7Y26: Octreotide-bound SSTR2-miniGq-scFv16 complex

Cryo-EM structure of the octreotide-bound SSTR2-miniGq-scFv16 complex. Determined by electron microscopy at 3.3 Å resolution. Released 19 Oct 2022.

Method: Electron microscopy
Resolution: 3.3 Å
Organism: Homo sapiens
Chains: 6
Atoms: 8,014
Mol. weight: 139.36 kDa
Released: 19 Oct 2022

Explore 7Y26 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7Y26 contains 35 α-helices and 59 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: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-25	22
α-helix	30-34	5
α-helix	38-39	2
β-strand	47-51	5	1
β-strand	58-63	6	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	134-140	7	3
β-strand	146-153	8	4
β-strand	156-161	6	4
β-strand	165-169	5	4
β-strand	176-181	6	4
β-strand	187-192	6	5
β-strand	198-203	6	5
β-strand	208-212	5	5
β-strand	218-222	5	5
β-strand	229-234	6	6
β-strand	240-245	6	6
β-strand	250-254	5	6
β-strand	260-264	5	6
β-strand	273-278	6	7
β-strand	284-289	6	7
β-strand	293-298	6	7
β-strand	304-309	6	7
β-strand	315-320	6	1
β-strand	327-331	5	1
β-strand	336-339	4	1

Chain B: 8 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-30	24
β-strand	34-40	7	8
α-helix	46-54	9
β-strand	70-76	7	8
β-strand	79-85	7	8
α-helix	89-91	3
β-strand	105-111	7	8
α-helix	118-129	12
β-strand	138-144	7	8
α-helix	146-155	10
α-helix	166-169	4
α-helix	184-201	18
β-strand	211-215	5	8
α-helix	223-242	20

Chain C: 0 helices, 2 β-strands

Element	Residues	Length	Sheet
β-strand	2-3	2	9
β-strand	6-7	2	9

Chain D: 3 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	3-6	4	10
β-strand	18-25	8	10
β-strand	33-39	7	11
β-strand	45-51	7	11
α-helix	53-55	3
β-strand	58-60	3	11
α-helix	62-64	3
β-strand	68-73	6	10
β-strand	78-83	6	10
β-strand	93-99	7	11
β-strand	110-111	2	11
β-strand	115	1	11
β-strand	128-130	3	12
β-strand	134-135	2	13
β-strand	143-149	7	12
β-strand	163-167	5	13
β-strand	177-178	2	13
β-strand	182-183	2	13
α-helix	184	1
β-strand	192-196	5	12
β-strand	199-204	6	12
β-strand	214-218	5	13
β-strand	227	1	13
β-strand	231-233	3	13

Chain E: 18 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	42-67	26
α-helix	68-72	5
α-helix	78-92	15
α-helix	93-95	3
α-helix	96-104	9
α-helix	113-145	33
α-helix	149-151	3
α-helix	156-174	19
α-helix	175-177	3
β-strand	182-185	4	14
β-strand	191-194	4	14
α-helix	204-213	10
α-helix	214-218	5
α-helix	219-237	19
α-helix	250-281	32
α-helix	288-300	13
α-helix	303-309	7
α-helix	310-314	5
α-helix	317-319	3
α-helix	320-325	6

Chain F: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	12-23	12
α-helix	30-43	14
α-helix	45-47	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	A	protein	338	Homo sapiens	P62873 (AlphaFold model)
Engineered Guanine nucleotide-binding protein G(q) subunit alpha	B	protein	243	Homo sapiens
Octreotide	C	protein	8	Homo sapiens
single Fab chain (svFv16)	D	protein	258	Homo sapiens
Somatostatin receptor type 2	E	protein	337	Homo sapiens	P30874 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	F	protein	71	Homo sapiens	P59768 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>7Y26_1 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains A)
ELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMH
WGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICS
IYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTG
HTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFA
TGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKA
DRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 2 (B), FASTA

>7Y26_2 Engineered Guanine nucleotide-binding protein G(q) subunit alpha (chains B)
TVSAEDKAAAERSKMIDKNLREDGEKARRTLRLLLLGADNSGKSTIVKQMRILHGGSGGS
GGTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALN
DFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGED
PRVTRAKYFIRKEFVDISTASGDGRHICYPHFTCAVDTENARRIFNDCKDIILQMNLREY
NLV

Sequence of entity 3 (C), FASTA

>7Y26_3 Octreotide (chains C)
FCFWKTCT

Sequence of entity 4 (D), FASTA

>7Y26_4 single Fab chain (svFv16) (chains D)
VQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYA
DTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSS
GGGSGGGGSGGGGSSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQRP
GQSPQLLIYRMSNLASGVPERFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFGA
GTKLELKAAAHHHHHHHH

Sequence of entity 5 (E), FASTA

>7Y26_5 Somatostatin receptor type 2 (chains E)
MDMADEPLNGSHTWLSIPFDLNGSVVSTNTSNQTEPYYDLTSNAVLTFIYFVVCIIGLCG
NTLVIYVILRYAKMKTITNIYILNLAIADELFMLGLPFLAMQVALVHWPFGKAICRVVMT
VDGINQFTSIFCLTVMSIDRYLAVVHPIKSAKWRRPRTAKMITMAVWGVSLLVILPIMIY
AGLRSNQWGRSSCTINWPGESGAWYTGFIIYTFILGFLVPLTIICLCYLFIIIKVKSSGI
RVGSSKRKKSEKKVTRMVSIVVAVFIFCWLPFYIFNVSSVSMAISPTPALKGMFDFVVVL
TYANSCANPILYAFLSDNFKKSFQNVLCLVKVSGTDD

Sequence of entity 6 (F), FASTA

>7Y26_6 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains F)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFSAIL

Primary citation

Molecular basis for the selective G protein signaling of somatostatin receptors. Chen, S., Teng, X., Zheng, S. Nat Chem Biol (2023) 19:133-140. DOI 10.1038/s41589-022-01130-3 · 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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