7RE8: MHC class I antigen, A-2 alpha chain

Class I MHC (HLA-A*02) presenting alpha fetoprotein peptide (AFP). Determined by X-ray diffraction at 2.82 Å resolution. Released 27 Jul 2022.

Method: X-ray diffraction
Resolution: 2.82 Å
Organism: Homo sapiens
Chains: 6
Atoms: 6,558
Mol. weight: 92.58 kDa
Released: 27 Jul 2022

Explore 7RE8 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7RE8 contains 26 α-helices and 60 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: 10 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	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	187-193	7	3
β-strand	199-209	11	3
β-strand	210	1	2
β-strand	214-220	7	4
β-strand	223-224	2	4
α-helix	226-228	3
β-strand	229-231	3	3
β-strand	235-236	2	3
β-strand	242-251	10	3
α-helix	255-257	3
β-strand	258-264	7	4
β-strand	271-274	4	4

Chain B: 3 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
α-helix	47	1
β-strand	51-52	2	6
β-strand	56-57	2	6
β-strand	63-71	9	6
β-strand	79-84	6	7
α-helix	91	1
β-strand	92-95	4	7

Chain D: 11 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	4-13	10	8
α-helix	21	1
β-strand	22-29	8	8
β-strand	32-38	7	8
β-strand	47-48	2	8
α-helix	58-85	28
β-strand	95-104	10	8
β-strand	110-119	10	8
β-strand	122-127	6	8
β-strand	134-136	3	8
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	9
α-helix	185-186	2
β-strand	187-193	7	10
β-strand	199-209	11	10
β-strand	210	1	9
β-strand	214-220	7	11
β-strand	223-224	2	11
α-helix	226-228	3
β-strand	229-231	3	10
α-helix	232-234	3
β-strand	235-236	2	10
β-strand	242-251	10	10
α-helix	255-257	3
β-strand	258-264	7	11
β-strand	271-274	4	11

Chain E: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	12
α-helix	5-6	2
β-strand	7-12	6	13
β-strand	22-31	10	13
β-strand	32	1	12
β-strand	36-42	7	14
β-strand	45-46	2	14
α-helix	47	1
β-strand	51-52	2	13
β-strand	56-57	2	13
β-strand	63-71	9	13
β-strand	79-85	7	14
β-strand	92-95	4	14

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen, A-2 alpha chain	A, D	protein	276	Homo sapiens	A0A140T913 (AlphaFold model)
Beta-2-microglobulin	B, E	protein	100	Homo sapiens	P61769 (AlphaFold model)
Phe-met-asn-lys-phe-ile-tyr-glu-ile	C, F	protein	9	Homo sapiens	P02771 (AlphaFold model)

Sequence of entity 1 (A, D), FASTA

>7RE8_1 MHC class I antigen, A-2 alpha chain (chains A, D)
MGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEY
WDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYD
GKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETL
QRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDG
TFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWE

Sequence of entity 2 (B, E), FASTA

>7RE8_2 Beta-2-microglobulin (chains B, E)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, F), FASTA

>7RE8_3 PHE-MET-ASN-LYS-PHE-ILE-TYR-GLU-ILE (chains C, F)
FMNKFIYEI

Primary citation

Validation and promise of a TCR mimic antibody for cancer immunotherapy of hepatocellular carcinoma. Liu, C., Liu, H., Dasgupta, M. et al. Sci Rep (2022) 12:12068-12068. DOI 10.1038/s41598-022-15946-5 · 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

Browse structure collections

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