SMTL ID : 5goz.3 (2 other biounits)

Crystal structure of ZIKV NS5 Methyltransferase in complex with GTP and SAH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 10 residues within 4Å: Chain A: K.14, L.17, N.18, M.20, F.25, K.29, S.151, S.152, S.153, S.216 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.14, A:L.17, A:L.17, A:S.151, A:S.216 Salt bridges: A:K.29, A:K.29 pi-Stacking: A:F.25, A:F.25 GTP.2: 7 residues within 4Å: Chain A: E.150, S.152, S.153, S.154, E.156, V.157, R.161 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.150, A:E.150, A:S.153, A:S.154 Salt bridges: A:E.156, A:R.161

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

SAH.3: 16 residues within 4Å: Chain A: S.57, G.59, G.82, C.83, G.84, G.87, W.88, T.105, K.106, H.111, V.131, D.132, V.133, F.134, D.147, I.148 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.57, A:G.87, A:W.88, A:T.105, A:K.106, A:H.111, A:D.132, A:V.133, A:D.147 Water bridges: A:S.57, A:R.85

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.4: 3 residues within 4Å: Chain A: Q.73, Y.75, K.97 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.75 Hydrogen bonds: A:Q.73 Salt bridges: A:K.97, A:K.97

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.5: 5 residues within 4Å: Chain A: R.38, R.42, S.57, R.58, R.85 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.58, A:G.59 Salt bridges: A:R.38, A:R.38, A:R.42, A:R.85, A:R.85

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 4 residues within 4Å: Chain A: K.30, R.42, R.58, R.214 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:K.30, A:R.42, A:R.58, A:R.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, C. et al., Structure of the NS5 methyltransferase from Zika virus and implications in inhibitor design. Biochem. Biophys. Res. Commun. (2017)

Release Date

2016-12-07

Peptides

RNA-directed RNA polymerase NS5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

RNA-directed RNA polymerase NS5

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