7Q9A: MHC Class I A02 Allele presenting LLLGIGILVL

MHC Class I A02 Allele presenting LLLGIGILVL, in complex with Mel5 TCR. Determined by X-ray diffraction at 2.1 Å resolution. Released 22 Feb 2023.

Method: X-ray diffraction
Resolution: 2.1 Å
Organism: Homo sapiens
Chains: 5
Atoms: 6,911
Mol. weight: 94.43 kDa
Released: 22 Feb 2023

Explore 7Q9A in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7Q9A contains 26 α-helices and 72 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: 9 helices, 17 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	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	159-163	5
α-helix	164-174	11
α-helix	176-179	4
β-strand	183	1	2
β-strand	186-190	5	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-218	5	4
β-strand	234-235	2	3
β-strand	241-250	10	3
α-helix	254-256	3
β-strand	258-262	5	4
β-strand	272	1	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: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	7	1	8

Chain D: 6 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	9
α-helix	10	1
β-strand	11-14	4	10
α-helix	18	1
β-strand	19-25	7	9
β-strand	32-38	7	10
β-strand	45-50	6	10
β-strand	54-58	5	9
β-strand	61-66	6	9
β-strand	71-76	6	9
α-helix	81-83	3
β-strand	85-93	9	10
β-strand	96-99	4	10
α-helix	100	1
β-strand	103-108	6	10
β-strand	117-122	6	11
β-strand	123	1	12
β-strand	130-135	6	11
α-helix	144-146	3
β-strand	151-153	3	11
α-helix	154-156	3
β-strand	157-161	5	11
β-strand	166-175	10	11
β-strand	196	1	11

Chain E: 8 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	13
β-strand	10-14	5	14
β-strand	19-26	8	13
β-strand	32-38	7	14
β-strand	45-52	8	14
β-strand	55-58	4	14
β-strand	65-70	6	13
β-strand	73-78	6	13
α-helix	83-85	3
β-strand	87-94	8	14
β-strand	98	1	8
β-strand	104-105	2	14
β-strand	109-114	6	14
α-helix	117-119	3
β-strand	121	1	15
α-helix	122-123	2
β-strand	124-128	5	12
α-helix	129-131	3
α-helix	132-138	7
β-strand	140-150	11	12
β-strand	151	1	15
β-strand	155-161	7	16
β-strand	164-166	3	16
β-strand	170-172	3	12
α-helix	176	1
β-strand	177-178	2	12
β-strand	188-197	10	12
α-helix	198-202	5
β-strand	207-214	8	16
β-strand	217	1	17
α-helix	228-229	2
β-strand	231	1	17
β-strand	233-240	8	16

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	276	Homo sapiens	A0A140T913 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Leu-leu-leu-gly-ile-gly-ile-leu-val-leu	C	protein	10	Homo sapiens	Q10589 (AlphaFold model)
Human Mel5 T Cell Receptor, Alpha Chain	D	protein	199	Homo sapiens
Human Mel5 T Cell Receptor, Beta Chain	E	protein	244	Homo sapiens

Sequence of entity 1 (A), FASTA

>7Q9A_1 MHC class I antigen (chains A)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>7Q9A_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>7Q9A_3 LEU-LEU-LEU-GLY-ILE-GLY-ILE-LEU-VAL-LEU (chains C)
LLLGIGILVL

Sequence of entity 4 (D), FASTA

>7Q9A_4 Human Mel5 T Cell Receptor, Alpha Chain (chains D)
QEVEQNSGPLSVPEGAIASLNCTYSDRGSQSFFWYRQYSGKSPELIMFIYSNGDKEDGRF
TAQLNKASQYVSLLIRDSQPSDSATYLCAVNVAGKSTFGDGTTLTVKPNIQNPDPAVYQL
RDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFA
CANAFNNSIIPEDTFFPSP

Sequence of entity 5 (E), FASTA

>7Q9A_5 Human Mel5 T Cell Receptor, Beta Chain (chains E)
SQTIHQWPATLVQPVGSPLSLECTVEGTSNPNLYWYRQAAGRGLQLLFYSVGIGQISSEV
PQNLSASRPQDRQFILSSKKLLLSDSGFYLCAWSETGLGTGELFFGEGSRLTVLEDLKNV
FPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQ
PALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAW
GRAD

Primary citation

Targeting of multiple tumor-associated antigens by individual T cell receptors during successful cancer immunotherapy. Dolton, G., Rius, C., Wall, A. et al. Cell (2023) 186:3333-3349.e27. DOI 10.1016/j.cell.2023.06.020 · PubMed

Other PDB entries of the same protein (UniProt A0A140T913 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6O53 1.4 Å, Structure of HLA-A2:01 with peptide MM96
6O4Z 1.5 Å, Structure of HLA-A2:01 with peptide MM92
7QPJ 1.54 Å, Crystal structure of engineered TCR (756) complexed to HLA-A*02:01 presenting MAGE-A10…
6O51 1.55 Å, Structure of HLA-A2:01 with peptide MM90
6O4Y 1.58 Å, Structure of HLA-A2:01 with peptide MM91
7MJ7 1.6 Å, HLA-A*02:01 bound to Neuroblastoma Derived IGFBPL1 peptide
7P3D 1.67 Å, MHC I A02 Allele presenting YLQPRTFLL
7MJ9 1.75 Å, HLA-A*02:01 bound to Neuroblastoma Derived mutant IGFBPL1 peptide
7MJ8 1.79 Å, HLA-A*02:01 bound to Neuroblastoma Derived IGFBPL1 peptide
7SA2 1.85 Å, SARS-CoV-2 spike-derived peptide S1060-1068 (VVFLHVTYV) presented by HLA-A*02:01
2P5E 1.89 Å, Crystal Structures of High Affinity Human T-Cell Receptors Bound to pMHC Reveal Native…
7MKB 1.9 Å, Human leukocyte antigen A*0201 in complex with SARS-CoV-2 epitope YLQPRTFLL

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