9GV7: Reverse docking TCR

Structure of reverse docking TCR in complex with peptide-HLA. Determined by X-ray diffraction at 1.86 Å resolution. Released 23 Apr 2025.

Method: X-ray diffraction
Resolution: 1.86 Å
Organism: Homo sapiens
Chains: 5
Atoms: 7,022
Mol. weight: 94.72 kDa
Released: 23 Apr 2025

Explore 9GV7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9GV7 contains 28 α-helices and 73 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: 10 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	50-52	3
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	152-158	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	186-193	8	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	228-230	3	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: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	5
α-helix	4-5	2
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
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

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	6-8	3

Chain D: 5 helices, 17 β-strands

Element	Residues	Length	Sheet
β-strand	3-5	3	8
β-strand	10-13	4	9
α-helix	17	1
β-strand	18-24	7	8
β-strand	32-37	6	9
β-strand	44-49	6	9
β-strand	53-57	5	8
β-strand	60-65	6	8
β-strand	70-75	6	8
α-helix	80-82	3
β-strand	84-91	8	9
β-strand	100-102	3	9
β-strand	106-111	6	9
β-strand	120-125	6	10
β-strand	126	1	11
β-strand	133-138	6	10
α-helix	146-149	4
β-strand	154-156	3	10
α-helix	157-159	3
β-strand	160-164	5	10
α-helix	165-167	3
β-strand	169-178	10	10

Chain E: 9 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	12
β-strand	10-14	5	13
β-strand	19-25	7	12
β-strand	31-38	8	13
β-strand	42-50	9	13
β-strand	56-57	2	13
β-strand	65-70	6	12
β-strand	73-78	6	12
α-helix	83-85	3
β-strand	87-94	8	13
β-strand	96	1	14
β-strand	99	1	14
α-helix	101-102	2
β-strand	103-104	2	13
α-helix	105	1
β-strand	108-113	6	13
α-helix	116-118	3
β-strand	120	1	15
α-helix	121-122	2
β-strand	123-127	5	11
α-helix	128-130	3
α-helix	131-137	7
β-strand	139-149	11	11
β-strand	150	1	15
β-strand	154-160	7	16
β-strand	163-164	2	16
β-strand	169-171	3	11
α-helix	175	1
β-strand	176-177	2	11
β-strand	187-196	10	11
α-helix	197-200	4
β-strand	206-213	8	16
β-strand	216	1	17
β-strand	230	1	17
β-strand	232-239	8	16

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MHC class I antigen	A	protein	276	Homo sapiens	A0A5B8RNS7 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
Peptide	C	protein	11	Homo sapiens
TCR Alpha	D	protein	200	Homo sapiens
TCR Beta	E	protein	244	Homo sapiens

Sequence of entity 1 (A), FASTA

>9GV7_1 MHC class I antigen (chains A)
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYW
DGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDG
KDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQ
RTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>9GV7_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>9GV7_3 Peptide (chains C)
SLAGGLDDMKA

Sequence of entity 4 (D), FASTA

>9GV7_4 TCR Alpha (chains D)
MAKEVEQNSGPLSVPEGAIASLNCTYSDRGSQSFFWYRQYSGKSPELIMSIYETSIKEDG
RFTAQLNKASQYVSLLIRDSQPSDSATYLCAVGERVGGYNKLIFGAGTRLTVKPNIQNPD
PAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWS
NKSDFACANAFNNSIIPEDT

Sequence of entity 5 (E), FASTA

>9GV7_5 TCR Beta (chains E)
MNAGVTQTPKFRVLKTGQSMTLQCAQDMNHNSMYWYRQDPGMGLRLIHYSRWGWETAKGE
VPDGYNVSRLKKQNFLLGLESAAPSQTSVYFCASSYGSGYNAQTFGPGTRLTVLEDLKNV
FPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQ
PALNDSRYALSSRLRVSATFWQDPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAW
GRAD

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:

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
9GV6 2.77 Å, Structure of TCR in complex with peptide-HLA
9SOL 2.93 Å, Structure of TCR-581 in complex with Peptide-HLA

Browse structure collections

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