SMTL ID : 6qsn.2 (1 other biounit)

Crystal structure of Yellow fever virus polymerase NS5A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

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

SAH.1: 18 residues within 4Å: Chain A: S.56, G.81, C.82, G.83, R.84, G.85, G.86, W.87, T.104, L.105, H.110, E.111, T.130, D.131, I.132, H.133, D.146, I.147 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.56, A:R.84, A:G.85, A:G.86, A:T.104, A:L.105, A:E.111, A:D.131, A:D.131, A:I.132, A:D.146, A:D.146

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

SO4.2: 3 residues within 4Å: Chain A: W.381, R.384, T.652 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.652 Salt bridges: A:R.384 SO4.3: 5 residues within 4Å: Chain A: R.37, R.41, S.56, R.57, R.84 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.57 Salt bridges: A:R.37, A:R.41, A:R.84 SO4.4: 3 residues within 4Å: Chain A: R.302, T.362, R.363 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.363 Salt bridges: A:R.302, A:R.363 SO4.5: 4 residues within 4Å: Chain A: R.733, R.741, T.798, W.799 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.798, A:W.799 Salt bridges: A:R.733, A:R.741

2 x ZN: ZINC ION(Non-covalent)

ZN.6: 4 residues within 4Å: Chain A: E.439, H.443, C.448, C.451 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.439, A:H.443, A:C.448, A:C.451 ZN.7: 4 residues within 4Å: Chain A: H.716, H.718, C.732, C.851 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.716, A:H.718, A:C.732, A:C.851

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dubankova, A. et al., Structure of the yellow fever NS5 protein reveals conserved drug targets shared among flaviviruses. Antiviral Res. (2019)

Release Date

2019-10-16

Peptides

Genome polyprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Genome polyprotein

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