8XYK: CXCR3

Structure of CXCR3 in complex with VUF10661 and Go (Full map). Determined by electron microscopy at 3.03 Å resolution. Released 26 Feb 2025.

Method: Electron microscopy
Resolution: 3.03 Å
Organisms: Homo sapiens, Mus musculus
Chains: 5
Atoms: 8,807
Mol. weight: 147.13 kDa
Ligands: A1LW1
Released: 26 Feb 2025

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

Secondary structure: helices and β-sheets

8XYK contains 35 α-helices and 63 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: 7 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	7-29	23
β-strand	33-39	7	2
β-strand	186-188	3	2
β-strand	191	1	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	244-255	12
β-strand	264-270	7	2
α-helix	272-281	10
α-helix	297-309	13
β-strand	319	1	2
β-strand	322-323	2	2
α-helix	331-350	20

Chain B: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	6-25	20
α-helix	30-33	4
β-strand	47-52	6	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	146-153	8	6
β-strand	156-161	6	6
β-strand	165-169	5	6
β-strand	176-181	6	6
β-strand	187-192	6	7
β-strand	198-203	6	7
β-strand	207-212	6	7
β-strand	217-223	7	7
β-strand	229-234	6	8
β-strand	240-245	6	8
β-strand	250-254	5	8
β-strand	259-263	5	8
α-helix	272	1
β-strand	273-278	6	9
β-strand	284-289	6	9
β-strand	293-298	6	9
β-strand	304-309	6	9
β-strand	315-320	6	3
β-strand	327-331	5	3
β-strand	335-339	5	3

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	11-23	13
α-helix	30-43	14
α-helix	53-55	3
α-helix	56-58	3

Chain R: 14 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	47-67	21
α-helix	68-72	5
α-helix	73-79	7
α-helix	87-104	18
α-helix	106-114	9
α-helix	120-153	34
α-helix	169-189	21
β-strand	191-194	4	1
β-strand	201-204	4	1
α-helix	209-219	11
α-helix	220-225	6
α-helix	226-243	18
α-helix	250-282	33
α-helix	290-314	25
α-helix	315-319	5
α-helix	323-334	12

Chain S: 7 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	33-40	8	11
β-strand	44-51	8	11
β-strand	58-60	3	11
β-strand	65	1	10
β-strand	68-73	6	10
β-strand	78-83	6	10
α-helix	88-90	3
β-strand	92-99	8	11
β-strand	111	1	11
β-strand	115-119	5	11
α-helix	125-127	3
β-strand	128-129	2	12
β-strand	134-136	3	13
β-strand	143-149	7	12
β-strand	154	1	14
β-strand	160	1	14
β-strand	162-167	6	13
β-strand	174-177	4	13
α-helix	182	1
β-strand	183	1	13
α-helix	184	1
β-strand	191-196	6	12
β-strand	199-204	6	12
α-helix	209-211	3
β-strand	214-219	6	13
α-helix	225	1
β-strand	226	1	13
β-strand	231-234	4	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
C-X-C chemokine receptor type 3	R	protein	424	Homo sapiens	P49682 (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 (AlphaFold model)
Antibody fragment ScFv16	S	protein	248	Mus musculus

Sequence of entity 1 (R), FASTA

>8XYK_1 C-X-C chemokine receptor type 3 (chains R)
MGKTIIALSYIFCLVFADYKDDDDAANFTPVNGSSGNQSVRLVTSSSLEVLFQGPGSVLE
VSDHQVLNDAEVAALLENFSSSYDYGENESDSCCTSPPCPQDFSLNFDRAFLPALYSLLF
LLGLLGNGAVAAVLLSRRTALSSTDTFLLHLAVADTLLVLTLPLWAVDAAVQWVFGSGLC
KVAGALFNINFYAGALLLACISFDRYLNIVHATQLYRRGPPARVTLTCLAVWGLCLLFAL
PDFIFLSAHHDERLNATHCQYNFPQVGRTALRVLQLVAGFLLPLLVMAYCYAHILAVLLV
SRGQRRLRAMRLVVVVVVAFALCWTPYHLVVLVDILMDLGALARNCGRESRVDVAKSVTS
GLGYMHCCLNPLLYAFVGVKFRERMWMLLLRLGCPNQRGLQRQPSSSRRDSSWSETSEAS
YSGL

Sequence of entity 2 (A), FASTA

>8XYK_2 Guanine nucleotide-binding protein G(o) subunit alpha (chains A)
MGHHHHHHENLYFQGTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGADNSGKST
IVKQMKIIHGGSGGSGGTTGIVETHFTFKNLHFRLFDVGGQRSERKKWIHCFEDVTAIIF
CVDLSDYNRMHESLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGP
NTYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNAQVIFDAVTDIIIANNLRGCGLY

Sequence of entity 3 (B), FASTA

>8XYK_3 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MHHHHHHGSSGSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRT
LRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGN
YVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWD
IETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDIN
AICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYD
DFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 4 (G), FASTA

>8XYK_4 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 5 (S), FASTA

>8XYK_5 Antibody fragment ScFv16 (chains S)
DVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYY
ADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVS
SGGGGSGGGGSGGGGSDIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQR
PGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFG
AGTKLELK

Ligands and cofactors

ID	Name	Formula	Copies
A1LW1	(3~{S})-~{N}-[(2~{S})-6-azanyl-1-(2,2-diphenylethylamino)-1-oxidanylidene-hexan…	C40 H44 N4 O4	1

Primary citation

Structural visualization of small molecule recognition by CXCR3 uncovers dual-agonism in the CXCR3-CXCR7 system. Saha, S., Sano, F.K., Sharma, S. et al. Nat Commun (2025) 16:3047-3047. DOI 10.1038/s41467-025-58264-w · PubMed

Other PDB entries of the same protein (UniProt P49682 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8HNM 2.94 Å, CXCR3-DNGi complex activated by VUF11222
9P0M 2.95 Å, Composite map of CXCL11-CXCR3-Gi-scFv16
8HNL 2.98 Å, CXCR3-DNGi complex activated by PS372424
8K2W 3.0 Å, Structure of CXCR3 complexed with antagonist AMG487
8HNK 3.01 Å, CXCR3-DNGi complex activated by CXCL11
8Y0N 3.07 Å, Structure of CXCR3 in complex with VUF11418 and Go (Full map)
9P0L 3.1 Å, Composite map of CXCL10-CXCR3-Gi-scFv16
8XYI 3.16 Å, Structure of CXCR3 in complex with VUF10661 (Receptor-ligand focused map)
8K2X 3.2 Å, CXCR3-DNGi complex activated by CXCL10
8XXZ 3.3 Å, Structure of CXCR3 in the apo-state (Full map)
9P0K 3.5 Å, Composite map of CXCL9-CXCR3-Gi-scFv16
8Y0H 3.53 Å, Structure of CXCR3 in complex with VUF11418 (Receptor-ligand focused map)

Browse structure collections

About this viewer

MolViewer shows 8XYK 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.