7MJA: HLA-A*24:02

HLA-A*24:02 bound to Neuroblastoma derived PHOX2B peptide. Determined by X-ray diffraction at 1.69 Å resolution. Released 18 Aug 2021.

Method: X-ray diffraction
Resolution: 1.69 Å
Organism: Homo sapiens
Chains: 3
Atoms: 3,503
Mol. weight: 45.58 kDa
Released: 18 Aug 2021

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

Secondary structure: helices and β-sheets

7MJA contains 14 α-helices and 30 β-strands across 3 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: 11 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	4-13	10	1
α-helix	21	1
β-strand	22-29	8	1
β-strand	32-38	7	1
β-strand	47-48	2	1
α-helix	51-53	3
α-helix	58-85	28
β-strand	95-104	10	1
β-strand	110-119	10	1
β-strand	122-127	6	1
β-strand	134-136	3	1
α-helix	139-150	12
α-helix	153-159	7
α-helix	160-164	5
α-helix	165-175	11
α-helix	177-180	4
β-strand	184	1	2
α-helix	185-186	2
β-strand	187-194	8	3
β-strand	199-209	11	3
β-strand	210	1	2
β-strand	215-220	6	4
β-strand	223-225	3	4
β-strand	229-231	3	3
α-helix	232-234	3
β-strand	235-236	2	3
β-strand	242-251	10	3
α-helix	255-257	3
β-strand	258-263	6	4
β-strand	271-273	3	4

Chain B: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	5
α-helix	5-6	2
β-strand	7-12	6	6
β-strand	22-31	10	6
β-strand	32	1	5
β-strand	37-42	6	7
β-strand	45-46	2	7
β-strand	51-52	2	6
α-helix	53-55	3
β-strand	56-57	2	6
β-strand	63-71	9	6
β-strand	79-84	6	7
β-strand	92-95	4	7

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-4	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
HLA class I histocompatibility antigen	A	protein	283	Homo sapiens	A0A5H2UYS3 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Paired mesoderm homeobox protein 2B peptide	C	protein	9	Homo sapiens	Q99453 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>7MJA_1 HLA class I histocompatibility antigen (chains A)
MASGSHSMRYFSTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGP
EYWDEETGKVKAHSQTDRENLRIALRYYNQSEAGSHTLQMMFGCDVGSDGRFLRGYHQYA
YDGKDYIALKEDLRSWTAADMAAQITKRKWEAAHVAEQQRAYLEGTCVDGLRRYLENGKE
TLQRTDPPKTHMTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAG
DGTFQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWEPSSQP

Sequence of entity 2 (B), FASTA

>7MJA_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>7MJA_3 Paired mesoderm homeobox protein 2B peptide (chains C)
QYNPIRTTF

Primary citation

Cross-HLA targeting of intracellular oncoproteins with peptide-centric CARs. Yarmarkovich, M., Marshall, Q.F., Warrington, J.M. et al. Nature (2021) 599:477-484. DOI 10.1038/s41586-021-04061-6 · PubMed

Other PDB entries of the same protein (UniProt A0A5H2UYS3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7JYV 1.51 Å, Crystal Structure of HLA A*2402 in complex with YFSPIRVTF, an 9-mer influenza epitope
7EJM 1.71 Å, Complex Structure of HLA-A*2402 with the Peptide from HCoV(CoV-229E) spike protein
8SBK 1.8 Å, Structure of HLA-A*24:02 in complex with peptide, LYLPVRVLI (ATG2A).
7WT3 1.89 Å, Crystal structure of HLA-A*2402 complexed with 4-mer lipopeptide
7EJL 1.89 Å, Complex Structure of HLA-A*2402 with the Peptide from HCoV(CoV-2) spike protein
7WT4 1.89 Å, Crystal structure of HLA-A*2402 complexed with 8-mer Influenza PB1 peptide
7K81 2.0 Å, KIR3DL1*005 in complex with HLA-A*24:02 presenting the RYPLTFGW peptide
7EJN 2.11 Å, Complex Structure of HLA-A*2402 with the Peptide from HCoV(CoV-HKU1) spike protein
6XQA 2.16 Å, Crystal Structure of HLA A*2402 in complex with TYQWVLKNL, an 9-mer epitope from…
7NME 2.2 Å, Human MHC Class I, A24 Allele presenting QLPRLFPLL, Complex with 4C6 TCR
7NMD 2.25 Å, Human Major Histocompatibility Complex A24 Allele presenting QLPRLFPLL
7K80 2.4 Å, KIR3DL1*001 in complex with HLA-A*24:02 presenting the RYPLTFGW peptide

Browse structure collections

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