SMTL ID : 8vjo.1 (3 other biounits)

Cryo-EM structure of Myxococcus xanthus EncA encapsulin shell loaded with EncD cargo

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

3 x GLY- LEU- THR- VAL- GLY- SER- LEU- ARG- GLY: Encapsulin nanocompartment cargo protein EncD(Non-covalent)

GLY-LEU-THR-VAL-GLY-SER-LEU-ARG-GLY.1: 15 residues within 4Å: Chain A: I.39, A.42, R.43, L.46, R.49, R.50, I.51, L.52, D.53, I.54, P.57, D.228, T.246, D.258, M.259 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:I.39, A:A.42, A:L.46, A:R.49, A:P.57, A:P.57, A:M.259 Hydrogen bonds: A:R.43, A:R.49, A:R.49, A:R.50, A:T.246, A:D.258, A:D.258, A:D.258, A:D.258, A:M.259 Salt bridges: A:D.53, A:D.228 GLY-LEU-THR-VAL-GLY-SER-LEU-ARG-GLY.2: 14 residues within 4Å: Chain B: I.39, A.42, R.43, L.46, R.49, R.50, I.51, D.53, I.54, P.57, D.228, T.246, D.258, M.259 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:A.42, B:R.43, B:L.46, B:R.49, B:R.50, B:P.57, B:M.259 Hydrogen bonds: B:R.43, B:R.49, B:R.49, B:R.50, B:T.246, B:T.246, B:D.258, B:D.258, B:D.258, B:D.258 Salt bridges: B:D.53, B:D.228 GLY-LEU-THR-VAL-GLY-SER-LEU-ARG-GLY.3: 14 residues within 4Å: Chain C: I.39, A.42, R.43, L.46, R.49, R.50, I.51, L.52, D.53, P.57, D.228, T.246, D.258, M.259 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:A.42, C:R.43, C:L.46, C:R.50, C:P.57, C:M.259 Hydrogen bonds: C:R.43, C:R.49, C:R.49, C:R.50, C:T.246, C:T.246, C:D.258, C:D.258, C:D.258, C:D.258 Salt bridges: C:D.53, C:D.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eren, E. et al., Myxococcus xanthus encapsulin cargo protein EncD is a flavin-binding protein with ferric reductase activity. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2024-05-08

Peptides

EncA: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

EncA

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