SMTL ID : 2wgt.1

Structure of human adenovirus serotype 37 fibre head in complex with a sialic acid derivative, O-Methyl 5-N-propaonyl-3,5-dideoxy-D- glycero-a-D-galacto-2-nonulopyranosylonic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

3 x 18D: 3,5-dideoxy-5-(propanoylamino)-D-glycero-alpha-D-galacto-non-2-ulopyranosonic acid(Non-covalent)

18D.1: 9 residues within 4Å: Chain A: Y.141, P.146, D.147, P.149, K.174 Chain B: Y.137, G.138, T.139, V.151 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.141, B:Y.137, B:V.151, B:V.151 Hydrogen bonds: A:P.146 Water bridges: A:K.174, A:K.174 Salt bridges: A:K.174 18D.3: 7 residues within 4Å: Chain B: Y.141, P.146, D.147, P.149, K.174 Chain C: T.139, V.151 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:Y.141, C:V.151 Hydrogen bonds: B:P.146 Water bridges: B:K.174, B:K.174 Salt bridges: B:K.174 18D.6: 9 residues within 4Å: Chain A: Y.137, T.139, V.151, S.173 Chain C: Y.141, P.146, D.147, P.149, K.174 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:Y.141, A:Y.137, A:V.151, A:V.151 Hydrogen bonds: C:P.146 Water bridges: C:K.174, C:K.174 Salt bridges: C:K.174

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: H.60, E.180 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.60, A:E.180, H2O.9, H2O.9 ZN.4: 2 residues within 4Å: Chain B: H.60, E.180 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.60, B:E.180, H2O.17 ZN.5: 1 residues within 4Å: Chain C: H.60 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.60, H2O.28, H2O.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johansson, S. et al., Design, Synthesis, and Evaluation of N-Acyl Modified Sialic Acids as Inhibitors of Adenoviruses Causing Epidemic Keratoconjunctivitis. J.Med.Chem. (2009)

Release Date

2009-11-24

Peptides

FIBER PROTEIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

FIBER PROTEIN

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