SMTL ID : 5k6k.3 (2 other biounits)

Zika virus non-structural protein 1 (NS1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-tetramer

Ligands

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: N.154 Chain C: R.323, T.326, A.327, D.351 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.323, C:R.323, C:A.327, C:D.351 NAG.2: 4 residues within 4Å: Chain A: R.215, N.231, D.232, R.235 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.215, A:R.235, A:R.235 Water bridges: A:N.231, A:R.281 NAG.4: 1 residues within 4Å: Chain B: N.154 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.154 NAG.5: 2 residues within 4Å: Chain B: N.231, R.235 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.235, B:R.235 Water bridges: B:R.281 NAG.13: 5 residues within 4Å: Chain A: R.323, T.326, A.327, D.351 Chain C: N.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.323, A:R.323, A:A.327, A:D.351 NAG.14: 4 residues within 4Å: Chain C: R.215, N.231, D.232, R.235 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.215, C:R.235, C:R.235 Water bridges: C:N.231, C:R.281 NAG.16: 1 residues within 4Å: Chain D: N.154 1 PLIP interactions: 1 interactions with chain D Water bridges: D:N.154 NAG.17: 2 residues within 4Å: Chain D: N.231, R.235 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.235, D:R.235 Water bridges: D:R.281

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

SO4.3: 2 residues within 4Å: Chain A: R.285, R.318 8 PLIP interactions: 8 interactions with chain A Water bridges: A:R.285, A:R.285, A:R.285, A:R.318, A:R.318, A:R.318 Salt bridges: A:R.285, A:R.318 SO4.6: 3 residues within 4Å: Chain B: P.365, E.366, S.367 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.366, B:S.367 Water bridges: B:S.367 SO4.7: 3 residues within 4Å: Chain B: T.326, S.328, R.330 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.326, B:S.328, B:S.328 Water bridges: B:T.326, B:A.327 Salt bridges: B:R.330 SO4.8: 2 residues within 4Å: Chain B: R.285, R.318 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.285, B:R.318, B:R.318 Salt bridges: B:R.285, B:R.318 SO4.9: 4 residues within 4Å: Chain B: R.285, T.317, R.318, R.338 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.317, B:R.318 Salt bridges: B:R.285, B:R.338 SO4.15: 2 residues within 4Å: Chain C: R.285, R.318 8 PLIP interactions: 8 interactions with chain C Water bridges: C:R.285, C:R.285, C:R.285, C:R.318, C:R.318, C:R.318 Salt bridges: C:R.285, C:R.318 SO4.18: 3 residues within 4Å: Chain D: P.365, E.366, S.367 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.366, D:S.367 Water bridges: D:S.367 SO4.19: 3 residues within 4Å: Chain D: T.326, S.328, R.330 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:S.328, D:S.328 Water bridges: D:T.326, D:A.327 Salt bridges: D:R.330 SO4.20: 2 residues within 4Å: Chain D: R.285, R.318 5 PLIP interactions: 5 interactions with chain D Water bridges: D:R.285, D:R.318, D:R.318 Salt bridges: D:R.285, D:R.318 SO4.21: 4 residues within 4Å: Chain D: R.285, T.317, R.318, R.338 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:T.317, D:T.317, D:R.318 Salt bridges: D:R.285, D:R.338

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain B: E.76, G.77, Q.126, H.171 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.171, B:H.171 Water bridges: B:Q.126, B:Q.126 GOL.11: 2 residues within 4Å: Chain B: K.289, T.375 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.289, B:T.375, B:T.375 GOL.12: 5 residues within 4Å: Chain B: G.115, S.116, G.161, D.162, T.163 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.116, B:D.162 Water bridges: B:D.162 GOL.22: 4 residues within 4Å: Chain D: E.76, G.77, Q.126, H.171 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:H.171, D:H.171 Water bridges: D:Q.126 GOL.23: 2 residues within 4Å: Chain D: K.289, T.375 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.289, D:T.375 GOL.24: 5 residues within 4Å: Chain D: G.115, S.116, G.161, D.162, T.163 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.116, D:D.162 Water bridges: D:D.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brown, W.C. et al., Extended surface for membrane association in Zika virus NS1 structure. Nat.Struct.Mol.Biol. (2016)

Release Date

2016-07-06

Peptides

Zika virus protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Zika virus protein

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