SMTL ID : 5yzc.1

Crystal structure of the prefusion form of measles virus fusion protein in complex with a fusion inhibitor compound (AS-48)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

hetero-3-3-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: 7 residues within 4Å: Chain A: H.8, N.11 Chain B: G.249, T.251, R.333, I.334, D.335 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.335 NAG-NAG.4: 7 residues within 4Å: Chain C: H.8, N.11 Chain D: G.249, T.251, R.333, I.334, D.335 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.335 NAG-NAG.7: 7 residues within 4Å: Chain E: H.8, N.11 Chain F: G.249, T.251, R.333, I.334, D.335 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:D.335

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

NAG.2: 5 residues within 4Å: Chain A: N.43, T.45 Chain B: E.43, T.44, N.46 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.45 Hydrogen bonds: A:T.45, A:T.45 Water bridges: A:N.43, A:T.45 NAG.5: 5 residues within 4Å: Chain C: N.43, T.45 Chain D: E.43, T.44, N.46 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:T.45 Hydrogen bonds: C:T.45 Water bridges: C:N.43, C:T.45 NAG.8: 5 residues within 4Å: Chain E: N.43, T.45 Chain F: E.43, T.44, N.46 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:T.45 Hydrogen bonds: E:T.45 Water bridges: E:N.43, E:T.45

3 x 95C: 4-nitro-2-[(phenylacetyl)amino]benzamide(Non-covalent)

95C.3: 15 residues within 4Å: Chain B: W.199, T.257, L.258, P.339, I.340, S.341, V.347, N.350 Chain D: G.348, L.351, G.352, I.355 Chain F: P.238, S.240, P.241 12 PLIP interactions: 3 interactions with chain D, 8 interactions with chain B, 1 interactions with chain F Hydrophobic interactions: D:L.351, D:L.351, D:I.355, B:W.199, B:P.339, B:I.340, B:I.340, B:V.347, B:N.350, F:P.241 Water bridges: B:P.339, B:N.350 95C.6: 15 residues within 4Å: Chain B: P.238, S.240, P.241 Chain D: W.199, T.257, L.258, P.339, I.340, S.341, V.347, N.350 Chain F: G.348, L.351, G.352, I.355 12 PLIP interactions: 8 interactions with chain D, 3 interactions with chain F, 1 interactions with chain B Hydrophobic interactions: D:W.199, D:P.339, D:I.340, D:I.340, D:V.347, D:N.350, F:L.351, F:L.351, F:I.355, B:P.241 Water bridges: D:P.339, D:N.350 95C.9: 15 residues within 4Å: Chain B: G.348, L.351, G.352, I.355 Chain D: P.238, S.240, P.241 Chain F: W.199, T.257, L.258, P.339, I.340, S.341, V.347, N.350 12 PLIP interactions: 3 interactions with chain B, 8 interactions with chain F, 1 interactions with chain D Hydrophobic interactions: B:L.351, B:L.351, B:I.355, F:W.199, F:P.339, F:I.340, F:I.340, F:V.347, F:N.350, D:P.241 Water bridges: F:P.339, F:N.350

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hashiguchi, T. et al., Structures of the prefusion form of measles virus fusion protein in complex with inhibitors. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-02-21

Peptides

glycoprotein F2: ACE
glycoprotein F1,measles virus fusion protein: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

glycoprotein F2

glycoprotein F1,measles virus fusion protein

Related Entries With Identical Sequence