3HG1: MHC class I antigen

Germline-governed recognition of a cancer epitope by an immunodominant human T cell receptor. Determined by X-ray diffraction at 3.0 Å resolution. Released 28 Jul 2009.

Method: X-ray diffraction
Resolution: 3.0 Å
Organisms: Homo sapiens, HOMO SAPIENS
Chains: 5
Atoms: 6,649
Mol. weight: 93.83 kDa
Released: 28 Jul 2009

Explore 3HG1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3HG1 contains 17 α-helices and 75 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: 8 helices, 19 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	50-53	4
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	152-157	6
α-helix	158-163	6
α-helix	164-174	11
β-strand	186	1	2
β-strand	189-190	2	3
β-strand	193	1	3
β-strand	198-208	11	3
β-strand	214-218	5	4
β-strand	228-230	3	3
α-helix	231-233	3
β-strand	234-235	2	3
β-strand	241-250	10	3
β-strand	258-262	5	4
β-strand	270	1	4
β-strand	273	1	4

Chain B: 2 helices, 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
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
α-helix	95-96	2

Chain C: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	7	1	8

Chain D: 3 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	4-6	3	9
β-strand	8-14	7	10
β-strand	19-25	7	9
β-strand	33-38	6	10
α-helix	43-44	2
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	85-92	8	10
β-strand	97-99	3	10
β-strand	103-108	6	10
β-strand	117-122	6	11
β-strand	130-135	6	11
β-strand	151-153	3	11
α-helix	154-156	3
β-strand	159	1	12
β-strand	168	1	12
β-strand	170-175	6	11

Chain E: 4 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	13
β-strand	10-14	5	14
β-strand	19-25	7	13
β-strand	32-38	7	14
β-strand	45-50	6	14
β-strand	58	1	14
β-strand	64-70	7	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
β-strand	124-125	2	16
β-strand	128	1	16
β-strand	129	1	11
β-strand	140-150	11	16
β-strand	151	1	15
β-strand	155-161	7	17
β-strand	166	1	17
β-strand	170-172	3	16
β-strand	177-178	2	16
β-strand	188-197	10	16
α-helix	198-202	5
β-strand	208-214	7	17
β-strand	217	1	18
α-helix	228-229	2
β-strand	231	1	18
β-strand	233-239	7	17

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	276	Homo sapiens	Q8WLS4 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Cancer/mart-1	C	protein	10	Homo sapiens	Q16655 (AlphaFold model)
T-cell receptor, alpha chain	D	protein	194	HOMO SAPIENS	P01848 (AlphaFold model)
T-cell Receptor, Beta Chain	E	protein	244	HOMO SAPIENS	P01850

Sequence of entity 1 (A), FASTA

>3HG1_1 MHC class I antigen (chains A)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>3HG1_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>3HG1_3 CANCER/MART-1 (chains C)
ELAGIGILTV

Sequence of entity 4 (D), FASTA

>3HG1_4 T-CELL RECEPTOR, ALPHA CHAIN (chains D)
QEVEQNSGPLSVPEGAIASLNCTYSDRGSQSFFWYRQYSGKSPELIMFIYSNGDKEDGRF
TAQLNKASQYVSLLIRDSQPSDSATYLCAVNVAGKSTFGDGTTLTVKPNIQNPDPAVYQL
RDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFA
CANAFNNSIIPEDT

Sequence of entity 5 (E), FASTA

>3HG1_5 T-cell Receptor, Beta Chain (chains E)
SQTIHQWPATLVQPVGSPLSLECTVEGTSNPNLYWYRQAAGRGLQLLFYSVGIGQISSEV
PQNLSASRPQDRQFILSSKKLLLSDSGFYLCAWSETGLGTGELFFGEGSRLTVLEDLKNV
FPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQ
PALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAW
GRAD

Primary citation

Germ line-governed recognition of a cancer epitope by an immunodominant human T-cell receptor. Cole, D.K., Yuan, F., Rizkallah, P.J. et al. J Biol Chem (2009) 284:27281-27289. DOI 10.1074/jbc.M109.022509 · PubMed

Other PDB entries of the same protein (UniProt Q8WLS4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9X7U 1.59 Å, Complex of HLA-A2, a class I MHC, with a UTP20 peptide
9WK0 1.8 Å, Neoantigen Rac1P29S-HLA-A2
21GJ 1.83 Å, Neoantigen p53Y220D-HLA-A2
21EX 2.02 Å, Wild tipe p53WT-HLA-A2
9XME 2.04 Å, Complex of HLA-A2, a class I MHC, with a wild type UTP20 peptide
9J4U 2.17 Å, Structural basis for recognition of SARS-CoV-2 conserved nucleocapside epitopes by…
9PIX 2.35 Å, Mur14 Fab with HBV c18V pMHC
9PKC 2.5 Å, Mur35 Fab with HBV c18V pMHC
9PKF 2.6 Å, Mur35 Fab with HBV c18I pMHC
9PKV 2.72 Å, HU-38 Fab with PRAME pMHC
9LLU 2.87 Å, p53 epitope specific TCR 4414A binding to p53Y220D-HLA-A2
9C96 3.0 Å, Cryo-EM structure of TAP binding protein related (TAPBPR) in complex with HLA-A*02:01…

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