9IKY: 1-2C-T96F TCR

Crystal structure of 1-2C-T96F TCR in complex with HLA-A*11:01 bound to KRAS-G12V peptide (VVGAVGVGK). Determined by X-ray diffraction at 3.45 Å resolution. Released 18 Jun 2025.

Method: X-ray diffraction
Resolution: 3.45 Å
Organisms: Homo sapiens, Kirsten murine sarcoma virus, Mus musculus
Chains: 50
Atoms: 65,289
Mol. weight: 944.95 kDa
Released: 18 Jun 2025

Explore 9IKY in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9IKY contains 203 α-helices and 733 β-strands across 41 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: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	38
α-helix	4-5	2
β-strand	6-11	6	39
β-strand	21-30	10	39
β-strand	31	1	38
β-strand	36-41	6	40
β-strand	44-45	2	40
β-strand	50-51	2	39
α-helix	52-54	3
β-strand	55-56	2	39
β-strand	62-70	9	39
β-strand	78-83	6	40
β-strand	91-94	4	40

Chain A: 9 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	34
α-helix	20	1
β-strand	21-28	8	34
β-strand	31-37	7	34
β-strand	46-47	2	34
α-helix	57-85	29
β-strand	94-103	10	34
β-strand	109-118	10	34
β-strand	121-126	6	34
β-strand	133-135	3	34
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	35
α-helix	184-185	2
β-strand	186-193	8	36
β-strand	198-208	11	36
β-strand	209	1	35
β-strand	213-219	7	37
β-strand	222-223	2	37
β-strand	229-230	2	36
β-strand	234-235	2	36
β-strand	241-250	10	36
α-helix	254-256	3
β-strand	257-263	7	37
β-strand	270-273	4	37

Chain B: 2 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	41
β-strand	6	1	42
β-strand	9-11	3	42
α-helix	14-15	2
β-strand	21-30	10	42
β-strand	31	1	41
β-strand	36-41	6	43
β-strand	44-45	2	43
β-strand	50-51	2	42
β-strand	55-56	2	42
β-strand	62-70	9	42
β-strand	78-83	6	43
β-strand	91-94	4	43
α-helix	95-96	2

Chains c and w: 3 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	44
β-strand	10-14	5	45
β-strand	19-25	7	44
β-strand	33-38	6	45
β-strand	45-50	6	45
β-strand	54-58	5	44
β-strand	61-66	6	44
β-strand	71-76	6	44
α-helix	81-83	3
β-strand	86-92	7	45
β-strand	98-100	3	45
β-strand	104-109	6	45
β-strand	118-123	6	46
β-strand	124	1	47
β-strand	131-136	6	46
α-helix	145-147	3
β-strand	152-154	3	46
α-helix	155-157	3
β-strand	158-162	5	46
β-strand	167-176	10	46
β-strand	197	1	46

Chain d: 6 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	51
β-strand	10-14	5	52
β-strand	19-25	7	51
β-strand	31-38	8	52
β-strand	42-51	10	52
β-strand	54-57	4	52
β-strand	65-67	3	51
β-strand	73-78	6	51
α-helix	83-85	3
β-strand	87-94	8	52
β-strand	102-103	2	52
β-strand	107-112	6	52
α-helix	115-117	3
β-strand	119	1	53
β-strand	122-126	5	47
α-helix	127-129	3
α-helix	130-136	7
β-strand	138-148	11	47
β-strand	149	1	53
β-strand	153-159	7	54
β-strand	162-163	2	54
β-strand	168-170	3	47
α-helix	174	1
β-strand	175-176	2	47
β-strand	186-195	10	47
α-helix	196-200	5
β-strand	205-212	8	54
β-strand	215	1	55
β-strand	229	1	55
β-strand	231-238	8	54

Chain D: 2 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	48
β-strand	10-14	5	16
β-strand	19-25	7	48
β-strand	33-38	6	16
β-strand	45-50	6	16
β-strand	54-58	5	48
β-strand	61-66	6	48
β-strand	71-76	6	48
α-helix	81-83	3
β-strand	86-92	7	16
α-helix	97	1
β-strand	98-100	3	16
β-strand	104-109	6	16
β-strand	118-122	5	49
β-strand	123	1	50
β-strand	132-136	5	49
β-strand	153-154	2	49
β-strand	158-162	5	49
β-strand	167-175	9	49
β-strand	197	1	49

Chain e: 8 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	4-12	9	62
α-helix	20	1
β-strand	21-28	8	62
β-strand	31-37	7	62
β-strand	46-47	2	62
α-helix	57-84	28
β-strand	94-103	10	62
β-strand	109-118	10	62
β-strand	121-126	6	62
β-strand	133-135	3	62
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	63
β-strand	186	1	64
β-strand	189	1	65
β-strand	203	1	65
β-strand	206	1	64
β-strand	208	1	66
β-strand	209	1	63
β-strand	214-216	3	67
β-strand	229-230	2	65
α-helix	231-233	3
β-strand	234-235	2	66
β-strand	241-242	2	66
β-strand	245-246	2	65
β-strand	260-262	3	67
β-strand	270	1	67

Chain E: 5 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	56
β-strand	10-13	4	57
β-strand	19-24	6	56
β-strand	31-38	8	57
β-strand	42-49	8	57
β-strand	56-57	2	57
β-strand	65-70	6	56
β-strand	73-78	6	56
α-helix	83-85	3
β-strand	87-94	8	57
β-strand	102-103	2	57
β-strand	107-111	5	57
β-strand	119	1	58
β-strand	122-126	5	59
β-strand	127	1	50
α-helix	128-129	2
α-helix	130-136	7
β-strand	138-148	11	59
β-strand	149	1	58
β-strand	153-159	7	60
β-strand	162-164	3	60
β-strand	170	1	59
β-strand	175-176	2	59
β-strand	186-195	10	59
α-helix	196-200	5
β-strand	205-212	8	60
β-strand	215	1	61
α-helix	226-227	2
β-strand	229	1	61
β-strand	231-238	8	60

28 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
MHC class I antigen	A, F, K, P, U, Z, e, j, o, t	protein	275	Homo sapiens	A0A6M6CC39 (AlphaFold model)
Beta-2-microglobulin	B, G, L, Q, V, a, f, k, p, u	protein	100	Homo sapiens	P61769 (AlphaFold model)
Val-val-gly-ala-val-gly-val-gly-lys	C, H, M, R, W, b, g, l, q, v	protein	9	Kirsten murine sarcoma virus
1-2C-T96F TCR alpha chain	D, I, N, S, X, c, h, m, r, w	protein	204	Mus musculus	P01848 (AlphaFold model)
1-2C-T96F TCR beta chain	E, J, O, T, Y, d, i, n, s, x	protein	242	Mus musculus

Sequence of entity 1 (A, F, K, P, U, Z, e, j, o, t), FASTA

>9IKY_1 MHC class I antigen (chains A, F, K, P, U, Z, e, j, o, t)
GSHSMRYFYTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DQETRNVKAQSQTDRVDLGTLRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDG
KDYIALNEDLRSWTAADMAAQITKRKWEAAHAAEQQRAYLEGRCVEWLRRYLENGKETLQ
RTDPPKTHMTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWE

Sequence of entity 2 (B, G, L, Q, V, a, f, k, p, u), FASTA

>9IKY_2 Beta-2-microglobulin (chains B, G, L, Q, V, a, f, k, p, u)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, H, M, R, W, b, g, l, q, v), FASTA

>9IKY_3 VAL-VAL-GLY-ALA-VAL-GLY-VAL-GLY-LYS (chains C, H, M, R, W, b, g, l, q, v)
VVGAVGVGK

Sequence of entity 4 (D, I, N, S, X, c, h, m, r, w), FASTA

>9IKY_4 1-2C-T96F TCR alpha chain (chains D, I, N, S, X, c, h, m, r, w)
QQKVQQSPESLIVPEGGMASLNCTSSDRNVDYFWWYRQHSGKSPKMLMSIFSNGEKEEGR
FTVHLNKASLHTSLHIRDSQPSDSALYLCAARDSNYQLIWGSGTKLIIKPDIQNPDPAVY
QLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSD
FACANAFNNSIIPEDTFFPSPESS

Sequence of entity 5 (E, J, O, T, Y, d, i, n, s, x), FASTA

>9IKY_5 1-2C-T96F TCR beta chain (chains E, J, O, T, Y, d, i, n, s, x)
EAAVTQSPRNKVAVTGGKVTLSCNQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDI
PDGYKASRPSQENFSLILELATPSQTSVYFCASGDFGGYEQYFGPGTRLTVLEDLKNVFP
PEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPA
LNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGR
AD

Primary citation

An Engineered Soluble Single-Chain TCR Engager for KRAS-G12V Specific Tumor Immunotherapy. Ma, K., Wang, J., Jiang, M. et al. Adv Sci (Weinh) (2025) 12:e00181-e00181. DOI 10.1002/advs.202500181 · PubMed

Other PDB entries of the same protein (UniProt A0A6M6CC39 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7WKJ 1.5 Å, A COVID-19 T-cell response detection method based on a newly identified human CD8+ T…
9W6A 2.35 Å, Crystal structure of 18-3 TCR in complex with HLA-A*11:01 bound to HPV16-E6(93-101)

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