9L3Y: G-protein coupled receptor 1

Cryo-EM structure of the G-protein coupled receptor 1 (GPR1) in complex with chemerin and Gi1. Determined by electron microscopy at 3.6 Å resolution. Released 12 Mar 2025.

Method: Electron microscopy
Resolution: 3.6 Å
Organism: Homo sapiens
Chains: 5
Atoms: 7,383
Mol. weight: 144.4 kDa
Released: 12 Mar 2025

Explore 9L3Y in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9L3Y contains 25 α-helices and 46 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: 7 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	34-38	5	7
β-strand	184-190	7	7
β-strand	195-201	7	7
α-helix	209-212	4
α-helix	213-215	3
β-strand	220-226	7	7
α-helix	242-254	13
β-strand	263-269	7	7
α-helix	271-280	10
α-helix	296-308	13
β-strand	319-323	5	7
α-helix	330-351	22

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	8-25	18
α-helix	30-33	4
β-strand	47-51	5	8
β-strand	58-63	6	9
β-strand	69-74	6	9
β-strand	78-83	6	9
β-strand	88-94	7	9
β-strand	100-105	6	10
β-strand	111-116	6	10
β-strand	120-125	6	10
β-strand	134-140	7	10
β-strand	146-151	6	11
β-strand	157-161	5	11
β-strand	165-170	6	11
β-strand	175-181	7	11
α-helix	186	1
β-strand	187-192	6	12
β-strand	198-203	6	12
β-strand	207-212	6	12
β-strand	218-223	6	12
β-strand	229-234	6	13
β-strand	240-245	6	13
β-strand	249-254	6	13
β-strand	259-265	7	13
β-strand	273-278	6	14
β-strand	284-289	6	14
β-strand	294-298	5	14
β-strand	304-307	4	14
β-strand	317-320	4	8
β-strand	327-330	4	8
β-strand	336-339	4	8

Chain C: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	13-23	11
α-helix	30-44	15

Chain L: 2 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	24-39	16
β-strand	49	1	4
β-strand	55	1	5
β-strand	66	1	6
β-strand	68	1	5
β-strand	72	1	4
β-strand	102	1	6
β-strand	112	1	1
α-helix	135-139	5

Chain R: 11 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	26	1	1
α-helix	36-51	16
α-helix	53-62	10
α-helix	71-98	28
α-helix	107-140	34
α-helix	151-166	16
β-strand	177-178	2	2
β-strand	181	1	3
β-strand	184	1	3
β-strand	187-188	2	2
α-helix	203-211	9
α-helix	212-216	5
α-helix	217-232	16
α-helix	233-235	3
α-helix	241-267	27
α-helix	285-304	20

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Chemerin-like receptor 2	R	protein	368	Homo sapiens	P46091 (AlphaFold model)
Retinoic acid receptor responder protein 2	L	protein	137	Homo sapiens	Q99969 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	A	protein	354	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	340	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C	protein	71	Homo sapiens	P59768

Sequence of entity 1 (R), FASTA

>9L3Y_1 Chemerin-like receptor 2 (chains R)
MEDLEETLFEEFENYSYDLDYYSLESDLEEKVQLGVVHWVSLVLYCLAFVLGIPGNAIVI
WFTGFKWKKTVTTLWFLNLAIADFIFLLFLPLYISYVAMNFHWPFGIWLCKANSFTAQLN
MFASVFFLTVISLDHYIHLIHPVLSHRHRTLKNSLIVIIFIWLLASLIGGPALYFRDTVE
FNNHTLCYNNFQKHDPDLTLIRHHVLTWVKFIIGYLFPLLTMSICYLCLIFKVKKRSILI
SSRHFWTILVVVVAFVVCWTPYHLFSIWELTIHHNSYSHHVMQAGIPLSTGLAFLNSCLN
PILYVLISKKFQARFRSSVAEIEFLEVLFQGPWSHPQFEKGGGSGGGSGGSAWSHPQFEK
DYKDDDDK

Sequence of entity 2 (L), FASTA

>9L3Y_2 Retinoic acid receptor responder protein 2 (chains L)
ELTEAQRRGLQVALEEFHKHPPVQWAFQETSVESAVDTPFPAGIFVRLEFKLQQTSCRKR
DWKKPECKVRPNGRKRKCLACIKLGSEDKVLGRLVHCPIETQVLREAEEHQETQCLRVQR
AGEDPHSFYFPGQFAFS

Sequence of entity 3 (A), FASTA

>9L3Y_3 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains A)
MGCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKCTIVKQMKIIHEAG
YSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMT
AELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVK
TTGIVETHFTFKDLHFKMFDVTAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEM
NRMHASMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAA
AYIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 4 (B), FASTA

>9L3Y_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 5 (C), FASTA

>9L3Y_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains C)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Primary citation

Structural insights into the distinct ligand recognition and signaling of the chemerin receptors CMKLR1 and GPR1. Lin, X., Zhao, L., Cai, H. et al. Protein Cell (2025) 16:381-385. DOI 10.1093/procel/pwae073 · PubMed

Other PDB entries of the same protein (UniProt P46091 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8JJP 2.9 Å, G protein-coupled receptor 1
9UYN 2.9 Å, Cryo-EM structure of the G protein-coupled receptor 1 (GPR1) bound to beta-arrestin 1 in…
9UYI 3.2 Å, Cryo-EM structure of the G protein-coupled receptor 1 (GPR1) bound to chemerin and…
8XGM 3.29 Å, Cryo-EM structure of human GPR1 bound to chemerin
9UYH 3.3 Å, Cryo-EM structure of the G protein-coupled receptor 1 (GPR1) bound to chemerin and…
9UYJ 3.3 Å, Cryo-EM structure of the G protein-coupled receptor 1 (GPR1) bound to chemerin and…
9UYL 3.3 Å, Cryo-EM structure of the G protein-coupled receptor 1 (GPR1) bound to chemerin and…
9UYM 3.5 Å, Composite map of the G protein-coupled receptor 1 (GPR1) bound to chemerin and…

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