8FJA: HLA-A2 MAGEA4

CryoEM structure of HLA-A2 MAGEA4 (230-239) in complex with REGN6972 Fab. Determined by electron microscopy at 3.0 Å resolution. Released 20 Dec 2023.

Method: Electron microscopy
Resolution: 3.0 Å
Organism: Homo sapiens
Chains: 5
Atoms: 6,419
Mol. weight: 93.79 kDa
Released: 20 Dec 2023

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

Secondary structure: helices and β-sheets

8FJA contains 21 α-helices and 77 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: 9 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	4-12	9	16
β-strand	21-28	8	16
β-strand	31-37	7	16
β-strand	46-47	2	16
α-helix	50-52	3
α-helix	57-84	28
β-strand	94-103	10	16
β-strand	109-118	10	16
β-strand	121-126	6	16
β-strand	133-135	3	16
α-helix	139-148	10
α-helix	152-158	7
α-helix	159-164	6
α-helix	165-174	10
α-helix	176-179	4
β-strand	183	1	17
α-helix	184-185	2
β-strand	186-193	8	18
β-strand	198-208	11	18
β-strand	209	1	17
β-strand	214-219	6	19
β-strand	222-223	2	19
β-strand	229-230	2	18
β-strand	234-235	2	18
β-strand	241-250	10	18
α-helix	253-256	4
β-strand	257-262	6	19
β-strand	270-272	3	19

Chain B: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	20
β-strand	6-11	6	21
α-helix	14-15	2
β-strand	21-30	10	21
β-strand	31	1	20
β-strand	36-41	6	22
β-strand	44-45	2	22
β-strand	50-51	2	21
β-strand	55-56	2	21
β-strand	62-70	9	21
β-strand	78-83	6	22
β-strand	91-94	4	22

Chain D: 7 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	1
β-strand	10-13	4	2
β-strand	19-25	7	1
β-strand	33-38	6	2
β-strand	45-49	5	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-67	6	1
β-strand	70-75	6	1
β-strand	85-90	6	2
β-strand	97-98	2	2
β-strand	103-106	4	2
α-helix	112-113	2
β-strand	114-115	2	3
α-helix	119	1
β-strand	120	1	4
α-helix	121	1
α-helix	122-124	3
β-strand	129	1	5
β-strand	135	1	6
β-strand	136-137	2	3
β-strand	145-149	5	7
β-strand	154	1	7
β-strand	159-160	2	8
β-strand	163-164	2	9
α-helix	165-166	2
β-strand	174-175	2	9
β-strand	176	1	6
β-strand	178-179	2	8
β-strand	182	1	5
α-helix	183-185	3
β-strand	193-197	5	7

Chain E: 4 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	10
β-strand	11-12	2	11
β-strand	18-25	8	10
α-helix	29-31	3
β-strand	34-39	6	12
β-strand	46-51	6	12
β-strand	58-60	3	12
β-strand	68-73	6	10
β-strand	78-83	6	10
α-helix	88-90	3
β-strand	92-98	7	12
β-strand	110-111	2	12
β-strand	115-117	3	12
β-strand	118-119	2	11
β-strand	125	1	13
β-strand	128-131	4	14
β-strand	132	1	4
β-strand	144-153	10	14
β-strand	154	1	13
β-strand	161-162	2	15
α-helix	163-165	3
β-strand	172-178	7	14
β-strand	184-192	9	14
α-helix	194-196	3
β-strand	203-205	3	15
β-strand	216-218	3	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
REGN6972 Fab light chain	D	protein	214	Homo sapiens
REGN6972 Fab heavy chain	E	protein	236	Homo sapiens
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	10	Homo sapiens	P43358 (AlphaFold model)

Sequence of entity 1 (D), FASTA

>8FJA_1 REGN6972 Fab light chain (chains D)
DIQMTQSPSSLSASVGDRVTITCQASQDISNYLNWYQQKRGKAPKLLIYDASILETGVPS
RFSGSGSGTDFTFTISSLQPEDIATYFCQQFDNVPLTFGGGTKVEIKRTVAAPSVFIFPP
SDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLT
LSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Sequence of entity 2 (E), FASTA

>8FJA_2 REGN6972 Fab heavy chain (chains E)
EVQLVESGGGLVQPGRSLRLSCAASGFTFDDYAMHWVRQAPGKGLEWVSGISWNSGSIAY
ADSVKGRFTISRDNAKNSLYLQMNSLRSEDTALYHCAKDWRRTNYYGMDVWGQGTTVTVS
SASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQS
SGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVESKYGPPCPPCPAPPVA

Sequence of entity 3 (A), FASTA

>8FJA_3 MHC class I antigen (chains A)
MGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEY
WDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYD
GKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETL
QRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDG
TFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 4 (B), FASTA

>8FJA_4 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 5 (C), FASTA

>8FJA_5 Melanoma-associated antigen 4 peptide (chains C)
GVYDGREHTV

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)
8FJB 3.06 Å, CryoEM structure of HLA-A2 MAGEA4 (286-294) in complex with H2aM31345N Fab

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