9JCL: GNAS complex locus

ADP-bound purinergic receptor 1 with L266P mutant in complex with miniGs/q. Determined by electron microscopy at 2.76 Å resolution. Released 10 Sept 2025.

Method: Electron microscopy
Resolution: 2.76 Å
Organism: Homo sapiens
Chains: 5
Atoms: 8,300
Mol. weight: 121.37 kDa
Ligands: ADP, CLR
Released: 10 Sept 2025

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

Secondary structure: helices and β-sheets

9JCL contains 32 α-helices and 48 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: 11 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	10-39	30
β-strand	40-46	7	1
α-helix	53-62	10
β-strand	202	1	1
β-strand	208-214	7	1
β-strand	217-223	7	1
α-helix	236-238	3
β-strand	243-249	7	1
α-helix	256-268	13
α-helix	270-272	3
β-strand	276-282	7	1
α-helix	284-293	10
α-helix	298-301	4
α-helix	303-305	3
α-helix	316-317	2
α-helix	322-341	20
β-strand	349-353	5	1
α-helix	361-380	20

Chain B: 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	47-52	6	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	165-170	6	5
β-strand	175-181	7	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	250-254	5	7
β-strand	259-264	6	7
β-strand	273-278	6	8
β-strand	284-289	6	8
β-strand	293-298	6	8
β-strand	304-309	6	8
β-strand	315-320	6	2
β-strand	327-331	5	2
β-strand	335-339	5	2

Chain G: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	7-23	17
α-helix	30-43	14

Chain N: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	9
β-strand	10-11	2	10
β-strand	18-25	8	9
β-strand	34-40	7	10
β-strand	44-51	8	10
β-strand	59-60	2	10
β-strand	69-73	5	9
β-strand	78-83	6	9
α-helix	88-90	3
β-strand	92-98	7	10
β-strand	118	1	10
β-strand	122-125	4	10

Chain R: 15 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	48	1
α-helix	49-53	5
α-helix	54-78	25
α-helix	85-112	28
α-helix	121-154	34
α-helix	158-160	3
α-helix	165-189	25
β-strand	192-194	3	11
β-strand	200-202	3	11
α-helix	211-222	12
α-helix	223-227	5
α-helix	228-246	19
α-helix	256-288	33
α-helix	296-314	19
α-helix	316-321	6
α-helix	322-326	5
α-helix	329-334	6

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
GNAS complex locus	A	protein	253	Homo sapiens
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	338	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	57	Homo sapiens	P59768 (AlphaFold model)
Nanobody 35	N	protein	126	Homo sapiens
P2Y purinoceptor 1	R	protein	297	Homo sapiens	P47900 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>9JCL_1 GNAS complex locus (chains A)
MGCLGNSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQM
RILHGGSGGSGGTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVDSS
DYNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTP
EDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENARRIFNDCKD
IILQMNLREYNLV

Sequence of entity 2 (B), FASTA

>9JCL_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
ELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMH
WGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICS
IYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTG
HTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFA
TGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKA
DRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (G), FASTA

>9JCL_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
TASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFR

Sequence of entity 4 (N), FASTA

>9JCL_4 Nanobody 35 (chains N)
QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISY
TGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQ
GTQVTV

Sequence of entity 5 (R), FASTA

>9JCL_5 P2Y purinoceptor 1 (chains R)
FKCALTKTGFQFYYLPAVYILVFIIGFLGNSVAIWMFVFHMKPWSGISVYMFNLALADFL
YVLTLPALIFYYFNKTDWIFGDAMCKLQRFIFHVNLYGSILFLTCISAHRYSGVVYPLKS
LGRLKKKNAICISVLVWLIVVVAISPILFYSGTGVRKNKTITCYDTTSDEYLRSYFIYSM
CTTVAMFCVPLVLILGCYGLIVRALIYKDLDNSPLRRKSIYLVIIVPTVFAVSYIPFHVM
KTMNLRARLDFQTPAMCAFNDRVYATYQVTRGLASLNSCVDPILYFLAGDTFRRRLS

Ligands and cofactors

ID	Name	Formula	Copies
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	1
CLR	Cholesterol	C27 H46 O	1

Primary citation

Cryo-EM map and model for human purinergic receptor P2Y1 with single mutation L266P. Gu, Q.C., Wang, T.X., Tang, W.Q. To be published.

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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