SMTL ID : 8tmu.1

HLA-B*73:01 bound to a 10mer peptide in complex with KIR2DL2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: P.48, A.50, P.51, E.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.48, A:R.49 GOL.3: 6 residues within 4Å: Chain A: R.146, E.149, A.150 Chain D: R.131, S.132, S.133 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:R.146, D:S.133, D:S.133 GOL.4: 6 residues within 4Å: Chain A: E.178, T.179, R.182, D.184, Y.210, G.240 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.178, A:T.179, A:R.182, A:G.240 GOL.5: 8 residues within 4Å: Chain A: W.205, L.207, R.235, Q.243 Chain B: S.13, P.16, R.99, M.101 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.235, A:Q.243, B:S.13, B:S.13

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 3 residues within 4Å: Chain A: G.2, H.4, Q.181 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.2, A:Q.181

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.6: 4 residues within 4Å: Chain A: R.152 Chain D: Y.105, E.106, N.190 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:R.152, D:N.190 NAG.7: 2 residues within 4Å: Chain D: E.54, N.63 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:E.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ross, P. et al., Molecular characterization of the archaic HLA-B∗73:01 allele reveals presentation of a unique peptidome and skewed engagement by KIR2DL2. J.Biol.Chem. (2025)

Release Date

2024-12-18

Peptides

HLA-B*73:01: A
Beta-2-microglobulin: B
KP1: C
Killer cell immunoglobulin-like receptor 2DL2: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
C

HLA-B*73:01

Beta-2-microglobulin

KP1

Killer cell immunoglobulin-like receptor 2DL2

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