SMTL ID : 9gan.1

CryoEM structure of influenza A RNP-like particle single-stranded assembled with a 12-mer RNA.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-16-mer

Ligands

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

01.1: 13 residues within 4Å: Chain A: C.6 Chain C: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 Chain S: N.190 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain S Hydrophobic interactions: C:A.169, C:R.209, C:R.209 Hydrogen bonds: C:R.379, S:N.190 pi-Cation interactions: C:R.209 01.2: 13 residues within 4Å: Chain E: C.6 Chain G: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 Chain K: N.190 6 PLIP interactions: 1 interactions with chain K, 5 interactions with chain G Hydrogen bonds: K:N.190, G:R.379 Hydrophobic interactions: G:A.169, G:R.209, G:R.209 pi-Cation interactions: G:R.209 01.3: 13 residues within 4Å: Chain I: C.6 Chain K: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 Chain O: N.190 6 PLIP interactions: 5 interactions with chain K, 1 interactions with chain O Hydrophobic interactions: K:A.169, K:R.209, K:R.209 Hydrogen bonds: K:R.379, O:N.190 pi-Cation interactions: K:R.209 01.4: 13 residues within 4Å: Chain C: N.190 Chain M: C.6 Chain O: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 6 PLIP interactions: 5 interactions with chain O, 1 interactions with chain C Hydrophobic interactions: O:A.169, O:R.209, O:R.209 Hydrogen bonds: O:R.379, C:N.190 pi-Cation interactions: O:R.209 01.5: 13 residues within 4Å: Chain Q: C.6 Chain S: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 Chain W: N.190 6 PLIP interactions: 5 interactions with chain S, 1 interactions with chain W Hydrophobic interactions: S:A.169, S:R.209, S:R.209 Hydrogen bonds: S:R.379, W:N.190 pi-Cation interactions: S:R.209 01.6: 13 residues within 4Å: Chain 0: N.190 Chain U: C.6 Chain W: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 6 PLIP interactions: 5 interactions with chain W, 1 interactions with chain 0 Hydrophobic interactions: W:A.169, W:R.209, W:R.209 Hydrogen bonds: W:R.379, 0:N.190 pi-Cation interactions: W:R.209 01.7: 13 residues within 4Å: Chain 0: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 Chain 4: N.190 Chain Y: C.6 6 PLIP interactions: 5 interactions with chain 0, 1 interactions with chain 4 Hydrophobic interactions: 0:A.169, 0:R.209, 0:R.209 Hydrogen bonds: 0:R.379, 4:N.190 pi-Cation interactions: 0:R.209 01.8: 12 residues within 4Å: Chain 2: C.6 Chain 4: R.162, A.166, A.169, A.170, K.172, I.205, A.206, R.209, M.210, I.213, R.379 5 PLIP interactions: 5 interactions with chain 4 Hydrophobic interactions: 4:A.169, 4:R.209, 4:R.209 Hydrogen bonds: 4:R.379 pi-Cation interactions: 4:R.209

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: CDGHKLOPSTWX0145

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

G
A

H
B

K
A

L
B

O
A

P
B

S
A

T
B

W
A

X
B

0
A

1
B

4
A

5
B

Nucleoprotein

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