SMTL ID : 3evg.1

Crystal structure of Dengue-2 virus methyltransferase complexed with S-adenosyl-L-homocysteine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: R.38, K.42, V.55, S.56, R.57, R.84 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:V.55, A:R.57 Water bridges: A:R.84, A:R.84 Salt bridges: A:R.38, A:K.42, A:R.57, A:R.84 SO4.2: 2 residues within 4Å: Chain A: K.105, H.110 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.105, A:H.110 SO4.3: 4 residues within 4Å: Chain A: G.109, H.110, E.111 Ligands: SAH.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.111 Water bridges: A:E.111 Salt bridges: A:H.110 SO4.4: 2 residues within 4Å: Chain A: V.156, R.160 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.160 SO4.5: 5 residues within 4Å: Chain A: K.29, K.30, E.35, R.57, R.212 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.35, A:R.57 Salt bridges: A:K.29, A:K.30, A:R.212

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.6: 16 residues within 4Å: Chain A: S.56, G.58, G.81, C.82, G.83, G.86, W.87, T.104, K.105, V.130, D.131, V.132, F.133, D.146, I.147 Ligands: SO4.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.56, A:C.82, A:G.85, A:G.86, A:W.87, A:W.87, A:K.105, A:D.131, A:V.132 Water bridges: A:G.106 pi-Cation interactions: A:K.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Geiss, B.J. et al., Analysis of flavivirus NS5 methyltransferase cap binding. J.Mol.Biol. (2009)

Release Date

2009-01-06

Peptides

RNA-directed RNA polymerase NS5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-directed RNA polymerase NS5