SMTL ID : 3raa.6 (5 other biounits)

Structural studies of AAV8 capsid transitions associated with endosomal trafficking

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-10-mer

Ligands

10 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 8 residues within 4Å: Chain A: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.392, A:S.415, A:G.422 pi-Stacking: A:H.413 AMP.2: 8 residues within 4Å: Chain B: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.392, B:S.415, B:G.422 pi-Stacking: B:H.413 AMP.3: 8 residues within 4Å: Chain C: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.392, C:S.415, C:G.422 pi-Stacking: C:H.413 AMP.4: 8 residues within 4Å: Chain D: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:N.392, D:S.415, D:G.422 pi-Stacking: D:H.413 AMP.5: 8 residues within 4Å: Chain E: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:N.392, E:S.415, E:G.422 pi-Stacking: E:H.413 AMP.6: 8 residues within 4Å: Chain F: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:N.392, F:S.415, F:G.422 pi-Stacking: F:H.413 AMP.7: 8 residues within 4Å: Chain G: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:N.392, G:S.415, G:G.422 pi-Stacking: G:H.413 AMP.8: 8 residues within 4Å: Chain H: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain H Hydrogen bonds: H:N.392, H:S.415, H:G.422 pi-Stacking: H:H.413 AMP.9: 8 residues within 4Å: Chain I: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain I Hydrogen bonds: I:N.392, I:S.415, I:G.422 pi-Stacking: I:H.413 AMP.10: 8 residues within 4Å: Chain J: V.202, P.203, N.392, H.413, S.415, G.420, F.421, G.422 4 PLIP interactions: 4 interactions with chain J Hydrogen bonds: J:N.392, J:S.415, J:G.422 pi-Stacking: J:H.413

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nam, H.J. et al., Structural studies of adeno-associated virus serotype 8 capsid transitions associated with endosomal trafficking. J.Virol. (2011)

Release Date

2011-09-21

Peptides

Capsid protein: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

Capsid protein

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