5HYJ: 1E6 TCR

1E6 TCR in Complex with HLA-A02 carrying AQWGPDPAAA. Determined by X-ray diffraction at 3.06 Å resolution. Released 4 May 2016.

Method: X-ray diffraction
Resolution: 3.06 Å
Organism: Homo sapiens
Chains: 10
Atoms: 13,392
Mol. weight: 189.06 kDa
Released: 4 May 2016

Explore 5HYJ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5HYJ contains 47 α-helices and 143 β-strands across 9 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, 21 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
β-strand	46-47	2	1
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	137-150	14
α-helix	152-157	6
α-helix	158-164	7
α-helix	165-174	10
α-helix	176-179	4
β-strand	183	1	2
β-strand	189-191	3	3
β-strand	195	1	4
β-strand	198	1	4
β-strand	200-208	9	3
β-strand	209	1	2
β-strand	213-219	7	5
α-helix	231-233	3
β-strand	234-235	2	3
β-strand	241-248	8	3
α-helix	254-256	3
β-strand	257-263	7	5
β-strand	264	1	6
β-strand	266	1	6
β-strand	270-273	4	5

Chain B: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	7
α-helix	4-5	2
β-strand	6-11	6	8
β-strand	23-30	8	8
β-strand	31	1	7
β-strand	36-41	6	9
β-strand	44-45	2	9
β-strand	50-51	2	8
α-helix	52-54	3
β-strand	55-56	2	8
β-strand	62-68	7	8
β-strand	78-83	6	9
β-strand	91-94	4	9

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	7-9	3

Chain D: 4 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	10
β-strand	11-14	4	11
β-strand	19-25	7	10
β-strand	32-38	7	11
β-strand	44-51	8	11
β-strand	54-58	5	10
β-strand	61-66	6	10
β-strand	71-76	6	10
α-helix	81-83	3
β-strand	85-92	8	11
α-helix	98-100	3
β-strand	105-110	6	11
β-strand	119-122	4	12
β-strand	125	1	13
β-strand	134-137	4	12
α-helix	143-145	3
β-strand	154-155	2	12
β-strand	159-163	5	12
β-strand	168-176	9	12
α-helix	186-188	3

Chain E: 8 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	14
β-strand	10-14	5	15
α-helix	18	1
β-strand	19-24	6	14
β-strand	31-37	7	15
β-strand	43-50	8	15
β-strand	53-56	4	15
β-strand	65-71	7	14
β-strand	74-79	6	14
α-helix	84-86	3
β-strand	88-95	8	15
α-helix	97-100	4
β-strand	106-107	2	15
β-strand	111-116	6	15
α-helix	119-121	3
β-strand	123	1	16
α-helix	124-125	2
β-strand	126-130	5	13
α-helix	134-139	6
β-strand	142-152	11	13
β-strand	153	1	16
β-strand	157-163	7	17
β-strand	166-168	3	17
β-strand	172	1	13
β-strand	179-180	2	13
β-strand	190-199	10	13
α-helix	200-203	4
β-strand	209-216	8	17
β-strand	219	1	18
α-helix	230-231	2
β-strand	233	1	18
β-strand	235-242	8	17

Chain F: 10 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	19
α-helix	15-17	3
α-helix	20	1
β-strand	21-28	8	19
β-strand	31-37	7	19
β-strand	46-47	2	19
α-helix	57-85	29
β-strand	94-103	10	19
β-strand	109-118	10	19
β-strand	121-126	6	19
β-strand	133-134	2	19
α-helix	138-150	13
α-helix	152-157	6
α-helix	158-164	7
α-helix	165-174	10
α-helix	176-179	4
β-strand	183	1	20
β-strand	189-191	3	21
β-strand	195	1	22
β-strand	198	1	22
β-strand	200-208	9	21
β-strand	209	1	20
β-strand	213-219	7	23
β-strand	222-223	2	23
α-helix	231-233	3
β-strand	234-235	2	21
β-strand	241-248	8	21
α-helix	254-256	3
β-strand	257-263	7	23
β-strand	270-273	4	23

Chain G: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	24
α-helix	4-5	2
β-strand	6-11	6	25
β-strand	21-30	10	25
β-strand	31	1	24
β-strand	36-41	6	26
β-strand	44-45	2	26
β-strand	50-51	2	25
α-helix	52-54	3
β-strand	55-56	2	25
β-strand	62-70	9	25
β-strand	78-83	6	26
β-strand	91-94	4	26

Chain I: 4 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	27
β-strand	11-14	4	28
β-strand	19-25	7	27
β-strand	32-38	7	28
α-helix	43	1
β-strand	44-51	8	28
β-strand	55-58	4	27
β-strand	61-66	6	27
β-strand	71-76	6	27
α-helix	81-83	3
β-strand	85-92	8	28
β-strand	105-110	6	28
β-strand	119-122	4	29
β-strand	124-125	2	30
β-strand	132-137	6	29
α-helix	143-145	3
β-strand	154-155	2	29
β-strand	159-163	5	29
β-strand	168-177	10	29
α-helix	186-188	3

1 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
HLA class I histocompatibility antigen, A-2 alpha chain	A, F	protein	276	Homo sapiens	P04439 (AlphaFold model)
Beta-2-microglobulin	B, G	protein	100	Homo sapiens	P61769 (AlphaFold model)
Ala-gln-trp-gly-pro-asp-pro-ala-ala-ala	C, H	protein	10	Homo sapiens	P01308 (AlphaFold model)
Human T-cell Receptor, Class I, Light alpha Chain	D, I	protein	193	Homo sapiens	A0A0B4J271 (AlphaFold model), P01848
Human T-cell Receptor, Class I, Heavy beta Chain	E, J	protein	246	Homo sapiens	A0A0B4J2E0, A0A5B9

Sequence of entity 1 (A, F), FASTA

>5HYJ_1 HLA class I histocompatibility antigen, A-2 alpha chain (chains A, F)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B, G), FASTA

>5HYJ_2 Beta-2-microglobulin (chains B, G)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, H), FASTA

>5HYJ_3 ALA-GLN-TRP-GLY-PRO-ASP-PRO-ALA-ALA-ALA (chains C, H)
AQWGPDPAAA

Sequence of entity 4 (D, I), FASTA

>5HYJ_4 Human T-cell Receptor, Class I, Light alpha Chain (chains D, I)
KEVEQDPGPLSVPEGAIVSLNCTYSNSAFQYFMWYRQYSRKGPELLMYTYSSGNKEDGRF
TAQVDKSSKYISLFIRDSQPSDSATYLCAMRGDSSYKLIFGSGTRLLVRPDIQNPDPAVY
QLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSD
FACANAFNNSIIP

Sequence of entity 5 (E, J), FASTA

>5HYJ_5 Human T-cell Receptor, Class I, Heavy beta Chain (chains E, J)
DAGVIQSPRHEVTEMGQQVTLRCKPISGHDYLFWYRQTMMRGLELLIYFNNNVPIDDSGM
PEDRFSAKMPNASFSTLKIQPSEPRDSAVYFCASSLWEKLAKNIQYFGAGTRLSVLEDLK
NVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLK
EQPALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAE
AWGRAD

Primary citation

A "hotspot" for autoimmune T cells in type 1 diabetes. Stadinski, B.D., Obst, R., Huseby, E.S. J Clin Invest (2016) 126:2040-2042. DOI 10.1172/JCI88165 · PubMed

Other PDB entries of the same protein (UniProt P04439 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3MRE 1.1 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with EBV bmlf1-280-288…
3D25 1.3 Å, Crystal structure of HA-1 minor histocompatibility antigen bound to human class I MHC…
3MRG 1.3 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with HCV NS3-1073-1081…
6JOZ 1.35 Å, Crystal structure of BRLF peptide from EBV in complex with HLA-A1101.
5C0G 1.37 Å, HLA-A02 carrying YLGGPDFPTI
5N1Y 1.39 Å, HLA-A02 carrying MVWGPDPLYV
1I4F 1.4 Å, Crystal structure of HLA-A*0201/MAGE-A4-peptide complex
1OGA 1.4 Å, A structural basis for immunodominant human T-cell receptor recognition.
3MRB 1.4 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with HCMV pp65-495-503…
3MRK 1.4 Å, Crystal Structure of MHC class I HLA-A2 molecule complexed with AFP137 nonapeptide
6J2A 1.4 Å, The structure of HLA-A*3003/NP44
1X7Q 1.45 Å, Crystal structure of HLA-A*1101 with sars nucleocapsid peptide

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