SMTL ID : 2jkb.1

CRYSTAL STRUCTURE OF STREPTOCOCCUS PNEUMONIAE NANB IN COMPLEX WITH 2,7-ANHYDRO-NEU5AC

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

1 x SKD: 2-ACETYLAMINO-7-(1,2-DIHYDROXY-ETHYL)-3-HYDROXY-6,8-DIOXA-BICYCLO[3.2.1]OCTANE-5-CARBOXYLIC ACID(Non-covalent)

SKD.1: 16 residues within 4Å: Chain A: R.234, I.235, R.253, D.259, I.315, D.316, D.333, N.341, Y.478, Y.498, T.528, E.530, R.546, R.608, Y.642, W.663 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.315, A:Y.478 Hydrogen bonds: A:R.253, A:D.316, A:N.341, A:Y.498, A:T.528, A:R.546, A:R.546, A:Y.642 Water bridges: A:R.234, A:Y.498 Salt bridges: A:R.234, A:R.546, A:R.608

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

EDO.2: 6 residues within 4Å: Chain A: L.73, Y.90, S.92, F.94, E.104, Y.188 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.92, A:S.92, A:E.104 EDO.3: 7 residues within 4Å: Chain A: F.351, Y.447, I.448, L.466, P.467, F.469, G.476 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.448, A:L.466 Water bridges: A:F.469 EDO.4: 6 residues within 4Å: Chain A: V.374, I.393, N.394, D.395, Y.397, K.464 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.464 Water bridges: A:D.395, A:Y.397, A:K.464 EDO.5: 5 residues within 4Å: Chain A: Y.239, T.240, Q.483, I.585, T.646 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.240, A:T.240, A:T.240, A:Q.483, A:Q.483 Water bridges: A:E.647 EDO.6: 4 residues within 4Å: Chain A: S.606, K.609, P.636, S.637 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.606, A:K.609 Water bridges: A:D.97, A:S.606, A:K.609, A:S.637 EDO.7: 1 residues within 4Å: Chain A: S.606 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.606, A:K.609, A:K.609

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gut, H. et al., Structural and Functional Studies of Streptococcus Pneumoniae Neuraminidase B: An Intramolecular Trans-Sialidase. FEBS Lett. (2008)

Release Date

2008-09-16

Peptides

SIALIDASE B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

SIALIDASE B