SMTL ID : 5zqk.2 (1 other biounit)

Dengue Virus Non Structural Protein 5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 18 residues within 4Å: Chain A: S.79, G.81, G.104, C.105, G.106, G.108, G.109, W.110, T.127, K.128, H.133, E.134, V.153, D.154, V.155, F.156, D.169, I.170 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:S.79, A:R.107, A:G.108, A:G.109, A:W.110, A:W.110, A:T.127, A:K.128, A:E.134, A:D.154, A:V.155, A:D.169 Water bridges: A:G.104 Salt bridges: A:D.169 pi-Stacking: A:H.133

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: A.496, W.498, D.562, R.622, G.623, S.624, T.629 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.562, A:D.562, A:S.624, A:S.624, A:T.629 Water bridges: A:R.495, A:W.498, A:W.498, A:D.562, A:R.622

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: A.555, D.557, D.687, C.688 Ligands: MG.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.557, A:D.687 MG.4: 4 residues within 4Å: Chain A: A.555, D.557, P.730 Ligands: MG.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.557, A:D.557

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 4 residues within 4Å: Chain A: E.461, H.465, C.470, C.473 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.461, A:H.465, A:C.470, A:C.473 ZN.6: 4 residues within 4Å: Chain A: H.735, H.737, C.751, C.870 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.737, A:C.751, A:C.870

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.7: 4 residues within 4Å: Chain A: S.253, N.256, M.257, R.260 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.256, A:R.260, A:R.260 Water bridges: A:S.253, A:S.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

El Sahili, A. et al., NS5 from Dengue Virus Serotype 2 Can Adopt a Conformation Analogous to That of Its Zika Virus and Japanese Encephalitis Virus Homologues. J.Virol. (2019)

Release Date

2019-06-12

Peptides

Non Structural Protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Non Structural Protein 5

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