SMTL ID : 4fsj.1 (3 other biounits)

Crystal structure of the virus like particle of Flock House virus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

hetero-3-3-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: T.157, S.160, D.161, E.257 Chain E: D.221, G.273 2 PLIP interactions: 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:G.273, H2O.5 CA.2: 4 residues within 4Å: Chain A: D.221, G.273 Chain C: T.157, D.161 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:D.221, A:G.273, C:D.161, H2O.1 CA.3: 5 residues within 4Å: Chain A: D.249, E.251 Chain C: D.249 Chain E: D.249, E.251 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A Metal complexes: E:D.249, E:E.251, A:D.249 CA.5: 6 residues within 4Å: Chain C: D.221, G.273 Chain E: T.157, S.160, D.161, E.257 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: C:G.273, E:D.161, H2O.4

3 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 11 residues within 4Å: Chain A: G.258, I.259, Q.260, T.261, P.264, A.265, A.282, E.283 Chain E: Q.201, F.202, P.203 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain E Hydrogen bonds: A:Q.260, A:T.261, A:A.265, A:E.283, E:Q.201 Salt bridges: A:E.283 EPE.7: 11 residues within 4Å: Chain A: Q.201, F.202, P.203 Chain C: G.258, I.259, Q.260, T.261, P.264, A.265, A.282, E.283 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:Q.201, C:Q.260, C:T.261, C:A.265 Salt bridges: C:E.283 EPE.8: 11 residues within 4Å: Chain C: Q.201, F.202, P.203 Chain E: G.258, I.259, Q.260, T.261, P.264, A.265, A.282, E.283 8 PLIP interactions: 7 interactions with chain E, 1 interactions with chain C Hydrogen bonds: E:Q.260, E:T.261, E:A.265, E:E.283, C:Q.201 Water bridges: E:S.156, E:S.156 Salt bridges: E:E.283

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Chain C: S.102 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Speir, J.A. et al., Structural study of virus assembly intermediates reveals maturation event sequence and a staging position for externalized lytic peptides. to be published (2012)

Release Date

2012-08-01

Peptides

Capsid protein beta: ACE
Capsid protein Gamma: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

B
D

D
E

F
F

Capsid protein beta

Capsid protein Gamma

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