SMTL ID : 4tpl.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

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: 5 residues within 4Å: Chain A: E.116, N.155, T.157, V.159, E.167 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.167 NAG-NAG.2: 1 residues within 4Å: Chain A: N.232 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: 3 residues within 4Å: Chain B: N.232, D.233, L.343 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 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.200

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

SO4.6: 6 residues within 4Å: Chain A: G.258, D.259, G.260, I.261 Chain B: D.259, G.260 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.258, A:G.260, A:I.261, B:G.260

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

OXN.7: 6 residues within 4Å: Chain A: T.27, G.28, C.40, G.41 Chain B: C.29, L.38 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.38, A:T.27 OXN.8: 5 residues within 4Å: Chain A: Q.36, E.37, L.38 Chain B: F.185 Ligands: OXN.9 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A pi-Stacking: B:F.185 Hydrophobic interactions: A:Q.36, A:L.38 OXN.9: 2 residues within 4Å: Chain B: L.187 Ligands: OXN.8 No protein-ligand interaction detected (PLIP) OXN.10: 5 residues within 4Å: Chain A: C.29, L.38 Chain B: T.27, C.29, C.40 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.27, A:L.38 Hydrogen bonds: B:G.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akey, D.L. et al., Use of massively multiple merged data for low-resolution S-SAD phasing and refinement of flavivirus NS1. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-10-15

Peptides

West Nile Virus NS1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

West Nile Virus NS1

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