SMTL ID : 4mms.1

Crystal Structure of Prefusion-stabilized RSV F Variant Cav1 at pH 5.5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-3-3-mer

Ligands

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

SO4.1: 6 residues within 4Å: Chain B: F.1, R.203, Q.218, E.220 Chain E: R.81 Chain F: F.4 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain E Hydrogen bonds: B:F.1, B:F.1, B:Q.218 Water bridges: B:E.220 Salt bridges: B:R.203, E:R.81 SO4.2: 5 residues within 4Å: Chain B: S.307, K.309, G.328, K.329, S.330 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.307, B:S.330 Water bridges: B:S.307, B:G.328, B:S.330 Salt bridges: B:K.309 SO4.3: 4 residues within 4Å: Chain B: L.137, N.140, N.141, R.228 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.141 Salt bridges: B:R.228 SO4.4: 2 residues within 4Å: Chain B: N.290, R.293 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.290 Water bridges: B:R.293, B:R.293 Salt bridges: B:R.293 SO4.5: 3 residues within 4Å: Chain B: N.189, T.190, K.191 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.190, B:T.190, B:T.190, B:K.191 Water bridges: B:S.194, B:S.194, B:S.194 SO4.6: 4 residues within 4Å: Chain A: R.81 Chain D: F.1, R.203, Q.218 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:F.1, D:Q.218, D:Q.218 Water bridges: D:E.220, A:R.81 Salt bridges: D:R.203, A:R.81 SO4.7: 5 residues within 4Å: Chain D: S.307, K.309, G.328, K.329, S.330 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.307, D:G.328, D:S.330 SO4.8: 3 residues within 4Å: Chain D: L.137, N.141, R.228 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.141 Salt bridges: D:R.228 SO4.9: 4 residues within 4Å: Chain D: N.308, K.309, G.310, K.325 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:G.310 Salt bridges: D:K.325 SO4.10: 1 residues within 4Å: Chain D: P.129 No protein-ligand interaction detected (PLIP) SO4.11: 5 residues within 4Å: Chain F: S.307, K.309, G.328, K.329, S.330 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:S.307, F:S.330 Salt bridges: F:K.309 SO4.12: 2 residues within 4Å: Chain F: F.1, R.203 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:F.1 Water bridges: F:R.203 Salt bridges: F:R.203 SO4.13: 4 residues within 4Å: Chain F: L.137, N.140, N.141, R.228 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:N.140, F:N.141 Water bridges: F:S.226 Salt bridges: F:R.228 SO4.14: 4 residues within 4Å: Chain F: N.308, K.309, G.310, K.325 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:G.310 Salt bridges: F:K.325

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McLellan, J.S. et al., Structure-based design of a fusion glycoprotein vaccine for respiratory syncytial virus. Science (2013)

Release Date

2013-11-20

Peptides

Fusion glycoprotein F2: ACE
Fusion glycoprotein F1 fused with Fibritin trimerization domain: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

Fusion glycoprotein F2

Fusion glycoprotein F1 fused with Fibritin trimerization domain

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