
β-strand	319	1	1
β-strand	322	1	1
α-helix	331-350	20

Chain B: 3 helices, 29 β-strands

Element	Residues	Length	Sheet
α-helix	4-25	22
α-helix	30-33	4
β-strand	45	1	2
β-strand	49-51	3	3
β-strand	61	1	4
β-strand	69-72	4	4
β-strand	78-83	6	4
β-strand	88-94	7	4
β-strand	102-105	4	5
β-strand	111-115	5	5
β-strand	121-125	5	5
β-strand	134-139	6	5
α-helix	145-146	2
β-strand	148-151	4	6
β-strand	156-160	5	6
β-strand	166-170	5	6
β-strand	176-180	5	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	207-212	6	7
β-strand	220-223	4	7
β-strand	229-234	6	8
β-strand	240-245	6	8
β-strand	250-254	5	8
β-strand	260-264	5	8
β-strand	275-278	4	2
β-strand	284-288	5	2
β-strand	294-298	5	2
β-strand	304-308	5	2
β-strand	317-320	4	3
β-strand	327-330	4	3
β-strand	336-338	3	3

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	10-23	14
α-helix	30-43	14
α-helix	45-47	3

Chain R: 12 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	36-58	23
α-helix	61-64	4
α-helix	73-102	30
α-helix	109-142	34
α-helix	151-174	24
β-strand	177-178	2	9
β-strand	186-187	2	9
α-helix	196-205	10
α-helix	206-210	5
α-helix	211-229	19
α-helix	271-300	30
α-helix	309-316	8
α-helix	320-332	13
α-helix	334-337	4

Chain S: 5 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	11-12	2	11
β-strand	17-25	9	10
α-helix	29-31	3
β-strand	33-39	7	12
β-strand	45-51	7	12
α-helix	53-55	3
β-strand	58-60	3	12
β-strand	68-73	6	10
β-strand	78-84	7	10
α-helix	88-90	3
β-strand	92-99	8	12
β-strand	110-111	2	12
β-strand	115-117	3	12
β-strand	118-119	2	11
β-strand	128-129	2	13
β-strand	134-136	3	14
β-strand	143-149	7	13
β-strand	154	1	15
β-strand	160	1	15
β-strand	162-167	6	14
β-strand	174-178	5	14
β-strand	182-183	2	14
α-helix	184	1
β-strand	191-196	6	13
β-strand	199-204	6	13
β-strand	213-219	7	14
α-helix	225	1
β-strand	231-234	4	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(o) subunit alpha,cDNA FLJ31446 fis, clone NT2NE2000909,…	A	protein	228	Homo sapiens	P09471 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	354	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)
Oxytocin	L	protein	10	Homo sapiens	P01178 (AlphaFold model)
Oxytocin receptor	R	protein	359	Homo sapiens	P30559
Antibody fragment scFv16	S	protein	251	Mus musculus

Sequence of entity 1 (A), FASTA

>7QVM_1 Guanine nucleotide-binding protein G(o) subunit alpha,cDNA FLJ31446 fis, clone NT2NE2000909, highly similar to Guanine nucleotide-binding protein G(o) subunit alpha 1 (chains A)
MGCTLSAEDKAAVERSKMIEKNLKEDGISAAKDVKLLLLGADNSGKSTIVKQMKIIHGGS
GGSGGTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIFCVDLSDYNRMHE
SLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPNTYEDAAAYIQA
QFESKNRSPNKEIYCHMTCATDTNNAQVIFDAVTDIILQMNLREYNLV

Sequence of entity 2 (B), FASTA

>7QVM_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMR
TRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYA
PSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTC
ALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHE
SDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLL
AGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (G), FASTA

>7QVM_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (L), FASTA

>7QVM_4 Oxytocin (chains L)
CYIQNCPLGX

Sequence of entity 5 (R), FASTA

>7QVM_5 Oxytocin receptor (chains R)
MEGALAANWSAEAANASAAPPGAEGNRTAGPPRRNEALARVEVAVLCLILLLALSGNACV
LLALRTTRQKHSRLFFFMKHLSIADLVVAVFQVLPQLLWDITFRFYGPDLLCRLVKYLQV
VGMFASTYLLLLMSLDRCLAICQPLRSLRRRTYRLAVLATWLGCLVASAPQVHIFSLREV
ADGVFDCWAVFIQPWGPKAYITWITLAVYIVPVIVLATCYGLISFKIWQNLRLKTAAAAA
AEAPEGAAAGDGGRVALARVSSVKLISKAKIRTVKMTFIIVLAFIVCWTPFFFVQMWSVW
DANAPKEASAFIIVMLLASLNSCCNPWIYMLFTGHLFHELVQRFLCCSASYLKGRRLGK

Sequence of entity 6 (S), FASTA

>7QVM_6 Antibody fragment scFv16 (chains S)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELKAAA

Primary citation

Structural basis for the activation and ligand recognition of the human oxytocin receptor. Waltenspuhl, Y., Ehrenmann, J., Vacca, S. et al. Nat Commun (2022) 13:4153-4153. DOI 10.1038/s41467-022-31325-0 · PubMed

Other PDB entries of the same protein (UniProt P09471 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9BSB 2.32 Å, Global reconstruction of DRD2 bound to LSD in complex with a mini-GoA and scFv16…
9VJE 2.47 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with buspirone
9K20 2.65 Å, Cryo-EM structure of ATP-bound P2Y purinoceptor 2-miniGo-scFv16 complex
9VJ5 2.69 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with gepirone
8E9X 2.7 Å, CryoEM structure of miniGo-coupled hM4Di in complex with DCZ
9T88 2.74 Å, Cryo-EM structure of ESG-2-37-bound D3 dopamine receptor with mini-Go
9VNF 2.74 Å, Cryo-EM structure of 5-HT1AR-GoA in complex with (S)-pindolol
8YN7 2.77 Å, Cryo-EM structure of histamine H3 receptor in complex with immethridine and miniGo
8YN8 2.77 Å, Cryo-EM structure of histamine H3 receptor in complex with proxyfan and miniGo
9KVP 2.79 Å, Structure of SB290157 bound to human C3aR in complex with Go (Full map)
7W2Z 2.8 Å, Cryo-EM structure of the ghrelin-bound human ghrelin receptor-Go complex
8XXH 2.8 Å, Structure of CXCR2 bound to CXCL2 (CXCR2-CXCL2-Go Full map)

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