8ZWG: JR14a bound C3aR-Gi complex

cryoEM structure of JR14a bound C3aR-Gi complex. Determined by electron microscopy at 2.87 Å resolution. Released 14 May 2025.

Method: Electron microscopy
Resolution: 2.87 Å
Organisms: Homo sapiens, Rattus norvegicus, synthetic construct
Chains: 5
Atoms: 8,709
Mol. weight: 176.54 kDa
Ligands: A1D9A
Released: 14 May 2025

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

Secondary structure: helices and β-sheets

8ZWG contains 30 α-helices and 64 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: 12 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	21-50	30
α-helix	56-83	28
α-helix	92-125	34
α-helix	127-133	7
α-helix	136-153	18
α-helix	155-160	6
β-strand	162	1	1
β-strand	173	1	1
α-helix	334-340	7
α-helix	341-346	6
α-helix	347-364	18
α-helix	374-401	28
α-helix	408-435	28
α-helix	440-449	10

Chain B: 9 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	34-39	6	2
α-helix	46-54	9
β-strand	185-191	7	2
β-strand	194-200	7	2
α-helix	208-210	3
α-helix	212-215	4
β-strand	220-226	7	2
α-helix	227-230	4
β-strand	233	1	3
β-strand	241	1	3
α-helix	242-254	13
β-strand	263-269	7	2
α-helix	271-280	10
α-helix	296-309	14
β-strand	319-323	5	2
α-helix	328-350	23

Chain C: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-25	22
α-helix	30-33	4
α-helix	38-39	2
β-strand	49-51	3	4
β-strand	58-63	6	5
β-strand	69-74	6	5
β-strand	78-83	6	5
β-strand	89-94	6	5
β-strand	100-105	6	6
β-strand	111-116	6	6
β-strand	121-125	5	6
β-strand	134-139	6	6
β-strand	148-151	4	7
β-strand	156-160	5	7
β-strand	166-170	5	7
β-strand	176-180	5	7
β-strand	187-192	6	8
β-strand	198-203	6	8
β-strand	207-212	6	8
β-strand	218-222	5	8
β-strand	229-234	6	9
β-strand	240-245	6	9
β-strand	249-254	6	9
β-strand	260-265	6	9
β-strand	273-278	6	10
β-strand	284-289	6	10
β-strand	294-298	5	10
β-strand	304-308	5	10
β-strand	315-320	6	4
β-strand	327-331	5	4
β-strand	336-339	4	4

Chain E: 2 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	11
β-strand	9-11	3	12
β-strand	16-24	9	11
β-strand	32-38	7	12
β-strand	44-50	7	12
α-helix	52-54	3
β-strand	57-59	3	12
β-strand	67-72	6	11
β-strand	77-83	7	11
β-strand	91-98	8	12
β-strand	109-110	2	12
β-strand	114-118	5	12
β-strand	140-141	2	13
β-strand	146	1	14
β-strand	151	1	15
β-strand	153	1	15
β-strand	155-161	7	13
β-strand	166	1	16
β-strand	172	1	16
β-strand	174-179	6	14
α-helix	180	1
β-strand	186-189	4	14
β-strand	195	1	14
β-strand	203-207	5	13
β-strand	211-216	6	13
β-strand	225-231	7	14
β-strand	239	1	14
β-strand	243-245	3	14

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	6-23	18
α-helix	30-44	15
α-helix	45-47	3
α-helix	53-55	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Beta-2 adrenergic receptor,C3a anaphylatoxin chemotactic receptor	A	protein	538	Homo sapiens	P07550 (AlphaFold model), Q16581 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	B	protein	354	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C	protein	353	Rattus norvegicus	P54311 (AlphaFold model)
scFv16	E	protein	267	synthetic construct
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	68	Bos taurus	A0A1S3WMS4

Sequence of entity 1 (A), FASTA

>8ZWG_1 Beta-2 adrenergic receptor,C3a anaphylatoxin chemotactic receptor (chains A)
DYKDDDDVDMGQPGNGSAFLLAPNGSHAPDHDVTQQRDEENLYFQGASMASFSAETNSTD
LLSQPWNEPPVILSMVILSLTFLLGLPGNGLVLWVAGLKMQRTVNTIWFLHLTLADLLCC
LSLPFSLAHLALQGQWPYGRFLCKLIPSIIVLNMFASVFLLTAISLDRCLVVFKPIWCQN
HRNVGMACSICGCIWVVAFVMCIPVFVYREIFTTDNHNRCGYKFGLSSSLDYPDFYGDPL
ENRSLENIVQPPGEMNDRLDPSSFQTNDHPWTVPTVFQPQTFQRPSADSLPRGSARLTSQ
NLYSNVFKPADVVSPKIPSGFPIEDHETSPLDNSDAFLSTHLKLFPSASSNSFYESELPQ
GFQDYYNLGQFTDDDQVPTPLVAITITRLVVGFLLPSVIMIACYSFIVFRMQRGRFAKSQ
SKTFRVAVVVVAVFLVCWTPYHIFGVLSLLTDPETPLGKTLMSWDHVCIALASANSCFNP
FLYALLGKDFRKKARQSIQGILEAAFSEELTRSTHCPSNNVISERNSTTVHHHHHHHH

Sequence of entity 2 (B), FASTA

>8ZWG_2 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains B)
MGCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAG
YSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMT
AELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVK
TTGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEM
NRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAA
AYIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 3 (C), FASTA

>8ZWG_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains C)
MHHHHHHHHGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRT
RRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAP
SGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCA
LWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHES
DINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLA
GYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (E), FASTA

>8ZWG_4 scFv16 (chains E)
MVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
AGGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQ
RPGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTF
GAGTKLELVDENLYFQGASHHHHHHHH

Sequence of entity 5 (G), FASTA

>8ZWG_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFC

Ligands and cofactors

ID	Name	Formula	Copies
A1D9A	(2~{S})-5-[bis(azanyl)methylideneamino]-2-[[5-[bis(4-chlorophenyl)methyl]-3-met…	C25 H26 Cl2 N4 O3 S	1

Primary citation

Structural insights into the agonist activity of the nonpeptide modulator JR14a on C3aR. Luo, P., Xin, W., Guo, S. et al. Cell Discov (2025) 11:7-7. DOI 10.1038/s41421-024-00765-x · PubMed

Other PDB entries of the same protein (UniProt P07550 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1GQ4 1.9 Å, Structural determinants of the nherf interaction with BETA2AR and pdgfr
2RH1 2.4 Å, High resolution crystal structure of human B2-adrenergic G protein-coupled receptor.
6PS2 2.4 Å, XFEL beta2 AR structure by ligand exchange from Timolol to Alprenolol.
9WG6 2.44 Å, D1R-Gs in complexed with Dopamine/LY3154207/BMSA1/UNC9815
9RKF 2.45 Å, Dark structure of beta-2 Adrenergic receptor with photoazolol in Dark state recorded at…
9RKG 2.45 Å, Mixed model refinement of beta-2 Adrenergic receptor with photoazolol in dark state and…
5D5A 2.48 Å, In meso in situ serial X-ray crystallography structure of the Beta2-adrenergic receptor…
6PS3 2.5 Å, XFEL beta2 AR structure by ligand exchange from Timolol to Carvedilol.
9Q3L 2.5 Å, CryoEM structure of beta2-adrenergic receptor dimer mediated by a biased allosteric…
9RKH 2.5 Å, Dark structure of beta-2 Adrenergic receptor with photoazolol in Dark state recorded at…
9WG0 2.59 Å, D1R-Gs in complexed with SKF81297/LY3154207/BMSA1/UNC10062
6PS4 2.6 Å, XFEL beta2 AR structure by ligand exchange from Timolol to ICI-118551.

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