8HK2: C3aR-Gi-C3a protein complex

C3aR-Gi-C3a protein complex. Determined by electron microscopy at 2.9 Å resolution. Released 10 May 2023.

Method: Electron microscopy
Resolution: 2.9 Å
Organisms: Homo sapiens, Rattus norvegicus, Bos taurus
Chains: 6
Atoms: 9,548
Mol. weight: 176.75 kDa
Ligands: CLR, PLM
Released: 10 May 2023

Explore 8HK2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8HK2 contains 35 α-helices and 61 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: 12 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	21-50	30
α-helix	56-83	28
α-helix	94-125	32
α-helix	127-133	7
α-helix	136-153	18
α-helix	155-160	6
β-strand	162-166	5	1
β-strand	169-173	5	1
α-helix	333-341	9
α-helix	342-346	5
α-helix	347-364	18
α-helix	374-401	28
α-helix	408-435	28
α-helix	440-453	14

Chain B: 10 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-31	25
β-strand	34-39	6	2
α-helix	46-54	9
β-strand	185-190	6	2
β-strand	195-200	6	2
α-helix	208-210	3
α-helix	212-215	4
β-strand	220-226	7	2
α-helix	242-254	13
α-helix	257-259	3
β-strand	263-269	7	2
α-helix	271-280	10
α-helix	283-285	3
α-helix	296-308	13
β-strand	319-323	5	2
α-helix	328-351	24

Chain C: 4 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	47-51	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
β-strand	100-105	6	5
β-strand	111-116	6	5
β-strand	122-125	4	5
β-strand	134-137	4	5
α-helix	145	1
β-strand	146-151	6	6
β-strand	156-161	6	6
β-strand	166-170	5	6
β-strand	178-180	3	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	208-212	5	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	260-264	5	8
β-strand	276-278	3	9
β-strand	284-288	5	9
β-strand	294-298	5	9
β-strand	304-308	5	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	336-339	4	3

Chain D: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	3-12	10
α-helix	20-26	7
α-helix	37-40	4
α-helix	49-72	24

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	6-23	18
α-helix	30-43	14
α-helix	54-55	2

Chain H: 2 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	10-12	3	11
β-strand	17-25	9	10
β-strand	33-39	7	12
β-strand	45-51	7	12
β-strand	59-60	2	12
β-strand	68-73	6	10
β-strand	78-84	7	10
β-strand	93-99	7	12
β-strand	110-111	2	12
β-strand	115-116	2	12
β-strand	117-119	3	11
β-strand	140-142	3	13
β-strand	146-148	3	14
β-strand	155-161	7	13
β-strand	166	1	15
β-strand	172	1	15
β-strand	174-179	6	14
β-strand	185-190	6	14
β-strand	194-195	2	14
α-helix	196	1
β-strand	203-207	5	13
β-strand	211-216	6	13
α-helix	221-223	3
β-strand	226-231	6	14
β-strand	239	1	14
β-strand	243-246	4	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
C3a anaphylatoxin chemotactic receptor	A	protein	476	Homo sapiens	Q16581 (AlphaFold model)
Guanine nucleotide-binding protein G(i) subunit alpha-1	B	protein	353	Homo sapiens	P63096 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C	protein	345	Rattus norvegicus	P54311 (AlphaFold model)
C3a anaphylatoxin	D	protein	77	Homo sapiens	P01024 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	67	Bos taurus	P63212
scFV16	H	protein	247	Rattus norvegicus

Sequence of entity 1 (A), FASTA

>8HK2_1 C3a anaphylatoxin chemotactic receptor (chains A)
MASFSAETNSTDLLSQPWNEPPVILSMVILSLTFLLGLPGNGLVLWVAGLKMQRTVNTIW
FLHLTLADLLCCLSLPFSLAHLALQGQWPYGRFLCKLIPSIIVLNMFASVFLLTAISLDR
CLVVFKPIWCQNHRNVGMACSICGCIWVVAFVMCIPVFVYREIFTTDNHNRCGYKFGLSS
SLDYPDFYGDPLENRSLENIVQPPGEMNDRLDPSSFQTNDHPWTVPTVFQPQTFQRPSAD
SLPRGSARLTSQNLYSNVFKPADVVSPKIPSGFPIEDHETSPLDNSDAFLSTHLKLFPSA
SSNSFYESELPQGFQDYYNLGQFTDDDQVPTPLVAITITRLVVGFLLPSVIMIACYSFIV
FRMQRGRFAKSQSKTFRVAVVVVAVFLVCWTPYHIFGVLSLLTDPETPLGKTLMSWDHVC
IALASANSCFNPFLYALLGKDFRKKARQSIQGILEAAFSEELTRSTHCPSNNVISE

Sequence of entity 2 (B), FASTA

>8HK2_2 Guanine nucleotide-binding protein G(i) subunit alpha-1 (chains B)
GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAGY
SEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTA
ELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKT
TGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMN
RMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAA
YIQCQFEDLNKRKDTKEIYTHFTCSTDTKNVQFVFDAVTDVIIKNNLKDCGLF

Sequence of entity 3 (C), FASTA

>8HK2_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains C)
MGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHL
AKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACG
GLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQ
QTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFF
PNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCN
VWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (D), FASTA

>8HK2_4 C3a anaphylatoxin (chains D)
SVQLTEKRMDKVGKYPKELRKCCEDGMRENPMRFSCQRRTRFISLGEACKKVFLDCCNYI
TELRRQHARASHLGLAR

Sequence of entity 5 (G), FASTA

>8HK2_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
ASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF
REKKFFC

Sequence of entity 6 (H), FASTA

>8HK2_6 scFV16 (chains H)
VQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYA
DTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSA
GGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLEL

Ligands and cofactors

ID	Name	Formula	Copies
CLR	Cholesterol	C27 H46 O	5
PLM	Palmitic acid	C16 H32 O2	2

Primary citation

Revealing the signaling of complement receptors C3aR and C5aR1 by anaphylatoxins. Wang, Y., Liu, W., Xu, Y. et al. Nat Chem Biol (2023) 19:1351-1360. DOI 10.1038/s41589-023-01339-w · PubMed

Other PDB entries of the same protein (UniProt Q16581 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9IPV 2.53 Å, Structure of JR14a-C3aR-Gi-scFv16 complex
9KVP 2.79 Å, Structure of SB290157 bound to human C3aR in complex with Go (Full map)
9KVS 2.81 Å, Structure of SB290157 bound to human C3aR in complex with Go (Receptor Ligand Focused map)
8IA8 2.86 Å, Cryo-EM structure of C3aR-Gi-scFv16 bound with E7 peptide
8ZWG 2.87 Å, cryoEM structure of JR14a bound C3aR-Gi complex
8I95 2.88 Å, Structure of EP54-C3aR-Go complex
8ZWF 3.0 Å, cryoEM structure of JR14a bound C3aR-BRIL-BAG2 complex
8J6D 3.1 Å, Structure of EP141-C3aR-Go complex
8I9L 3.18 Å, Structure of C3a-C3aR-Go complex (Composite map)
8I97 3.19 Å, Structure of Apo-C3aR-Go complex (Glacios)
8HK3 3.2 Å, C3aR-Gi-apo protein complex
8I9S 3.26 Å, Structure of Apo-C3aR-Go complex (Titan)

Browse structure collections

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