9GV6: TCR

Structure of TCR in complex with peptide-HLA. Determined by X-ray diffraction at 2.77 Å resolution. Released 23 Apr 2025.

Method: X-ray diffraction
Resolution: 2.77 Å
Organism: Homo sapiens
Chains: 10
Atoms: 13,165
Mol. weight: 189.53 kDa
Released: 23 Apr 2025

Explore 9GV6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9GV6 contains 42 α-helices and 144 β-strands across 8 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	3-14	12	1
β-strand	18-28	11	1
β-strand	31-37	7	1
β-strand	46-47	2	1
α-helix	50-54	5
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	139-149	11
α-helix	152-158	7
α-helix	159-163	5
α-helix	164-174	11
α-helix	176-179	4
β-strand	183	1	2
α-helix	184-185	2
β-strand	186-192	7	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-219	6	4
β-strand	222-224	3	4
β-strand	228-230	3	3
α-helix	231-233	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	270-272	3	4

Chain B: 1 helix, 12 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	5
α-helix	4-5	2
β-strand	6-8	3	6
β-strand	11	1	6
β-strand	21-30	10	6
β-strand	31	1	5
β-strand	36-41	6	7
β-strand	45	1	7
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: 3 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	6	1	8
β-strand	10-14	5	9
β-strand	19-24	6	8
β-strand	33-39	7	9
β-strand	45-51	7	9
β-strand	56-57	2	8
β-strand	62-64	3	8
β-strand	71-76	6	8
α-helix	81-83	3
β-strand	85-92	8	9
β-strand	94	1	10
β-strand	104-109	6	9
β-strand	118-123	6	11
β-strand	124	1	12
β-strand	131-138	8	11
β-strand	153-154	2	11
α-helix	155-157	3
β-strand	158-161	4	11
α-helix	163-165	3
β-strand	168-175	8	11

Chain E: 7 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	6-8	3	13
β-strand	11-15	5	14
β-strand	20-25	6	13
β-strand	32-38	7	14
β-strand	45-51	7	14
β-strand	54-57	4	14
β-strand	66-67	2	13
β-strand	76-80	5	13
α-helix	85-87	3
β-strand	89-96	8	14
β-strand	103	1	10
α-helix	104-106	3
β-strand	107-108	2	14
β-strand	112-117	6	14
α-helix	120-122	3
β-strand	124	1	15
β-strand	127-131	5	12
α-helix	132-134	3
α-helix	135-141	7
β-strand	143-153	11	12
β-strand	154	1	15
β-strand	158-164	7	16
β-strand	167-169	3	16
β-strand	173-175	3	12
β-strand	180-181	2	12
β-strand	191-200	10	12
α-helix	201-205	5
β-strand	210-217	8	16
β-strand	220	1	17
α-helix	231-232	2
β-strand	234	1	17
β-strand	236-243	8	16

Chain G: 10 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	18
β-strand	21-28	8	18
β-strand	31-37	7	18
β-strand	46-47	2	18
α-helix	50-54	5
α-helix	57-84	28
β-strand	94-103	10	18
β-strand	109-118	10	18
β-strand	121-126	6	18
β-strand	133-135	3	18
α-helix	139-149	11
α-helix	152-158	7
α-helix	159-163	5
α-helix	164-174	11
α-helix	176-179	4
β-strand	183	1	19
α-helix	184-185	2
β-strand	186-192	7	20
β-strand	198-208	11	20
β-strand	209	1	19
β-strand	214-219	6	21
β-strand	222-224	3	21
β-strand	228-230	3	20
α-helix	231-233	3
β-strand	234-235	2	20
β-strand	241-250	10	20
α-helix	254-256	3
β-strand	257-262	6	21
β-strand	270-272	3	21

Chain H: 1 helix, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	22
β-strand	6-11	6	23
β-strand	21-30	10	23
β-strand	31	1	22
β-strand	36-41	6	24
β-strand	45	1	24
β-strand	50-51	2	23
β-strand	55-56	2	23
β-strand	62-70	9	23
β-strand	78-83	6	24
α-helix	90	1
β-strand	91-92	2	24

Chain J: 3 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	6	1	25
β-strand	10-14	5	26
β-strand	19-24	6	25
β-strand	33-39	7	26
β-strand	46-51	6	26
β-strand	56-57	2	25
β-strand	62-64	3	25
β-strand	71-76	6	25
α-helix	81-83	3
β-strand	86-92	7	26
α-helix	96-98	3
β-strand	104-109	6	26
β-strand	118-123	6	27
β-strand	131-136	6	27
α-helix	142-147	6
β-strand	153-154	2	27
β-strand	159-160	2	28
β-strand	171-175	5	27

Chain K: 7 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	6-8	3	29
β-strand	11-15	5	30
β-strand	17	1	31
β-strand	20-25	6	29
β-strand	32-39	8	30
β-strand	45-51	7	30
β-strand	54-57	4	30
β-strand	66-67	2	29
β-strand	76-80	5	29
β-strand	83	1	31
α-helix	85-87	3
β-strand	89-96	8	30
α-helix	104-106	3
β-strand	107-108	2	30
β-strand	112-117	6	30
α-helix	120-122	3
β-strand	124	1	32
α-helix	125-126	2
β-strand	127-131	5	28
α-helix	132-134	3
α-helix	135-141	7
β-strand	143-153	11	28
β-strand	154	1	32
β-strand	158-164	7	8
β-strand	167-169	3	8
β-strand	173-175	3	28
β-strand	180-181	2	28
β-strand	191-200	10	28
α-helix	201-205	5
β-strand	210-217	8	8
β-strand	220	1	33
β-strand	234	1	33
β-strand	236-243	8	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A, G	protein	276	Homo sapiens	A0A5B8RNS7 (AlphaFold model)
Beta-2-microglobulin	B, H	protein	100	Homo sapiens	P61769 (AlphaFold model)
Peptide	C, I	protein	9	Homo sapiens
TCR alpha	D, J	protein	196	Homo sapiens
TCR Beta	E, K	protein	247	Homo sapiens

Sequence of entity 1 (A, G), FASTA

>9GV6_1 MHC class I antigen (chains A, G)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B, H), FASTA

>9GV6_2 Beta-2-microglobulin (chains B, H)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C, I), FASTA

>9GV6_3 Peptide (chains C, I)
SLSNRLYYL

Sequence of entity 4 (D, J), FASTA

>9GV6_4 TCR alpha (chains D, J)
MLAKTTQPISMDSYEGQEVNITCSHNHIAANDFITWYQQFPSQGPRFFIQGYKTNVSNEV
ASLFIPADRKSSTLSLPRVSLSDTAVYYCLAWGGTDMLIFGTGTRLQVFPNIQNPDPAVY
QLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSD
FACANAFNNSIIPEDT

Sequence of entity 5 (E, K), FASTA

>9GV6_5 TCR Beta (chains E, K)
MEAGVAQSPRYKIIEKRQSVAFWCNPISGHGTLYWYQQILGQGPKLLIQFHNNGVVDDSQ
LPKDRFSAERLKGVDSTLKIQPAKLEDSAVYLCASSLDWVGDGERQYFGPGTRLLVLEDL
KNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPL
KEQPALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSA
EAWGRAD

Primary citation

Determining T-cell receptor binding orientation and Peptide-HLA interactions using cross-linking mass spectrometry. Powell, T., Karuppiah, V., Shaikh, S.A. et al. J Biol Chem (2025) 301:108445-108445. DOI 10.1016/j.jbc.2025.108445 · PubMed

Other PDB entries of the same protein (UniProt A0A5B8RNS7 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9GV7 1.86 Å, Structure of reverse docking TCR in complex with peptide-HLA
6TMO 2.1 Å, Structure determination of an enhanced affinity TCR, a24b17, in complex with HLA-A*02:01…
9DL1 2.3 Å, Crystal Structure of HLA-A*02:01/NY-ESO-1 (SLLMWITQV) and a target specific TRACeR-I
9SOK 2.5 Å, Structure of three-domain single chain TCR-581 in complex with Peptide-HLA
9SOL 2.93 Å, Structure of TCR-581 in complex with Peptide-HLA

Browse structure collections

About this viewer

MolViewer shows 9GV6 directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.