5C0A: 1E6 TCR

1E6 TCR in complex with HLA-A02 carrying MVW peptide. Determined by X-ray diffraction at 2.46 Å resolution. Released 4 May 2016.

Method: X-ray diffraction
Resolution: 2.46 Å
Organism: Homo sapiens
Chains: 10
Atoms: 13,708
Mol. weight: 192.51 kDa
Released: 4 May 2016

Explore 5C0A in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5C0A contains 54 α-helices and 142 β-strands across 10 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: 10 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	1
β-strand	21-28	8	1
β-strand	31-37	7	1
β-strand	46-47	2	1
α-helix	50-52	3
α-helix	57-84	28
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	159-164	6
α-helix	165-173	9
α-helix	176-179	4
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	222-223	2	4
β-strand	228-230	3	3
α-helix	231-233	3
β-strand	234-235	2	3
β-strand	241-250	10	3
α-helix	253-256	4
β-strand	257-262	6	4
β-strand	270-272	3	4

Chain B: 4 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
α-helix	52-54	3
β-strand	55-56	2	6
β-strand	62-70	9	6
β-strand	78-83	6	7
α-helix	90	1
β-strand	91-94	4	7

Chains C and H: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	7-9	3

Chain D: 5 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	4-6	3	8
β-strand	11-14	4	9
β-strand	19-25	7	8
β-strand	32-38	7	9
β-strand	45-51	7	9
β-strand	54-58	5	8
β-strand	61-66	6	8
β-strand	71-76	6	8
α-helix	81-83	3
β-strand	85-92	8	9
β-strand	100-101	2	9
β-strand	105-110	6	9
α-helix	111-112	2
β-strand	119-125	7	10
β-strand	132-137	6	10
β-strand	153-155	3	10
α-helix	156-158	3
β-strand	159-163	5	10
β-strand	168-177	10	10
α-helix	184-186	3
α-helix	192-193	2
β-strand	196	1	10

Chain E: 9 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	31-37	7	12
β-strand	43-50	8	12
β-strand	53-56	4	12
β-strand	65-71	7	11
β-strand	74-79	6	11
α-helix	84-86	3
β-strand	88-95	8	12
α-helix	97-100	4
β-strand	106-107	2	12
β-strand	111-116	6	12
α-helix	119-121	3
β-strand	123	1	13
α-helix	124-125	2
β-strand	126-131	6	10
α-helix	132-133	2
α-helix	134-140	7
β-strand	142-152	11	10
β-strand	153	1	13
β-strand	157-163	7	14
β-strand	166-168	3	14
β-strand	172-174	3	10
α-helix	178	1
β-strand	179-180	2	10
β-strand	190-199	10	10
α-helix	200-203	4
β-strand	209-216	8	14
β-strand	219	1	15
β-strand	233	1	15
β-strand	235-242	8	14

Chain F: 10 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	16
β-strand	21-28	8	16
β-strand	31-37	7	16
β-strand	46-47	2	16
α-helix	50-52	3
α-helix	57-84	28
β-strand	94-103	10	16
β-strand	109-118	10	16
β-strand	121-126	6	16
β-strand	133-135	3	16
α-helix	138-149	12
α-helix	152-158	7
α-helix	159-164	6
α-helix	165-174	10
α-helix	176-179	4
β-strand	183	1	17
α-helix	184-185	2
β-strand	186-193	8	18
β-strand	198-208	11	18
β-strand	209	1	17
β-strand	214-219	6	19
β-strand	222-223	2	19
β-strand	228-230	3	18
α-helix	231-233	3
β-strand	234-235	2	18
β-strand	241-250	10	18
α-helix	253-256	4
β-strand	257-262	6	19
β-strand	270-272	3	19

Chain G: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	20
α-helix	4-5	2
β-strand	6-11	6	21
β-strand	21-30	10	21
β-strand	31	1	20
β-strand	36-41	6	22
β-strand	44-45	2	22
β-strand	50-51	2	21
β-strand	55-56	2	21
β-strand	62-70	9	21
β-strand	78-83	6	22
α-helix	90	1
β-strand	91-94	4	22

Chain I: 3 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	4-6	3	23
β-strand	11-14	4	24
β-strand	19-25	7	23
β-strand	32-38	7	24
β-strand	45-51	7	24
β-strand	54-58	5	23
β-strand	61-66	6	23
β-strand	71-76	6	23
α-helix	81-83	3
β-strand	85-92	8	24
β-strand	100-101	2	24
β-strand	105-110	6	24
α-helix	111-112	2
β-strand	119-125	7	25
β-strand	132-137	6	25
β-strand	154-155	2	25
α-helix	156-158	3
β-strand	159-163	5	25
β-strand	168-176	9	25
β-strand	196	1	25

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)
Marker peptide	C, H	protein	10	Homo sapiens
1E6 TCR Alpha Chain	D, I	protein	197	Homo sapiens	A0A0B4J271 (AlphaFold model), P01848 (AlphaFold model)
1E6 TCR Beta Chain	E, J	protein	246	Homo sapiens	A0A0B4J2E0, A0A5B9

Sequence of entity 1 (A, F), FASTA

>5C0A_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

>5C0A_2 Beta-2-microglobulin (chains B, G)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, H), FASTA

>5C0A_3 Marker peptide (chains C, H)
MVWGPDPLYV

Sequence of entity 4 (D, I), FASTA

>5C0A_4 1E6 TCR Alpha Chain (chains D, I)
EVEQDPGPLSVPEGAIVSLNCTYSNSAFQYFMWYRQYSRKGPELLMYTYSSGNKEDGRFT
AQVDKSSKYISLFIRDSQPSDSATYLCAMRGDSSYKLIFGSGTRLLVRPDIQNPDPAVYQ
LRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDF
ACANAFNNSIIPEDTFF

Sequence of entity 5 (E, J), FASTA

>5C0A_5 1E6 TCR Beta Chain (chains E, J)
DAGVIQSPRHEVTEMGQQVTLRCKPISGHDYLFWYRQTMMRGLELLIYFNNNVPIDDSGM
PEDRFSAKMPNASFSTLKIQPSEPRDSAVYFCASSLWEKLAKNIQYFGAGTRLSVLEDLK
NVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLK
EQPALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAE
AWGRAD

Primary citation

Hotspot autoimmune T cell receptor binding underlies pathogen and insulin peptide cross-reactivity. Cole, D.K., Bulek, A.M., Dolton, G. et al. J Clin Invest (2016) 126:2191-2204. DOI 10.1172/JCI85679 · 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

Browse structure collections

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