SMTL ID : 4o6d.1

West Nile Virus Non-structural protein 1 (NS1) Form 1 crystal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

hetero-1-1-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: N.155, T.157, V.159, E.167 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain A: N.232, D.233 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain B: P.126, N.200 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.4: 2 residues within 4Å: Chain B: N.232, D.233 No protein-ligand interaction detected (PLIP)

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

NAG.5: 2 residues within 4Å: Chain A: P.126, N.200 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.126, A:N.200

4 x OXN: OXTOXYNOL-10(Non-covalent)

OXN.6: 4 residues within 4Å: Chain A: T.27, G.28 Chain B: C.29 Ligands: OXN.8 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.27 OXN.7: 2 residues within 4Å: Chain A: I.31, Q.36 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.31 pi-Stacking: B:F.185 OXN.8: 2 residues within 4Å: Chain A: L.38 Ligands: OXN.6 No protein-ligand interaction detected (PLIP) OXN.11: 9 residues within 4Å: Chain A: C.29, A.30, I.31, L.38 Chain B: T.27, G.28, C.29, C.40, G.41 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.27, A:I.31, A:L.38

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

SO4.9: 1 residues within 4Å: Chain B: H.318 2 PLIP interactions: 2 interactions with chain B Water bridges: B:H.318 Salt bridges: B:H.318 SO4.10: 3 residues within 4Å: Chain A: G.260 Chain B: D.259, G.260 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.260, B:G.260 Water bridges: B:I.261, B:I.261

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akey, D.L. et al., Flavivirus NS1 structures reveal surfaces for associations with membranes and the immune system. Science (2014)

Release Date

2014-02-19

Peptides

NS1: A
NS1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NS1

NS1

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