SMTL ID : 5k5m.1

Co-Crystal Structure of Dengue Virus Serotype 2 RNA Dependent RNA Polymerase with Compound 27

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.447, H.449, C.463, C.582 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.447, A:H.449, A:C.463, A:C.582 ZN.2: 4 residues within 4Å: Chain A: E.173, H.177, C.182, C.185 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.173, A:H.177, A:C.182, A:C.185

1 x 68T: 5-[5-(3-hydroxyprop-1-yn-1-yl)thiophen-2-yl]-2,4-dimethoxy-N-[(3-methoxyphenyl)sulfonyl]benzamide(Non-covalent)

68T.3: 20 residues within 4Å: Chain A: L.247, H.248, C.444, S.445, H.446, R.464, R.472, M.496, M.500, Y.501, T.528, T.529, W.530, S.531, H.533, A.534, K.535, H.536, E.537, W.538 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.247, A:L.247, A:W.538 Hydrogen bonds: A:R.464, A:R.464, A:T.529, A:W.530, A:S.531, A:K.535, A:H.536, A:E.537 Water bridges: A:S.445, A:R.472

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 5 residues within 4Å: Chain A: G.58, R.61, L.62, L.483, L.608 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lim, S.P. et al., Potent Allosteric Dengue Virus NS5 Polymerase Inhibitors: Mechanism of Action and Resistance Profiling. Plos Pathog. (2016)

Release Date

2016-08-24

Peptides

RNA Dependent RNA Polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA Dependent RNA Polymerase