SMTL ID : 9faf.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

homo-trimer

Ligands

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

ANA.1: 10 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 8 PLIP interactions: 4 interactions with chain B, 4 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 Water bridges: B:G.349 Salt bridges: A:K.350 ANA.3: 9 residues within 4Å: Chain B: N.313, Y.315, V.320, Y.321, P.323, K.350 Chain C: N.313, F.325, G.349 8 PLIP interactions: 3 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: C:G.349, B:N.313 Salt bridges: B:K.350 ANA.5: 10 residues within 4Å: Chain A: V.311, N.313, F.325, G.349 Chain C: N.313, Y.315, V.320, Y.321, P.323, K.350 10 PLIP interactions: 5 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:Y.315, C:V.320, A:V.311, A:F.325 Hydrogen bonds: C:V.320, A:N.313 Water bridges: C:N.313, A:G.349, A:K.350 Salt bridges: C:K.350

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

PEG.2: 3 residues within 4Å: Chain A: K.194, D.254, S.255 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.194, A:D.254 Water bridges: A:A.198 PEG.6: 7 residues within 4Å: Chain A: G.211, S.212 Chain C: T.180, R.181, T.182, Y.264, R.265 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:T.180, C:T.182, A:S.212

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

PGE.4: 4 residues within 4Å: Chain B: K.194, D.254, S.255, N.256 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.194 Water bridges: B:A.198

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

EDO.7: 1 residues within 4Å: Chain C: I.229 1 PLIP interactions: 1 interactions with chain C Water bridges: C:I.229

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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