SMTL ID : 9gat.1

CryoEM structure of the antiparallel double-stranded influenza A RNP-like particle with a 18-mer RNA.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

6 x 01: 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2R)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid

01.1: 5 residues within 4Å: Chain B: U.17, C.18 Chain C: U.1, C.2 Chain K: R.63 1 PLIP interactions: 1 interactions with chain K Salt bridges: K:R.63 01.2: 6 residues within 4Å: Chain D: U.11, C.12 Chain E: U.1, C.2 Chain L: R.7 Chain M: R.63 1 PLIP interactions: 1 interactions with chain M Salt bridges: M:R.63 01.3: 6 residues within 4Å: Chain B: U.1, C.2 Chain E: U.17, C.18 Chain K: R.7 Chain L: R.63 1 PLIP interactions: 1 interactions with chain L Salt bridges: L:R.63 01.4: 12 residues within 4Å: Chain F: C.12 Chain K: R.196, G.197, R.201, R.204 Chain O: A.58, F.59, E.61, N.64, R.105, R.109, D.116 11 PLIP interactions: 3 interactions with chain K, 8 interactions with chain O Hydrogen bonds: K:G.197, K:G.197, O:N.64, O:R.105 pi-Cation interactions: K:R.201, O:R.105, O:R.109, O:R.109 Hydrophobic interactions: O:F.59 Salt bridges: O:R.105, O:R.109 01.5: 16 residues within 4Å: Chain G: C.18 Chain L: W.195, R.196, G.197, G.200, R.201, R.204, R.234 Chain N: A.58, F.59, E.61, N.64, K.65, R.105, R.109, D.116 12 PLIP interactions: 3 interactions with chain L, 9 interactions with chain N Hydrophobic interactions: L:R.204, N:F.59 Hydrogen bonds: L:G.197, L:R.234, N:E.61, N:N.64, N:K.65, N:R.105 Salt bridges: N:R.105, N:R.109 pi-Cation interactions: N:R.105, N:R.109 01.6: 15 residues within 4Å: Chain H: C.18 Chain M: W.195, R.196, G.197, R.201, R.204, R.234 Chain P: A.58, F.59, E.61, N.64, K.65, R.105, R.109, D.116 14 PLIP interactions: 9 interactions with chain P, 5 interactions with chain M Hydrophobic interactions: P:F.59, M:R.204 Hydrogen bonds: P:E.61, P:N.64, P:K.65, P:R.105, M:G.197, M:G.197, M:R.234 Salt bridges: P:R.105, P:R.109 pi-Cation interactions: P:R.105, P:R.109, M:R.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chenavier, F. et al., Influenza a virus antiparallel helical nucleocapsid-like pseudo-atomic structure. Nucleic Acids Res. (2025)

Release Date

2025-01-15

Peptides

Nucleoprotein: AJKLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

J
D

K
K

L
J

M
I

N
B

O
A

P
C

Nucleoprotein

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