SMTL ID : 6ye4.1

Structure of ExbB pentamer from Serratia marcescens by single particle cryo electron microscopy

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)

PGT.1: 13 residues within 4Å: Chain A: R.165, G.168, F.169, T.172, I.173, I.176 Chain B: W.75, L.86, V.230, I.231, I.234, R.237, V.238 11 PLIP interactions: 6 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:W.75, B:V.230, B:I.231, B:I.234, B:R.237, A:F.169, A:F.169, A:I.173, A:I.176 Salt bridges: B:K.89, A:R.165 PGT.2: 13 residues within 4Å: Chain B: R.165, G.168, F.169, T.172, I.173, I.176 Chain C: W.75, L.86, V.230, I.231, I.234, R.237, V.238 11 PLIP interactions: 6 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:W.75, C:V.230, C:I.231, C:I.234, C:R.237, B:F.169, B:F.169, B:I.173, B:I.176 Salt bridges: C:K.89, B:R.165 PGT.3: 13 residues within 4Å: Chain C: R.165, G.168, F.169, T.172, I.173, I.176 Chain D: W.75, L.86, V.230, I.231, I.234, R.237, V.238 11 PLIP interactions: 5 interactions with chain C, 6 interactions with chain D Hydrophobic interactions: C:F.169, C:F.169, C:I.173, C:I.176, D:W.75, D:V.230, D:I.231, D:I.234, D:R.237 Salt bridges: C:R.165, D:K.89 PGT.4: 13 residues within 4Å: Chain D: R.165, G.168, F.169, T.172, I.173, I.176 Chain E: W.75, L.86, V.230, I.231, I.234, R.237, V.238 11 PLIP interactions: 6 interactions with chain E, 5 interactions with chain D Hydrophobic interactions: E:W.75, E:V.230, E:I.231, E:I.234, E:R.237, D:F.169, D:F.169, D:I.173, D:I.176 Salt bridges: E:K.89, D:R.165 PGT.5: 13 residues within 4Å: Chain A: W.75, L.86, V.230, I.231, I.234, R.237, V.238 Chain E: R.165, G.168, F.169, T.172, I.173, I.176 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain E Hydrophobic interactions: A:W.75, A:V.230, A:I.231, A:I.234, A:R.237, E:F.169, E:F.169, E:I.173, E:I.176 Salt bridges: A:K.89, E:R.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Biou, V. et al., Structural and molecular determinants for the interaction of ExbB from Serratia marcescens and HasB, a TonB paralog. Commun Biol (2022)

Release Date

2021-03-31

Peptides

Biopolymer transport protein ExbB: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Biopolymer transport protein ExbB