SMTL ID : 9fag.1

Human adenovirus type 36 fiber knob in complex with 4,9-O,5-N-triacetylneuraminic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

3 x SIO: methyl 4,9-di-O-acetyl-5-acetamido-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranosidonic acid(Non-covalent)

SIO.1: 11 residues within 4Å: Chain A: N.313, Y.315, V.320, Y.321, P.323, K.350 Chain B: V.311, N.313, F.325, G.349 Ligands: SIO.4 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:V.311, B:F.325, A:Y.315, A:V.320 Hydrogen bonds: B:N.313, A:V.320, A:V.320 Salt bridges: A:K.350 SIO.4: 11 residues within 4Å: Chain B: N.313, Y.315, V.320, Y.321, P.323, K.350 Chain C: N.313, F.325, W.348, G.349 Ligands: SIO.1 7 PLIP interactions: 2 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:F.325, B:Y.315, B:V.320 Hydrogen bonds: C:N.313, B:V.320 Water bridges: B:N.313 Salt bridges: B:K.350 SIO.6: 12 residues within 4Å: Chain A: K.237, V.311, N.313, F.325, W.348, G.349 Chain C: N.313, Y.315, V.320, Y.321, P.323, K.350 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:K.237, A:V.311, A:F.325, C:Y.315, C:V.320 Hydrogen bonds: A:N.313, C:V.320 Water bridges: A:K.350 Salt bridges: C:K.350

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

PGE.2: 4 residues within 4Å: Chain A: K.194, S.253, D.254, S.255 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.194 Water bridges: A:K.194, A:A.198 PGE.5: 3 residues within 4Å: Chain B: K.194, D.254, S.255 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.194 Water bridges: B:A.198

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

EDO.3: 6 residues within 4Å: Chain A: T.180, R.181, T.182, R.265 Chain B: G.211, S.212 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.180, A:T.182, A:T.182, A:R.265, B:S.212 EDO.7: 4 residues within 4Å: Chain C: K.194, S.253, D.254, S.255 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.194, C:S.255

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liaci, A.M. et al., Extended receptor repertoire of an adenovirus associated with human obesity. Plos Pathog. (2025)

Release Date

2025-01-22

Peptides

Fiber: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Fiber

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