8CX4: TCR-antigen complex AS8.4-YEIH-HLA*B27

TCR-antigen complex AS8.4-YEIH-HLA*B27. Determined by X-ray diffraction at 2.2 Å resolution. Released 7 Dec 2022.

Method: X-ray diffraction
Resolution: 2.2 Å
Organisms: Homo sapiens, Escherichia coli
Chains: 5
Atoms: 6,706
Mol. weight: 95.5 kDa
Released: 7 Dec 2022

Explore 8CX4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8CX4 contains 26 α-helices and 71 β-strands across 4 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, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	1
α-helix	20	1
β-strand	21-28	8	1
β-strand	31-37	7	1
α-helix	45	1
β-strand	46-47	2	1
α-helix	50-52	3
α-helix	57-85	29
β-strand	94-103	10	1
β-strand	109-118	10	1
β-strand	121-126	6	1
β-strand	133-135	3	1
α-helix	138-149	12
α-helix	152-158	7
α-helix	159-163	5
α-helix	164-174	11
α-helix	176-179	4
α-helix	182	1
β-strand	183	1	2
α-helix	184-185	2
β-strand	186-193	8	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-219	6	4
β-strand	223	1	4
α-helix	225-227	3
β-strand	229-230	2	3
α-helix	231-233	3
β-strand	234-235	2	3
β-strand	241-250	10	3
α-helix	254-256	3
β-strand	257-262	6	4
β-strand	270-272	3	4

Chain B: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	5
α-helix	4-5	2
β-strand	6-11	6	6
β-strand	21-30	10	6
β-strand	31	1	5
β-strand	36-41	6	7
β-strand	44-45	2	7
α-helix	46	1
β-strand	50-51	2	6
β-strand	55-56	2	6
β-strand	62-70	9	6
β-strand	78-83	6	7
β-strand	91-94	4	7

Chain D: 3 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	5-8	4	8
β-strand	11-15	5	9
β-strand	20-26	7	8
β-strand	33-39	7	9
β-strand	45-52	8	9
β-strand	57-60	4	8
β-strand	63-68	6	8
β-strand	73-78	6	8
α-helix	83-85	3
β-strand	87-96	10	9
β-strand	103-107	5	9
β-strand	111-116	6	9
β-strand	125-131	7	10
β-strand	138-143	6	10
β-strand	159-161	3	10
β-strand	165-169	5	10
α-helix	170-172	3
β-strand	174-183	10	10
α-helix	190-193	4
β-strand	204	1	10

Chain F: 7 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	11
β-strand	10-14	5	12
β-strand	19-24	6	11
α-helix	25-26	2
β-strand	31-38	8	12
β-strand	42-50	9	12
β-strand	53-57	5	12
β-strand	64-68	5	11
β-strand	74-78	5	11
α-helix	83-85	3
β-strand	87-94	8	12
β-strand	104-105	2	12
β-strand	109-114	6	12
α-helix	117-119	3
β-strand	121	1	13
β-strand	124-129	6	10
α-helix	130-131	2
α-helix	132-137	6
β-strand	140-150	11	10
β-strand	151	1	13
β-strand	155-161	7	14
β-strand	164-166	3	14
β-strand	170-172	3	10
α-helix	176	1
β-strand	177-178	2	10
β-strand	188-197	10	10
α-helix	198-201	4
β-strand	207-214	8	14
β-strand	217	1	12
β-strand	231	1	12
β-strand	233-240	8	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	279	Homo sapiens	A3F718 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Yeih	C	protein	9	Escherichia coli	P62723 (AlphaFold model)
AS8.4a	D	protein	210	Homo sapiens
AS8.4b	F	protein	244	Homo sapiens

Sequence of entity 1 (A), FASTA

>8CX4_1 MHC class I antigen (chains A)
MGSHSMRYFHTSVSRPGRGEPRFITVGYVDDTLFVRFDSDAASPREEPRAPWIEQEGPEY
WDRETQISKAKAQTDREDLRTLLRYYNQSEAGSHTLQNMYGCDVGPDGRLLRGYHQDAYD
GKDYIALNEDLSSWTAADTAAQITQRKWEAARVAEQLRAYLEGECVEWLRRYLENGKETL
QRADPPKTHVTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDR
TFQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWEPSS

Sequence of entity 2 (B), FASTA

>8CX4_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>8CX4_3 YEIH (chains C)
LRVMMLAPF

Sequence of entity 4 (D), FASTA

>8CX4_4 AS8.4a (chains D)
KQEVTQIPAALSVPEGENLVLNCSFTDSAIYNLQWFRQDPGKGLTSLLLIQSSQREQTSG
RLNASLDKSSGRSTLYIAASQPGDSATYLCAVNSPGSGAGSYQLTFGKGTKLSVIPNIQN
PDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVA
WSNKSDFACANAFNNSIIPEDTFFPSPESS

Sequence of entity 5 (F), FASTA

>8CX4_5 AS8.4b (chains F)
DSGVTQTPKHLITATGQRVTLRCSPRSGDLSVYWYQQSLDQGLQFLIQYYNGEERAKGNI
LERFSAQQFPDLHSELNLSSLELGDSALYFCASSVGTYSTDTQYFGPGTRLTVLEDLKNV
FPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQ
PALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAW
GRAD

Primary citation

Autoimmunity-associated T cell receptors recognize HLA-B*27-bound peptides. Yang, X., Garner, L.I., Zvyagin, I.V. et al. Nature (2022) 612:771-777. DOI 10.1038/s41586-022-05501-7 · PubMed

Other PDB entries of the same protein (UniProt A3F718 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9PBG 2.0 Å, TCR 19.2 complex with YEIH-HLA B*27:05
9PBH 2.13 Å, AS19.2 TCR complex with PSG5-HLA B*27:05
7N2R 2.28 Å, AS4.3-PRPF3-HLA*B27
7N2O 2.3 Å, AS4.2-yeih-HLA*B27
7N2S 2.37 Å, AS3.1-PRPF3-HLA*B27
7N2P 2.5 Å, AS4.3-RNASEH2b-HLA*B27
7N2N 2.6 Å, TCR-antigen complex AS4.2-PRPF3-HLA*B27
7N2Q 2.7 Å, AS4.3-yeih-HLA*B27
7T0L 3.0 Å, HLA-B*27:05 in complex with the pan-HLA-Ia monoclonal antibody W6/32

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