9UMJ: EP54 bound mouse C3aR

Structure of EP54 bound mouse C3aR in complex with Go. Determined by electron microscopy at 3.38 Å resolution. Released 26 Nov 2025.

Method: Electron microscopy
Resolution: 3.38 Å
Organisms: Homo sapiens, Mus musculus
Chains: 6
Atoms: 8,158
Mol. weight: 160.62 kDa
Released: 26 Nov 2025

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

Secondary structure: helices and β-sheets

9UMJ contains 35 α-helices and 62 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: 9 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	9-30	22
β-strand	34-40	7	2
α-helix	46-51	6
β-strand	186-191	6	2
β-strand	196-201	6	2
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-227	7	2
α-helix	248-255	8
α-helix	258-260	3
β-strand	264-270	7	2
α-helix	272-281	10
α-helix	297-309	13
β-strand	319-323	5	2
α-helix	331-351	21

Chain B: 4 helices, 29 β-strands

Element	Residues	Length	Sheet
α-helix	4-24	21
α-helix	30-33	4
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	88-94	7	4
β-strand	100-105	6	5
β-strand	111-116	6	5
β-strand	121-125	5	5
β-strand	134-139	6	5
β-strand	146-151	6	6
β-strand	156-161	6	6
β-strand	166-170	5	6
β-strand	175-180	6	6
β-strand	187	1	7
β-strand	191-192	2	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
α-helix	272	1
β-strand	273-278	6	9
β-strand	284-289	6	9
β-strand	294-298	5	9
β-strand	303-307	5	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	336-339	4	3

Chain C: 14 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	21-46	26
α-helix	47-51	5
α-helix	56-81	26
α-helix	93-125	33
α-helix	127-133	7
α-helix	136-160	25
β-strand	161	1	1
α-helix	173	1
β-strand	174	1	1
α-helix	175	1
α-helix	324-334	11
α-helix	335-339	5
α-helix	340-356	17
α-helix	365-392	28
α-helix	401-428	28
α-helix	433-442	10

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	9-22	14
α-helix	30-43	14
α-helix	45-47	3
α-helix	54-55	2

Chain H: 4 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	10-12	3	11
β-strand	18-25	8	10
α-helix	29-31	3
β-strand	34-39	6	11
β-strand	45-51	7	11
β-strand	58-60	3	11
β-strand	68-71	4	10
β-strand	78-83	6	10
α-helix	88-90	3
β-strand	92-97	6	11
β-strand	111	1	11
β-strand	115-119	5	11
β-strand	146	1	12
β-strand	149	1	13
β-strand	155-159	5	14
β-strand	166	1	15
β-strand	172	1	15
β-strand	174-179	6	12
β-strand	186-190	5	12
β-strand	194-195	2	12
α-helix	196	1
β-strand	203-208	6	14
β-strand	211-216	6	14
α-helix	221-223	3
β-strand	225-231	7	12
β-strand	239	1	12
β-strand	243-245	3	12
β-strand	247	1	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
EP54 Ligand	D	protein	10	Homo sapiens
Muscarinic acetylcholine receptor M4,C3a anaphylatoxin chemotactic receptor	C	protein	533	Homo sapiens, Mus musculus	O09047 (AlphaFold model), P08173 (AlphaFold model)
Guanine nucleotide-binding protein G(o) subunit alpha	A	protein	240	Homo sapiens	P09471 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	350	Homo sapiens	P62873 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	71	Homo sapiens	P59768
Antibody fragment ScFv16	H	protein	248	Mus musculus

Sequence of entity 1 (D), FASTA

>9UMJ_1 EP54 Ligand (chains D)
YSFKPMPLAR

Sequence of entity 2 (C), FASTA

>9UMJ_2 Muscarinic acetylcholine receptor M4,C3a anaphylatoxin chemotactic receptor (chains C)
MGKTIIALSYIFCLVFADYKDDDDAANFTPVNGSSGNQSVRLVTSSSLEVLFQGPGSESF
DADTNSTDLHSRPLFQPQDIASMVILGLTCLLGLLGNGLVLWVAGVKMKTTVNTVWFLHL
TLADFLCCLSLPFSLAHLILQGHWPYGLFLCKLIPSIIILNMFASVFLLTAISLDRCLIV
HKPIWCQNHRNVRTAFAICGCVWVVAFVMCVPVFVYRDLFIMDNRSICRYNFDSSRSYDY
WDYVYKLSLPESNSTDNSTAQLTGHMNDRSAPSSVQARDYFWTVTTALQSQPFLTSPEDS
FSLDSANQQPHYGGKPPNVLTAAVPSGFPVEDRKSNTLNADAFLSAHTELFPTASSGHLY
PYDFQGDYVDQFTYDNHVPTPLMAITITRLVVGFLVPFFIMVICYSLIVFRMRKTNFTKS
RNKTFRVAVAVVTVFFICWTPYHLVGVLLLITDPESSLGEAVMSWDHMSIALASANSCFN
PFLYALLGKDFRKKARQSIKGILEAAFSEELTHSTNCTQDKASSKRNNMSTDV

Sequence of entity 3 (A), FASTA

>9UMJ_3 Guanine nucleotide-binding protein G(o) subunit alpha (chains A)
MGHHHHHHENLYFQGTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGADNSGKST
IVKQMKIIHGGSGGSGGTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIF
CVDLSDYNRMHESLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGP
NTYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNAQVIFDAVTDIIIANNLRGCGLY

Sequence of entity 4 (B), FASTA

>9UMJ_4 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRT
LRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGN
YVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWD
IETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDIN
AICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYD
DFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 5 (G), FASTA

>9UMJ_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 6 (H), FASTA

>9UMJ_6 Antibody fragment ScFv16 (chains H)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELK

Primary citation

Molecular fingerprints of a convergent mechanism orchestrating diverse ligand recognition and species-specific pharmacology at the complement anaphylatoxin receptors. Mishra, S., Yadav, M.K., Dalal, A. et al. bioRxiv (2025). DOI 10.1101/2025.05.26.656101 · PubMed

Other PDB entries of the same protein (UniProt O09047 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9KV6 2.88 Å, Structure of mouse TLQP21 bound to mouse C3aR in complex with Go
9KV8 3.17 Å, Structure of human TLQP21 bound to mouse C3aR in complex with Go
9KZ8 3.3 Å, Structure of EP67 bound mouse C3aR in complex with Go
9KZK 3.54 Å, Structure of mouse C3a bound mouse C3aR in complex with Go
9L0H 3.57 Å, Structure of JR14a bound mouse C3aR in complex with Go

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