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

Crystal structure of the D75N mutant capsid of Flock House virus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-trimer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.221, G.273 Chain B: T.157, S.160, D.161, E.257 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:D.161, A:D.221, A:G.273 CA.2: 6 residues within 4Å: Chain A: D.249, E.251 Chain B: D.249, E.251 Chain C: D.249, E.251 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C, 1 interactions with chain A Metal complexes: B:D.249, C:D.249, C:E.251, A:D.249 CA.5: 6 residues within 4Å: Chain B: D.221, G.273 Chain C: T.157, S.160, D.161, E.257 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Metal complexes: B:G.273, C:D.161 CA.8: 5 residues within 4Å: Chain A: T.157, D.161, E.257 Chain C: D.221, G.273 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:D.161, C:G.273, H2O.9

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

SO4.3: 9 residues within 4Å: Chain A: S.211, S.212, L.213 Chain B: S.211, S.212, L.213 Chain C: S.211, S.212, L.213 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:L.213, A:L.213, A:L.213, C:L.213

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 C: Q.201, F.202, P.203 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:Q.260, A:T.261, A:A.265, A:E.283, C:Q.201 Salt bridges: A:E.283 EPE.7: 11 residues within 4Å: Chain A: Q.201, F.202, P.203 Chain B: G.258, I.259, Q.260, T.261, P.264, A.265, A.282, E.283 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:Q.201, B:Q.260, B:T.261, B:A.265, B:E.283 Salt bridges: B:E.283 EPE.9: 11 residues within 4Å: Chain B: Q.201, F.202, P.203 Chain C: S.156, G.258, Q.260, T.261, P.264, A.265, A.282, E.283 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Q.260, C:T.261, C:A.265, C:E.283, B:Q.201 Salt bridges: C:E.283

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

CL.6: 1 residues within 4Å: Chain B: 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 alpha: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Capsid protein alpha

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