SMTL ID : 5kv9.1 (1 other biounit)

Crystal structure of a hPIV haemagglutinin-neuraminidase-inhibitor complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 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: 3 residues within 4Å: Chain A: N.211, T.213, W.311 No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.139, S.142, G.144, A.176 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.139, A:S.142, A:G.144, A:A.176, H2O.1

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

NAG.3: 2 residues within 4Å: Chain A: N.383, T.385 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.385 Hydrogen bonds: A:T.385 Water bridges: A:N.383

1 x I57: 2,6-anhydro-3,4,5-trideoxy-5-[(2-methylpropanoyl)amino]-4-(4-phenyl-1H-1,2,3-triazol-1-yl)-D-glycero-D-galacto-non-2-en onic acid(Non-covalent)

I57.4: 16 residues within 4Å: Chain A: R.52, T.53, N.68, I.70, C.74, Q.75, D.76, K.114, E.136, Y.179, Y.197, F.232, E.269, R.284, R.362, Y.390 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:I.70, A:D.76, A:K.114, A:K.114, A:E.136 Hydrogen bonds: A:R.52, A:Y.197, A:Y.197, A:E.269, A:R.284, A:Y.390 Water bridges: A:S.115, A:S.115, A:E.136, A:E.136, A:E.269, A:E.269, A:R.284, A:R.284, A:R.362 Salt bridges: A:R.284, A:R.362

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

EDO.5: 6 residues within 4Å: Chain A: Y.126, G.190, K.191, I.192, V.244, K.246 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.192, A:V.244 EDO.6: 4 residues within 4Å: Chain A: I.103, S.104, H.105, I.159 No protein-ligand interaction detected (PLIP) EDO.7: 5 residues within 4Å: Chain A: N.108, I.109, N.110, D.111, R.113 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.108, A:I.109, A:N.110, A:N.110, A:D.111, A:R.113, A:R.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dirr, L. et al., The impact of the butterfly effect on human parainfluenza virus haemagglutinin-neuraminidase inhibitor design. Sci Rep (2017)

Release Date

2017-07-12

Peptides

Hemagglutinin-neuraminidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Hemagglutinin-neuraminidase

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