SMTL ID : 9fro.1

Crystal structure of Pent - p-sulfonatocalix[6]arene complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

homo-pentamer

Ligands

4 x NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose(Non-covalent)

NDG.1: 10 residues within 4Å: Chain A: F.4, D.32, N.35, W.36, L.37 Chain B: G.44, N.45, G.46, G.47, W.48 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.4, B:W.48 Hydrogen bonds: A:W.36, A:L.37, B:N.45, B:G.46, B:W.48 NDG.2: 11 residues within 4Å: Chain B: F.4, D.32, D.34, N.35, W.36, L.37 Chain E: G.44, N.45, G.46, G.47, W.48 8 PLIP interactions: 5 interactions with chain E, 3 interactions with chain B Hydrophobic interactions: E:W.48, B:F.4 Hydrogen bonds: E:N.45, E:G.46, E:G.46, E:W.48, B:W.36, B:L.37 NDG.4: 12 residues within 4Å: Chain C: G.44, N.45, G.46, G.47, W.48 Chain D: F.4, D.32, K.33, D.34, N.35, W.36, L.37 10 PLIP interactions: 5 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:F.4, D:L.37, C:W.48 Hydrogen bonds: D:K.33, D:W.36, D:L.37, C:N.45, C:G.46, C:G.46, C:W.48 NDG.8: 12 residues within 4Å: Chain D: G.44, N.45, G.46, G.47, W.48 Chain E: F.4, D.32, K.33, D.34, N.35, W.36, L.37 9 PLIP interactions: 4 interactions with chain E, 5 interactions with chain D Hydrophobic interactions: E:F.4, D:W.48 Hydrogen bonds: E:K.33, E:W.36, E:L.37, D:N.45, D:G.46, D:G.46, D:W.48

4 x FWQ: p-sulfonatocalix[6]arene(Non-covalent)

FWQ.3: 5 residues within 4Å: Chain C: H.19, Y.24, N.35, L.37, A.38 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.37, C:L.37, C:A.38 Hydrogen bonds: C:N.35 Salt bridges: C:H.19 FWQ.5: 6 residues within 4Å: Chain D: K.22, Y.24, N.35, L.37, A.38, L.42 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:K.22, D:A.38 Hydrogen bonds: D:N.35 Water bridges: D:N.45 FWQ.6: 6 residues within 4Å: Chain D: T.27, T.30, S.31, K.33, D.34, R.39 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:T.30 Hydrogen bonds: D:S.31 Water bridges: D:T.27, D:K.33, D:K.33, D:K.33, D:D.34, D:R.39, D:R.39 Salt bridges: D:K.33, D:K.33, D:R.39 pi-Cation interactions: D:K.33, D:R.39 FWQ.7: 8 residues within 4Å: Chain C: K.5 Chain D: M.1, S.2, F.4, K.5 Chain E: S.2, G.3, F.4 11 PLIP interactions: 3 interactions with chain E, 7 interactions with chain D, 1 interactions with chain C Hydrogen bonds: E:S.2, E:G.3, D:S.2 Water bridges: E:K.5, D:K.5 Hydrophobic interactions: D:M.1, D:K.5, D:K.5 Salt bridges: D:K.5, D:K.5, C:K.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Flood, R.J. et al., A Macrocycle-Mediated Protein Cage. ACS Macro Lett (2024)

Release Date

2024-12-04

Peptides

Beta propeller: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
D

E
C

Beta propeller

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