7OW6: TCR

Crystal structure of a TCR in complex with HLA-A*11:01 bound to KRAS G12D peptide (VVVGADGVGK). Determined by X-ray diffraction at 2.64 Å resolution. Released 20 Jul 2022.

Method: X-ray diffraction
Resolution: 2.64 Å
Organism: Homo sapiens
Chains: 5
Atoms: 6,536
Mol. weight: 95.42 kDa
Released: 20 Jul 2022

Explore 7OW6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7OW6 contains 19 α-helices and 73 β-strands across 5 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: 8 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-14	12	1
β-strand	18-28	11	1
β-strand	31-37	7	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	138-150	13
α-helix	152-160	9
α-helix	163-174	12
α-helix	176-179	4
β-strand	183	1	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	222-224	3	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	254-256	3
β-strand	257-262	6	4
β-strand	270-272	3	4

Chain B: 3 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
β-strand	91-94	4	7

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-5	4

Chain D: 1 helix, 17 β-strands

Element	Residues	Length	Sheet
β-strand	3-5	3	8
β-strand	10-14	5	9
β-strand	19-21	3	8
β-strand	24-26	3	8
β-strand	33-39	7	9
β-strand	46-52	7	9
β-strand	58-61	4	8
β-strand	64-69	6	8
β-strand	74-79	6	8
α-helix	84-86	3
β-strand	88-97	10	9
β-strand	103-107	5	9
β-strand	111-116	6	9
β-strand	125-130	6	10
β-strand	131	1	11
β-strand	138-143	6	10
β-strand	160-161	2	10
β-strand	178-182	5	10

Chain E: 6 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	12
β-strand	10-14	5	13
β-strand	19-21	3	14
β-strand	22-25	4	12
β-strand	31-37	7	13
β-strand	43-49	7	13
β-strand	55-57	3	13
β-strand	65-67	3	14
β-strand	73	1	12
β-strand	75-78	4	14
α-helix	83-85	3
β-strand	87-94	8	13
α-helix	97-99	3
β-strand	105-106	2	13
β-strand	110-115	6	13
β-strand	122	1	15
β-strand	125-129	5	11
α-helix	130-132	3
α-helix	133-139	7
β-strand	141-151	11	11
β-strand	152	1	15
β-strand	156-162	7	16
β-strand	165-166	2	16
β-strand	171-173	3	11
α-helix	177	1
β-strand	178-179	2	11
β-strand	189-198	10	11
α-helix	199-203	5
β-strand	208-215	8	16
β-strand	218	1	17
β-strand	232	1	17
β-strand	234-241	8	16

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	276	Homo sapiens	A0A583ZB34 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
KRAS G12D peptide (VVVGADGVGK)	C	protein	10	Homo sapiens	P01111 (AlphaFold model)
TCR alpha	D	protein	203	Homo sapiens
TCR beta	E	protein	246	Homo sapiens

Sequence of entity 1 (A), FASTA

>7OW6_1 MHC class I antigen (chains A)
GSHSMRYFYTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DQETRNVKAQSQTDRVDLGTLRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDG
KDYIALNEDLRSWTAADMAAQITKRKWEAAHAAEQQRAYLEGRCVEWLRRYLENGKETLQ
RTDPPKTHMTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>7OW6_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>7OW6_3 KRAS G12D peptide (VVVGADGVGK) (chains C)
VVVGADGVGK

Sequence of entity 4 (D), FASTA

>7OW6_4 TCR alpha (chains D)
AQKVTQAQTEISVVEKEDVTLDCVYETRDTAYYLFWYKQPPSGELVFLIRQPWWGEQNEI
SGRYSWNFQKSTSSFNFTITASQVVDSAVYFCAMSVPSGDGSYQFTFGKGTKLSVIPNIQ
NPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAV
AWSNKSDFACANAFNNSIIPEDT

Sequence of entity 5 (E), FASTA

>7OW6_5 TCR beta (chains E)
MNAGVTQTPKFRVLKTGQSMTLLCAQDMNHEYMYWYRQDPGMGLRLIHYSVGEGTTAKGE
VPDGYNVSRLKKQNFLLGLESAAPSQTSVYFCASKVGPGQHNSPLHFGNGTRLTVTEDLN
KVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLK
EQPALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAE
AWGRAD

Primary citation

Therapeutic high affinity T cell receptor targeting a KRASG12D cancer neoantigen. Poole, A., Karuppiah, V., Hartt, A. et al. Nat Commun (2022) 13:5333. DOI 10.1038/s41467-022-32811-1

Other PDB entries of the same protein (UniProt A0A583ZB34 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7OW4 1.81 Å, Crystal structure of HLA-A*11:01 in complex with KRAS G12D peptide (VVVGADGVGK)
8RYN 1.97 Å, Structure of S2 TCR in complex with HLA-A*11:01 bound to ELFSYLIEK peptide
8WTE 2.17 Å, Crystal structure of TCR in complex with HLA-A*11:01 bound to KRAS-G12V peptide…
8WUL 2.36 Å, Crystal structure of affinity enhanced TCR in complex with HLA-A*11:01 bound to…
7OW3 2.46 Å, Crystal structure of HLA-A*11:01 in complex with KRAS peptide (VVVGAGGVGK)
8RYQ 2.49 Å, Structure of S8-9F3 TCR in complex with HLA-A*11:01 bound to ELFSYLIEK peptide
7OW5 2.58 Å, Crystal structure of a TCR in complex with HLA-A*11:01 bound to KRAS peptide (VVVGAGGVGK)
7PB2 3.41 Å, Crystal structure of JDI TCR in complex with HLA-A*11:01 bound to KRAS G12D peptide…

Browse structure collections

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