SMTL ID : 3qnd.2 (2 other biounits)

crystal structure of Ad37 fiber knob in complex with trivalent sialic acid inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-trimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 1 residues within 4Å: Chain A: E.110 No protein-ligand interaction detected (PLIP) 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.1, H2O.1 ZN.4: 2 residues within 4Å: Chain B: H.60, E.180 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.60, B:E.180, H2O.4, H2O.4 ZN.6: 2 residues within 4Å: Chain C: H.60, E.180 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.60, C:E.180, H2O.1, H2O.5

3 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.3: 8 residues within 4Å: Chain A: Y.141, P.146, D.147, P.149, K.174 Chain B: Y.137, V.151, S.173 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.141, A:P.146, B:Y.137, B:V.151 Hydrogen bonds: A:P.146, B:S.173 Water bridges: A:Y.141 Salt bridges: A:K.174 SIA.5: 8 residues within 4Å: Chain B: Y.141, P.146, D.147, P.149, K.174 Chain C: Y.137, V.151, S.173 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:Y.141, C:Y.137, C:V.151 Hydrogen bonds: B:Y.141, B:P.146, C:S.173 Salt bridges: B:K.174 Water bridges: C:T.139 SIA.7: 8 residues within 4Å: Chain A: Y.137, V.151, S.173 Chain C: Y.141, P.146, D.147, P.149, K.174 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:Y.141, C:P.146, A:Y.137, A:V.151 Hydrogen bonds: C:P.146 Water bridges: C:Y.141 Salt bridges: C:K.174

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spjut, S. et al., A potent trivalent sialic Acid inhibitor of adenovirus type 37 infection of human corneal cells. Angew.Chem.Int.Ed.Engl. (2011)

Release Date

2011-06-15

Peptides

Fiber protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

Fiber protein

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