8WTE: TCR

Crystal structure of TCR in complex with HLA-A*11:01 bound to KRAS-G12V peptide (VVGAVGVGK). Determined by X-ray diffraction at 2.17 Å resolution. Released 1 May 2024.

Method: X-ray diffraction
Resolution: 2.17 Å
Organisms: Mus musculus, Homo sapiens
Chains: 10
Atoms: 13,431
Mol. weight: 187.61 kDa
Released: 1 May 2024

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

Secondary structure: helices and β-sheets

8WTE contains 50 α-helices and 146 β-strands across 8 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: 5 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	1
β-strand	10-14	5	2
β-strand	19-25	7	1
β-strand	30-38	9	2
β-strand	45-50	6	2
β-strand	54-58	5	1
β-strand	61-66	6	1
α-helix	67-69	3
β-strand	71-76	6	1
α-helix	81-83	3
β-strand	85-93	9	2
β-strand	100-101	2	2
β-strand	105-110	6	2
β-strand	119-124	6	3
β-strand	132-137	6	3
α-helix	143-148	6
β-strand	154-155	2	3
α-helix	156-158	3
β-strand	159-162	4	3
β-strand	169-176	8	3
α-helix	184-187	4

Chain B: 6 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	3-5	3	4
β-strand	8-12	5	5
β-strand	17-19	3	6
β-strand	20-22	3	4
β-strand	29-35	7	5
β-strand	42-48	7	5
β-strand	51-55	5	5
β-strand	62-65	4	6
β-strand	71	1	4
β-strand	73-76	4	6
α-helix	81-83	3
β-strand	85-92	8	5
β-strand	103-104	2	5
β-strand	108-113	6	5
α-helix	116-118	3
β-strand	120	1	7
α-helix	121-122	2
β-strand	123-127	5	8
β-strand	128	1	3
α-helix	129-130	2
α-helix	131-137	7
β-strand	139-149	11	8
β-strand	150	1	7
β-strand	154-160	7	9
β-strand	163-165	3	9
β-strand	169-171	3	8
β-strand	176-179	4	8
β-strand	182-192	11	8
α-helix	193-196	4
β-strand	202-209	8	9
β-strand	212	1	10
β-strand	226	1	10
β-strand	228-235	8	9

Chain C: 6 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	18
β-strand	10-14	5	19
β-strand	19-25	7	18
β-strand	30-38	9	19
β-strand	45-50	6	19
β-strand	54-58	5	18
β-strand	61-66	6	18
α-helix	67-69	3
β-strand	71-76	6	18
α-helix	81-83	3
β-strand	85-93	9	19
β-strand	100-101	2	19
β-strand	105-110	6	19
α-helix	111-112	2
β-strand	119-124	6	20
β-strand	132-137	6	20
α-helix	143-146	4
β-strand	154-155	2	20
α-helix	156-158	3
β-strand	159-162	4	20
β-strand	169-176	8	20
α-helix	184-187	4

Chain D: 8 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	2-5	4	21
β-strand	8-12	5	22
β-strand	17-19	3	23
β-strand	20-23	4	21
β-strand	29-35	7	22
β-strand	42-48	7	22
β-strand	51-55	5	22
β-strand	62-65	4	23
β-strand	71	1	21
β-strand	73-76	4	23
α-helix	81-83	3
β-strand	85-92	8	22
β-strand	103-104	2	22
β-strand	108-113	6	22
α-helix	116-118	3
β-strand	120	1	24
α-helix	121-122	2
β-strand	123-127	5	25
β-strand	128	1	20
α-helix	129-130	2
α-helix	131-137	7
β-strand	139-149	11	25
β-strand	150	1	24
β-strand	154-160	7	26
β-strand	163-165	3	26
β-strand	169-171	3	25
α-helix	175	1
β-strand	176-179	4	25
β-strand	182-192	11	25
α-helix	193-196	4
β-strand	202-209	8	26
α-helix	210	1
β-strand	212	1	27
β-strand	226	1	27
β-strand	228-235	8	26

Chain E: 11 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	28
α-helix	20	1
β-strand	21-28	8	28
β-strand	31-37	7	28
β-strand	46-47	2	28
α-helix	50-52	3
α-helix	57-84	28
β-strand	94-103	10	28
β-strand	109-118	10	28
β-strand	121-126	6	28
β-strand	133-135	3	28
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
β-strand	183	1	29
α-helix	184-185	2
β-strand	186-193	8	30
β-strand	198-208	11	30
β-strand	209	1	29
β-strand	214-219	6	31
β-strand	222-223	2	31
β-strand	228-230	3	30
α-helix	231-233	3
β-strand	234-235	2	30
β-strand	241-250	10	30
α-helix	254-256	3
β-strand	257-262	6	31
β-strand	270-273	4	31

Chain F: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	32
α-helix	4-5	2
β-strand	6-11	6	33
β-strand	21-30	10	33
β-strand	31	1	32
β-strand	36-41	6	34
β-strand	44-45	2	34
β-strand	50-51	2	33
β-strand	55-56	2	33
β-strand	62-70	9	33
β-strand	78-83	6	34
β-strand	91-94	4	34

Chain H: 11 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	11
α-helix	20	1
β-strand	21-28	8	11
β-strand	31-37	7	11
β-strand	46-47	2	11
α-helix	50-54	5
α-helix	57-84	28
β-strand	94-103	10	11
β-strand	109-118	10	11
β-strand	121-126	6	11
β-strand	133-135	3	11
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
β-strand	183	1	12
α-helix	184-185	2
β-strand	186-193	8	13
β-strand	198-208	11	13
β-strand	209	1	12
β-strand	214-219	6	14
β-strand	222-224	3	14
β-strand	228-230	3	13
α-helix	231-233	3
β-strand	234-235	2	13
β-strand	241-250	10	13
α-helix	254-256	3
β-strand	257-262	6	14
β-strand	270-273	4	14

Chain I: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	15
α-helix	4-5	2
β-strand	6-11	6	16
β-strand	21-30	10	16
β-strand	31	1	15
β-strand	36-41	6	17
β-strand	44-45	2	17
α-helix	46	1
β-strand	50-51	2	16
β-strand	55-56	2	16
β-strand	62-70	9	16
β-strand	78-83	6	17
β-strand	91-94	4	17

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
T-cell receptor alpha chain	A, C	protein	198	Mus musculus	P01849 (AlphaFold model), Q5R1I3 (AlphaFold model)
T-cell receptor beta chain	B, D	protein	239	Mus musculus
MHC class I antigen (Fragment)	E, H	protein	275	Homo sapiens	A0A583ZB34 (AlphaFold model)
Beta-2-microglobulin	F, I	protein	99	Homo sapiens	P61769 (AlphaFold model)
KRAS-G12V nonamer peptide	G, J	protein	9	Homo sapiens	P01116

Sequence of entity 1 (A, C), FASTA

>8WTE_1 T-cell receptor alpha chain (chains A, C)
QQKVQQSPESLIVPEGGMASLNCTSSDRNVDYFWWYRQHSGKSPKMLMSIFSNGEKEEGR
FTVHLNKASLHTSLHIRDSQPSDSALYLCAARSSGSWQLIFGSGTQLTVMPDIQNPEPAV
YQLKDPRSQDSTLCLFTDFDSQINVPKTMESGTFITDKCVLDMKAMDSKSNGAIAWSNQT
SFTCQDIFKETNATYPSS

Sequence of entity 2 (B, D), FASTA

>8WTE_2 T-cell receptor beta chain (chains B, D)
KIIQKPKYLVAVTGSEKILICEQYLGHNAMYWYRQSAKKPLEFMFSYSYQKLMDNQTASS
RFQPQSSKKNHLDLQITALKPDDSATYFCASSQDRGDSAETLYFGSGTRLTVLEDLRNVT
PPKVSLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVCTDPQAYKESN
YSYCLSSRLRVSATFWHNPRNHFRCQVQFHGLSEEDKWPEGSPKPVTQNISAEAWGRAD

Sequence of entity 3 (E, H), FASTA

>8WTE_3 MHC class I antigen (Fragment) (chains E, H)
GSHSMRYFYTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DQETRNVKAQSQTDRVDLGTLRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDG
KDYIALNEDLRSWTAADMAAQITKRKWEAAHAAEQQRAYLEGRCVEWLRRYLENGKETLQ
RTDPPKTHMTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWE

Sequence of entity 4 (F, I), FASTA

>8WTE_4 Beta-2-microglobulin (chains F, I)
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDW
SFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 5 (G, J), FASTA

>8WTE_5 KRAS-G12V nonamer peptide (chains G, J)
VVGAVGVGK

Primary citation

Identification and affinity enhancement of T-cell receptor targeting a KRAS G12V cancer neoantigen. Zhang, M., Xu, W., Luo, L. et al. Commun Biol (2024) 7:512-512. DOI 10.1038/s42003-024-06209-2 · PubMed

Other PDB entries of the same protein (UniProt P01849 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5M02 1.75 Å, Crystal structure of murine P14 TCR / H-2Db with PF, modified gp33 peptide from LCMV
2Q86 1.85 Å, Structure of the mouse invariant NKT cell receptor Valpha14
6G9Q 1.89 Å, Ternary complex of P14 TCR with murine MHC class I H-2 Db in complex with self-antigen…
5M01 1.95 Å, Crystal structure of murine P14 TCR/ H-2Db complex with PA, modified gp33 peptide from…
1LP9 2.0 Å, Xenoreactive complex AHIII 12.2 TCR bound to p1049/HLA-A2.1
8WUL 2.36 Å, Crystal structure of affinity enhanced TCR in complex with HLA-A*11:01 bound to…
2JCC 2.5 Å, AH3 recognition of mutant HLA-A2 W167A
1NFD 2.8 Å, An alpha-beta T cell receptor (TCR) heterodimer in complex with an anti-TCR FAB fragment…
2J8U 2.88 Å, Large CDR3a loop alteration as a function of MHC mutation.
3MBE 2.89 Å, TCR 21.30 in complex with MHC class II I-Ag7HEL(11-27)
3C6L 3.4 Å, Crystal structure of mouse MHC class II I-Ab/3K peptide complexed with mouse TCR 2W20
6MF8 TCR alpha transmembrane domain

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