8JZP: Mouse C5a-human C5aR1-Go complex

Structure of mouse C5a-human C5aR1-Go complex. Determined by electron microscopy at 3.45 Å resolution. Released 15 Jan 2025.

Method: Electron microscopy
Resolution: 3.45 Å
Organisms: Homo sapiens, Mus musculus
Chains: 6
Atoms: 8,622
Mol. weight: 157.92 kDa
Released: 15 Jan 2025

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

Secondary structure: helices and β-sheets

8JZP contains 43 α-helices and 67 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: 14 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	37-50	14
α-helix	51-55	5
α-helix	56-63	8
α-helix	71-86	16
α-helix	89-97	9
α-helix	106-139	34
α-helix	141-147	7
α-helix	150-174	25
β-strand	175-178	4	1
β-strand	187-190	4	1
α-helix	199-207	9
α-helix	208-212	5
α-helix	213-231	19
α-helix	239-267	29
α-helix	272-303	32
α-helix	309-313	5

Chain B: 10 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	9-31	23
β-strand	33-37	5	2
β-strand	40	1	3
α-helix	46-53	8
β-strand	186-192	7	2
β-strand	195-201	7	2
α-helix	202-204	3
α-helix	209-211	3
α-helix	213-216	4
β-strand	221-222	2	2
β-strand	225-227	3	3
α-helix	245-255	11
β-strand	264-265	2	2
β-strand	268-270	3	3
α-helix	272-281	10
α-helix	284-286	3
α-helix	297-309	13
β-strand	319	1	2
β-strand	322-323	2	3
α-helix	330-351	22

Chain C: 5 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	4-24	21
α-helix	30-33	4
α-helix	34-36	3
β-strand	47-51	5	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
α-helix	95	1
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	146-153	8	7
β-strand	156-161	6	7
β-strand	167-170	4	7
β-strand	178-179	2	7
β-strand	187-192	6	8
β-strand	198-203	6	8
β-strand	208-212	5	8
β-strand	218-222	5	8
β-strand	229-234	6	9
β-strand	240-245	6	9
β-strand	250-254	5	9
β-strand	260-264	5	9
α-helix	272	1
β-strand	273-278	6	10
β-strand	284-289	6	10
β-strand	293-298	6	10
β-strand	304-309	6	10
β-strand	317-320	4	4
β-strand	327-330	4	4
β-strand	336-339	4	4

Chain F: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	3-10	8
α-helix	16-25	10
α-helix	34-38	5
α-helix	47-62	16

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	9-23	15
α-helix	30-44	15
α-helix	45-47	3
α-helix	54-55	2

Chain H: 6 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	11
β-strand	10-12	3	12
β-strand	18-25	8	11
α-helix	29-31	3
β-strand	34-35	2	13
β-strand	38-39	2	12
β-strand	45-46	2	12
β-strand	49-51	3	13
α-helix	53-55	3
β-strand	58-60	3	13
β-strand	65	1	11
β-strand	68-73	6	11
α-helix	74-76	3
β-strand	78-83	6	11
α-helix	88-90	3
β-strand	92-94	3	12
β-strand	97-99	3	13
β-strand	107-111	5	13
β-strand	115-119	5	12
β-strand	140-142	3	14
β-strand	146-148	3	15
β-strand	156-161	6	14
β-strand	166	1	16
β-strand	172	1	16
β-strand	174-179	6	15
β-strand	186-190	5	15
β-strand	194-195	2	15
α-helix	196	1
β-strand	204-208	5	14
β-strand	211-215	5	14
α-helix	221-223	3
β-strand	225-231	7	15
β-strand	243-246	4	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
C5a anaphylatoxin chemotactic receptor 1	A	protein	406	Homo sapiens	P21730 (AlphaFold model)
Guanine nucleotide-binding protein G(o) subunit alpha	B	protein	240	Homo sapiens	P09471 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C	protein	350	Homo sapiens	P62873 (AlphaFold model)
C5a anaphylatoxin	F	protein	109	Mus musculus	P06684 (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 (A), FASTA

>8JZP_1 C5a anaphylatoxin chemotactic receptor 1 (chains A)
MGKTIIALSYIFCLVFADYKDDDDAANFTPVNGSSGNQSVRLVTSSSLEVLFQGPGSDSF
NYTTPDYGHYDDKDTLDLNTPVDKTSNTLRVPDILALVIFAVVFLVGVLGNALVVWVTAF
EAKRTINAIWFLNLAVADFLSCLALPILFTSIVQHHHWPFGGAACSILPSLILLNMYASI
LLLATISADRFLLVFKPIWCQNFRGAGLAWIACAVAWGLALLLTIPSFLYRVVREEYFPP
KVLCGVDYSHDKRRERAVAIVRLVLGFLWPLLTLTICYTFILLRTWSRRATRSTKTLKVV
VAVVASFFIFWLPYQVTGIMMSFLEPSSPTFLLLKKLDSLCVSFAYINCCINPIIYVVAG
QGFQGRLRKSLPSLLRNVLTEESVVRESKSFTRSTVDTMAQKTQAV

Sequence of entity 2 (B), FASTA

>8JZP_2 Guanine nucleotide-binding protein G(o) subunit alpha (chains B)
MGHHHHHHENLYFQGTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGADNSGKST
IVKQMKIIHGGSGGSGGTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIF
CVDLSDYNRMHESLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGP
NTYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNAQVIFDAVTDIIIANNLRGCGLY

Sequence of entity 3 (C), FASTA

>8JZP_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains C)
MHHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRT
LRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGN
YVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWD
IETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDIN
AICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYD
DFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (F), FASTA

>8JZP_4 C5a anaphylatoxin (chains F)
MGKTIIALSYIFCLVFAHHHHHHHHEFDDDDKNLHLLRQKIEEQAAKYKHSVPKKCCYDG
ARVNFYETCEERVARVTIGPLCIRAFNECCTIANKIRKESPHKPVQLGR

Sequence of entity 5 (G), FASTA

>8JZP_5 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 6 (H), FASTA

>8JZP_6 Antibody fragment ScFv16 (chains H)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELK

Primary citation

Structure of mouse C5a-human C5aR1-Go complex. Yadav, M.K., Yadav, R., Maharana, J. et al. To be published.

Other PDB entries of the same protein (UniProt P21730 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6C1R 2.2 Å, Crystal structure of human C5a receptor in complex with an orthosteric antagonist PMX53…
22GM 2.7 Å, C5a bound C5aR1 in complex with beta-arrestin1
5O9H 2.7 Å, Crystal structure of thermostabilised human C5a anaphylatoxin chemotactic receptor 1…
7Y67 2.8 Å, Cryo-EM structure of C089-bound C5aR1(I116A) mutant in complex with Gi protein
6C1Q 2.9 Å, Crystal structure of human C5a receptor in complex with an orthosteric antagonist PMX53…
7Y64 2.9 Å, Cryo-EM structure of C5a-bound C5aR1 in complex with Gi protein
7Y66 2.9 Å, Cryo-EM structure of BM213-bound C5aR1 in complex with Gi protein
8HK5 3.0 Å, C5aR1-Gi-C5a protein complex
9KUG 3.07 Å, Structure of EP67 bound to human C5aR1 in complex with Go
9UMR 3.15 Å, Structure of C5a-pep bound human C5aR1 in complex with Go
7Y65 3.2 Å, Cryo-EM structure of C5a peptide-bound C5aR1 in complex with Gi protein
9UMX 3.2 Å, Structure of EP54 bound human C5aR1 in complex with Go

Browse structure collections

About this viewer

MolViewer shows 8JZP directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.