8FJB: HLA-A2 MAGEA4

CryoEM structure of HLA-A2 MAGEA4 (286-294) in complex with H2aM31345N Fab. Determined by electron microscopy at 3.06 Å resolution. Released 20 Dec 2023.

Method: Electron microscopy
Resolution: 3.06 Å
Organism: Homo sapiens
Chains: 5
Atoms: 6,330
Mol. weight: 92.31 kDa
Released: 20 Dec 2023

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

Secondary structure: helices and β-sheets

8FJB contains 23 α-helices and 73 β-strands across 4 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, 20 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	57-84	28
β-strand	94-103	10	1
β-strand	109-118	10	1
β-strand	121-126	6	1
β-strand	133-134	2	1
α-helix	138-150	13
α-helix	153-159	7
α-helix	160-164	5
α-helix	165-174	10
α-helix	176-179	4
β-strand	183	1	2
β-strand	186	1	3
β-strand	189-194	6	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-219	6	4
β-strand	222-223	2	4
β-strand	229-230	2	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	270-273	4	4

Chain B: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	5
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
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 D: 7 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	14
β-strand	10-13	4	15
β-strand	19-29	11	14
β-strand	33-38	6	15
β-strand	45-49	5	15
β-strand	53-54	2	15
α-helix	55	1
β-strand	62-75	14	14
β-strand	85-90	6	15
α-helix	96-97	2
β-strand	99	1	15
β-strand	103-107	5	15
β-strand	112	1	16
α-helix	113-114	2
β-strand	115-119	5	17
α-helix	120-122	3
α-helix	123-127	5
β-strand	130-140	11	17
β-strand	141	1	16
β-strand	145-151	7	18
β-strand	154-155	2	18
β-strand	160-164	5	17
α-helix	166-168	3
β-strand	174-183	10	17
α-helix	184-189	6
β-strand	192-199	8	18
β-strand	206-211	6	18

Chain E: 7 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	8
β-strand	11-12	2	9
β-strand	17-25	9	8
α-helix	29-31	3
β-strand	34-39	6	10
β-strand	45-51	7	10
β-strand	58-60	3	10
β-strand	68-73	6	8
β-strand	78-84	7	8
α-helix	88-90	3
β-strand	92-98	7	10
α-helix	99-100	2
β-strand	107-108	2	10
β-strand	112-114	3	10
β-strand	115-116	2	9
β-strand	122	1	11
β-strand	125-129	5	12
β-strand	142-150	9	12
β-strand	151	1	11
β-strand	156-159	4	13
α-helix	160-162	3
β-strand	168-170	3	12
α-helix	171-173	3
β-strand	174-175	2	12
β-strand	181-188	8	12
α-helix	191-196	6
β-strand	200-205	6	13
α-helix	206-208	3
β-strand	210-215	6	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	277	Homo sapiens	Q861F7 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Melanoma-associated antigen 4 peptide	C	protein	9	Homo sapiens	P43361 (AlphaFold model)
H2aM31345N Fab heavy chain	E	protein	223	Homo sapiens
H2aM31345N Fab light chain	D	protein	215	Homo sapiens

Sequence of entity 1 (A), FASTA

>8FJB_1 MHC class I antigen (chains A)
MGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEY
WDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYD
GKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETL
QRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDG
TFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>8FJB_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>8FJB_3 Melanoma-associated antigen 4 peptide (chains C)
KVLEHVVRV

Sequence of entity 4 (E), FASTA

>8FJB_4 H2aM31345N Fab heavy chain (chains E)
QVQLVESGGGLVKPGGSLRLSCAASGFTFSEYYMTWIRQAPGQGLEWVSYISSSGFNIYY
ADSVKGRFTISRDNAKNSLFLQMNSLRVEDTAVYYCAREGVTDGMDVWGQGTTVTVSSAS
TKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGL
YSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVESKYGPP

Sequence of entity 5 (D), FASTA

>8FJB_5 H2aM31345N Fab light chain (chains D)
DIQMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPS
RFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPPITFGQGTRLEIKRTVAAPSVFIFP
PSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTL
TLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Primary citation

CAR T cells based on fully human T cell receptor-mimetic antibodies exhibit potent antitumor activity in vivo. Salzler, R., DiLillo, D.J., Saotome, K. et al. Sci Transl Med (2025) 17:eado9371-eado9371. DOI 10.1126/scitranslmed.ado9371 · PubMed

Other PDB entries of the same protein (UniProt Q861F7 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7KGQ 1.34 Å, Crystal Structure of HLA-A*0201in complex with SARS-CoV-2 N222-230
7KGP 1.4 Å, Crystal Structure of HLA-A*0201 in complex with SARS-CoV-2 N316-324
7KGR 1.55 Å, Crystal Structure of HLA-A*0201in complex with SARS-CoV-2 N159-167
7KGS 1.58 Å, Crystal Structure of HLA-A*0201 in complex with SARS-CoV-2 N138-146
7T5M 1.67 Å, Structure of HLA-A*02:01-FLPTPEELGLLGPPRPQVLA complex
7PDW 1.82 Å, Crystal structure of parent TCR (728) complexed to HLA-A*02:01 presenting MAGE-A10 9-mer…
7KGT 1.9 Å, Crystal Structure of HLA-A*0201 in complex with SARS-CoV-2 N226-234
7SIS 1.9 Å, SARS-CoV-2 Spike-derived peptide S976-984 (VLNDILSRL) presented by HLA-A*02:01
7PBC 2.04 Å, Crystal structure of engineered TCR (796) complexed to HLA-A*02:01 presenting MAGE-A10…
7KGO 2.15 Å, Crystal Structure of HLA-A*0201in complex with SARS-CoV-2 N351-359
8ES8 2.65 Å, CryoEM structure of PN45545 TCR-CD3 in complex with HLA-A2 MAGEA4 (230-239)
8FJA 3.0 Å, CryoEM structure of HLA-A2 MAGEA4 (230-239) in complex with REGN6972 Fab

Browse structure collections

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