9WST: DAMGO-muOR-Gz-scFv16 complex

Cryo-EM structure of DAMGO-muOR-Gz-scFv16 complex. Determined by electron microscopy at 2.8 Å resolution. Released 26 Nov 2025.

Method: Electron microscopy
Resolution: 2.8 Å
Organisms: Homo sapiens, Oplophorus gracilirostris, synthetic construct
Chains: 5
Atoms: 7,090
Mol. weight: 153.13 kDa
Released: 26 Nov 2025

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

Secondary structure: helices and β-sheets

9WST contains 32 α-helices and 36 β-strands across 4 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, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-32	26
β-strand	34-40	7	1
α-helix	46-55	10
β-strand	185-191	7	1
β-strand	194-200	7	1
α-helix	208-210	3
α-helix	213-215	3
β-strand	220-226	7	1
α-helix	229-231	3
α-helix	242-254	13
α-helix	257-259	3
β-strand	263-269	7	1
α-helix	271-278	8
α-helix	283-285	3
α-helix	296-308	13
β-strand	319-323	5	1
α-helix	330-350	21

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	6-25	20
α-helix	34-36	3
β-strand	47-51	5	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
β-strand	100-105	6	4
β-strand	111-116	6	4
β-strand	120-125	6	4
β-strand	134-140	7	4
β-strand	146-151	6	5
β-strand	156-161	6	5
β-strand	166-170	5	5
β-strand	176-180	5	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	208-212	5	6
β-strand	217-222	6	6
β-strand	229-234	6	7
β-strand	240-245	6	7
β-strand	250-254	5	7
β-strand	259-264	6	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 G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	10-23	14
α-helix	30-43	14
α-helix	53-55	3

Chain R: 15 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	66-92	27
α-helix	93-97	5
α-helix	102-119	18
α-helix	121-130	10
α-helix	136-170	35
α-helix	172-178	7
α-helix	181-205	25
β-strand	206-211	6	9
β-strand	214-219	6	9
α-helix	222	1
α-helix	225-237	13
α-helix	238-242	5
α-helix	243-259	17
α-helix	269-305	37
α-helix	312-333	22
α-helix	334-338	5
α-helix	341-344	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Engineered guanine nucleotide-binding protein G(z) subunit alpha	A	protein	355	Homo sapiens
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	371	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)
Mu-type opioid receptor,LgBiT	R	protein	575	Homo sapiens, Oplophorus gracilirostris	P35372 (AlphaFold model)
Damgo	P	protein	5	synthetic construct

Sequence of entity 1 (A), FASTA

>9WST_1 Engineered guanine nucleotide-binding protein G(z) subunit alpha (chains A)
MGCTLSAEDKAAVERSKMIDRNLREDGEKQRREIKLLLLGTSNSGKNTIVKQMKIIHSGG
FNLEACKEYKPLIIYNAIDSLTRIIRALAALRIDFHNPDRAYDAVQLFALTGPAESKGEI
TPELLGVMRRLWADPGAQACFSRSSEYHLEDNAAYYLNDLERIAAADYIPTVEDILRSRD
MTTGIVENKFTFKELTFKMVDVGAQRSERKKWIHCFEGVTAIIFCVELSGYDLKLYEDNQ
TSRMAASLKLFDSICNNKWFIDTSLILFLNKKDLLAEKIRRIPLTICFPEYKGQNTYEEA
AVYIQRQFEDLNRNKETKEIYSHFTCSTDTSNIQFVFDAVTDVIIQNNLKYIGLC

Sequence of entity 2 (B), FASTA

>9WST_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
GPGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHL
AKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACG
GLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQ
QTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFF
PNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCN
VWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSGGGGSSG
VSGWRLFKKIS

Sequence of entity 3 (G), FASTA

>9WST_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 4 (R), FASTA

>9WST_4 Mu-type opioid receptor,LgBiT (chains R)
DYKDDDDKGPGNISDCSDPLAPASCSPAPSPGSWLNLSHVDGNQSDPCGPNRTGLGGSHS
LCPQTGSPSMVTAITIMALYSIVCVVGLFGNFLVMYVIVRYTKMKTATNIYIFNLALADA
LATSTLPFQSVNYLMGTWPFGNILCKIVISIDYYNMFTSIFTLCTMSVDRYIAVCHPVKA
LDFRTPRNAKIVNVCNWILSSAIGLPVMFMATTKYRQGSIDCTLTFSHPTWYWENLLKIC
VFIFAFIMPVLIITVCYGLMILRLKSVRMLSGSKEKDRNLRRITRMVLVVVAVFIVCWTP
IHIYVIIKALITIPETTFQTVSWHFCIALGYTNSCLNPVLYAFLDENFKRCFREFCIPTS
STIEQQNSARIRQNTREHPSTANTVDRTNHQLENLEAETAPLPGGSSGVFTLEDFVGDWE
QTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVIIPYEGLSADQMA
QIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAVFDGKKITVTGTL
WNGNKIIDERLITPDGSMLFRVTINSGGSLEVLFQ

Sequence of entity 5 (P), FASTA

>9WST_5 DAMGO (chains P)
YAGFX

Primary citation

The molecular basis of mu-opioid receptor signaling plasticity. Zhang, H., Wang, X., Xi, K. et al. Cell Res (2025) 35:1021-1036. DOI 10.1038/s41422-025-01191-8 · 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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