SMTL ID : 4lq9.1

Crystal structure of human norovirus RNA-dependent RNA-polymerase in complex with NAF2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

monomer

Ligands

2 x 21D: naphthalene-1,5-disulfonic acid(Non-covalent)

21D.1: 10 residues within 4Å: Chain A: F.29, Q.415, W.418, T.419, R.420, H.434, Q.436, R.437, Q.440, N.506 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.29, A:Q.415, A:R.420 Hydrogen bonds: A:T.419, A:R.420, A:N.506 Salt bridges: A:R.420, A:H.434, A:R.437 21D.2: 7 residues within 4Å: Chain A: Y.42, Q.67, V.171, K.172, K.175, K.181, R.183 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:K.175, A:K.181, A:R.183 Hydrogen bonds: A:Y.42, A:Q.67, A:K.172 Water bridges: A:L.184 Salt bridges: A:K.172, A:K.175, A:K.181, A:R.183, A:R.183 pi-Cation interactions: A:K.175, A:R.183, A:R.183

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.241, D.345, E.346, T.390 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.241, A:E.346, A:T.390, H2O.7, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tarantino, D. et al., Naphthalene-sulfonate inhibitors of human norovirus RNA-dependent RNA-polymerase. Antiviral Res. (2014)

Release Date

2014-02-12

Peptides

RNA-dependent RNA-polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-dependent RNA-polymerase

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