8ZJG: Human CMKLR1-Gi complex

Cryo-EM structure of human CMKLR1-Gi complex bound to chemerin. Determined by electron microscopy at 3.18 Å resolution. Released 22 Jan 2025.

Method: Electron microscopy
Resolution: 3.18 Å
Organisms: Homo sapiens, Vicugna pacos
Chains: 6
Atoms: 10,123
Mol. weight: 171.58 kDa
Ligands: CLR
Released: 22 Jan 2025

Explore 8ZJG in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8ZJG contains 39 α-helices and 73 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: 16 helices, 3 β-strands

Element	Residues	Length	Sheet
β-strand	26	1	1
α-helix	33-37	5
α-helix	38-67	30
α-helix	73-100	28
α-helix	109-142	34
α-helix	144-149	6
α-helix	153-171	19
α-helix	173-176	4
β-strand	178-181	4	2
α-helix	183-185	3
β-strand	188-191	4	2
α-helix	213-225	13
α-helix	226-230	5
α-helix	231-249	19
α-helix	257-282	26
α-helix	283-285	3
α-helix	292-305	14
α-helix	312-317	6
α-helix	321-338	18

Chain B: 4 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	6-25	20
α-helix	30-34	5
α-helix	38-39	2
β-strand	47-51	5	3
β-strand	58-63	6	4
β-strand	69-74	6	4
β-strand	78-83	6	4
β-strand	89-94	6	4
α-helix	95	1
β-strand	100-105	6	5
β-strand	111-116	6	5
β-strand	120-125	6	5
β-strand	134-140	7	5
β-strand	146-153	8	6
β-strand	156-161	6	6
β-strand	165-170	6	6
β-strand	175-181	7	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	207-212	6	7
β-strand	218-222	5	7
β-strand	229-234	6	8
β-strand	240-245	6	8
β-strand	250-254	5	8
β-strand	259-264	6	8
β-strand	273-278	6	9
β-strand	284-289	6	9
β-strand	294-298	5	9
β-strand	303-308	6	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	335-339	5	3

Chain C: 8 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	7-29	23
β-strand	34-39	6	10
α-helix	46-52	7
β-strand	185-191	7	10
β-strand	194-200	7	10
α-helix	208-212	5
β-strand	220-223	4	10
β-strand	224-226	3	11
β-strand	233	1	12
β-strand	241	1	12
α-helix	242-254	13
β-strand	263-264	2	10
β-strand	267-269	3	11
α-helix	271-280	10
α-helix	283-285	3
α-helix	296-308	13
β-strand	319	1	10
β-strand	322-323	2	11
α-helix	331-351	21

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	9-22	14
α-helix	30-43	14
α-helix	53-55	3

Chain L: 4 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	10-19	10
β-strand	35-40	6	1
β-strand	43-48	6	1
β-strand	80-85	6	1
β-strand	86	1	19
β-strand	89	1	19
β-strand	92-95	4	1
α-helix	110-116	7
α-helix	117-119	3
α-helix	129-130	2

Chain S: 4 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	13
β-strand	11-12	2	14
β-strand	17-23	7	13
α-helix	29-31	3
β-strand	33-39	7	15
β-strand	45-51	7	15
α-helix	53-55	3
β-strand	58-60	3	15
β-strand	68-73	6	13
β-strand	78-84	7	13
β-strand	92-99	8	15
β-strand	111	1	15
β-strand	115-117	3	15
β-strand	118-119	2	14
β-strand	141	1	16
β-strand	146-148	3	17
β-strand	155-160	6	16
β-strand	166	1	18
β-strand	172	1	18
β-strand	174-179	6	17
β-strand	186-190	5	17
β-strand	194-195	2	17
α-helix	196	1
β-strand	203-208	6	16
β-strand	211-216	6	16
α-helix	221-223	3
β-strand	225-231	7	17
β-strand	239	1	17
β-strand	243-246	4	17

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Chemerin-like receptor 1	A	protein	373	Homo sapiens	Q99788 (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) subunit alpha-1	C	protein	351	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Homo sapiens	P59768 (AlphaFold model)
scFV16	S	protein	247	Vicugna pacos
Retinoic acid receptor responder protein 2 chemerinv	L	protein	137	Homo sapiens	Q99969

Sequence of entity 1 (A), FASTA

>8ZJG_1 Chemerin-like receptor 1 (chains A)
MRMEDEDYNTSISYGDEYPDYLDSIVVLEDLSPLEARVTRIFLVVVYSIVCFLGILGNGL
VIIIATFKMKKTVNMVWFLNLAVADFLFNVFLPIHITYAAMDYHWVFGTAMCKISNFLLI
HNMFTSVFLLTIISSDRCISVLLPVWSQNHRSVRLAYMACMVIWVLAFFLSSPSLVFRDT
ANLHGKISCFNNFSLSTPGSSSWPTHSQMDPVGYSRHMVVTVTRFLCGFLVPVLIITACY
LTIVCKLQRNRLAKTKKPFKIIVTIIITFFLCWCPYHTLNLLELHHTAMPGSVFSLGLPL
ATALAIANSCMNPILYVFMGQDFKKFKVALFSRLVNALSEDTGHSSYPSHRSFTKMSSMN
ERTSMNERETGML

Sequence of entity 2 (B), FASTA

>8ZJG_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (C), FASTA

>8ZJG_3 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains C)
TLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAGYSE
EECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTAEL
AGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTG
IVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRM
HESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI
QCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 4 (G), FASTA

>8ZJG_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 5 (S), FASTA

>8ZJG_5 scFV16 (chains S)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLEL

Sequence of entity 6 (L), FASTA

>8ZJG_6 Retinoic acid receptor responder protein 2 chemerinv (chains L)
ELTEAQRRGLQVALEEFHKHPPVQWAFQETSVESAVDTPFPAGIFVRLEFKLQQTSCRKR
DWKKPECKVRPNGRKRKCLACIKLGSEDKVLGRLVHCPIETQVLREAEEHQETQCLRVQR
AGEDPHSFYFPGQFAFS

Ligands and cofactors

ID	Name	Formula	Copies
CLR	Cholesterol	C27 H46 O	4

Primary citation

Structural basis for full-length chemerin recognition and signaling through chemerin receptor 1. Liu, A., Liu, Y., Wang, J. et al. Commun Biol (2024) 7:1598-1598. DOI 10.1038/s42003-024-07228-9 · PubMed

Other PDB entries of the same protein (UniProt Q99788 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7YKD 2.81 Å, Cryo-EM structure of the human chemerin receptor 1 complex with the C-terminal…
8SG1 2.94 Å, Cryo-EM structure of CMKLR1 signaling complex
9L3W 3.5 Å, Cryo-EM structure of the chemokine-like receptor 1 in complex with chemerin and Gi1
9L3Z 3.9 Å, Cryo-EM structure of the inactive chemokine-like receptor 1 (CMKLR1)

Browse structure collections

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