SMTL ID : 7xno.1

Cryo-EM structure of the bacteriocin-receptor-immunity ternary complex from Lactobacillus sakei

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-mer

Ligands

3 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.1: 13 residues within 4Å: Chain B: N.65, V.66, G.67 Chain C: Q.23, W.26, Q.32, N.66, T.67, H.68, P.69, A.109, D.113, W.117 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:G.67, B:G.67, C:Q.23, C:W.26, C:N.66, C:D.113, C:W.117 MAN.2: 13 residues within 4Å: Chain F: N.65, V.66, G.67 Chain G: Q.23, W.26, Q.32, N.66, T.67, H.68, P.69, A.109, D.113, W.117 7 PLIP interactions: 5 interactions with chain G, 2 interactions with chain F Hydrogen bonds: G:Q.23, G:W.26, G:N.66, G:D.113, G:W.117, F:G.67, F:G.67 MAN.3: 13 residues within 4Å: Chain J: N.65, V.66, G.67 Chain K: Q.23, W.26, Q.32, N.66, T.67, H.68, P.69, A.109, D.113, W.117 7 PLIP interactions: 5 interactions with chain K, 2 interactions with chain J Hydrogen bonds: K:Q.23, K:W.26, K:N.66, K:D.113, K:W.117, J:G.67, J:G.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, L. et al., Structural Basis of the Immunity Mechanisms of Pediocin-like Bacteriocins. Appl.Environ.Microbiol. (2022)

Release Date

2022-05-25

Peptides

Bacteriocin sakacin-A: AEI
Mannose permease IIC component: BFJ
Mannose permease IID component: CGK
Sakacin-A immunity factor: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
C

I
G

B
Y

F
D

J
H

C
Z

G
E

K
I

D
B

H
F

L
J

Membrane

We predict this structure to be a membrane protein.
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Bacteriocin sakacin-A

Mannose permease IIC component

Mannose permease IID component

Sakacin-A immunity factor

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