SMTL ID : 8y5g.1

Cryo-EM structure of E.coli spermidine transporter PotABC with spermidine

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: F.331 Chain D: D.283 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:F.331 MG.2: 2 residues within 4Å: Chain A: E.333, D.334 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.334 MG.4: 1 residues within 4Å: Chain D: F.330 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:F.330 MG.5: 1 residues within 4Å: Chain D: D.333 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.333, D:D.333

1 x SPD: SPERMIDINE(Non-covalent)

SPD.3: 10 residues within 4Å: Chain B: S.107, I.154, F.158, L.207, P.211, Y.217 Chain C: M.100, S.102, D.104, D.194 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:L.207, B:P.211 Hydrogen bonds: B:S.107, B:S.107, B:Y.217, C:S.102, C:D.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qiao, Z. et al., Structural insights into polyamine spermidine uptake by the ABC transporter PotD-PotABC. Sci Adv (2024)

Release Date

2024-10-09

Peptides

Spermidine/putrescine import ATP-binding protein PotA: A
Spermidine/putrescine ABC transporter permease PotB: B
Spermidine/putrescine transport system permease protein PotC: C
Spermidine/putrescine import ATP-binding protein PotA: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Spermidine/putrescine import ATP-binding protein PotA

Spermidine/putrescine ABC transporter permease PotB

Spermidine/putrescine transport system permease protein PotC

Spermidine/putrescine import ATP-binding protein PotA