SMTL ID : 8jye.1

Crystal Structure of Intracellular B30.2 Domain of BTN3A1 and BTN2A1 in Complex with HMBPP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

hetero-2-2-mer

Ligands

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

PEG.1: 7 residues within 4Å: Chain A: C.139, R.140, M.157, R.158 Chain B: R.140, M.157, R.158 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.140, A:R.140, B:R.140 Water bridges: A:C.139, A:R.140 PEG.2: 4 residues within 4Å: Chain A: R.95, S.97, S.172, V.173 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.95, A:S.97, A:S.97, A:S.172 PEG.4: 5 residues within 4Å: Chain B: P.25, D.26, E.36, R.38, R.59 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.26, B:D.26, B:E.36, B:R.38, B:R.59 PEG.5: 8 residues within 4Å: Chain B: R.43, S.62, Q.63, P.64, E.103, R.180, G.182 Ligands: EDO.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.103, B:R.180, B:R.180, B:G.182

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: F.33, S.35, S.40, R.42, P.187 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.40, A:R.42 EDO.6: 6 residues within 4Å: Chain B: H.29, D.31, R.43, S.62, P.64 Ligands: PEG.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.29, B:R.43 EDO.7: 1 residues within 4Å: Chain B: F.15 No protein-ligand interaction detected (PLIP) EDO.8: 2 residues within 4Å: Chain C: F.12, Y.149 No protein-ligand interaction detected (PLIP)

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.9: 6 residues within 4Å: Chain B: Q.109, A.170 Chain C: T.100, E.102, N.103, E.121 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.103, C:E.121, C:E.121

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.10: 3 residues within 4Å: Chain C: P.101, E.102, D.162 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:P.101, C:D.162 Water bridges: C:G.104

2 x H6P: (2E)-4-hydroxy-3-methylbut-2-en-1-yl trihydrogen diphosphate(Non-covalent)

H6P.11: 13 residues within 4Å: Chain A: G.199, V.200, T.201, V.202 Chain B: R.168 Chain C: W.55, H.56, Y.57, W.96, R.117, R.123, R.174, L.176 14 PLIP interactions: 11 interactions with chain C, 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: C:W.55, C:W.55, C:L.176 Hydrogen bonds: C:Y.57, C:R.174, A:V.202 Water bridges: C:R.117, C:R.123, C:R.123, A:V.202 Salt bridges: C:R.117, C:R.123, C:R.174, B:R.168 H6P.12: 14 residues within 4Å: Chain A: R.168 Chain B: G.199, V.200, T.201, V.202 Chain D: W.55, H.56, Y.57, W.96, R.117, L.119, R.123, R.174, L.176 15 PLIP interactions: 12 interactions with chain D, 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: D:W.55, D:W.55, D:L.176, D:L.176 Hydrogen bonds: D:H.56, D:Y.57, D:R.174, B:V.202, B:V.202 Water bridges: D:R.123, D:R.123 Salt bridges: D:R.117, D:R.123, D:R.174, A:R.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yuan, L. et al., Phosphoantigens glue butyrophilin 3A1 and 2A1 to activate V gamma 9V delta 2 T cells. Nature (2023)

Release Date

2023-09-13

Peptides

Butyrophilin subfamily 2 member A1: AB
Butyrophilin subfamily 3 member A1: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Butyrophilin subfamily 2 member A1

Butyrophilin subfamily 3 member A1

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