SMTL ID : 9etm.1

cryoEM structure of the Drosophila melanogaster TOM core complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-2-mer

Ligands

5 x PLC: DIUNDECYL PHOSPHATIDYL CHOLINE(Non-covalent)

PLC.1: 10 residues within 4Å: Chain A: Y.9, M.16, K.19, L.23, L.26 Chain D: I.19, S.23 Chain E: N.250, W.251, I.253 7 PLIP interactions: 2 interactions with chain E, 1 interactions with chain D, 4 interactions with chain A Hydrophobic interactions: E:W.251, D:I.19, A:L.23, A:L.26 Hydrogen bonds: E:W.251 Salt bridges: A:K.19, A:K.19 PLC.2: 10 residues within 4Å: Chain D: C.14, S.17, W.18, F.21 Chain H: L.43, L.44 Chain J: L.31, I.45, S.53, Y.55 7 PLIP interactions: 2 interactions with chain H, 2 interactions with chain D, 3 interactions with chain J Hydrophobic interactions: H:L.43, H:L.44, D:F.21, J:I.45, J:Y.55 pi-Cation interactions: D:W.18 Hydrogen bonds: J:Y.55 PLC.3: 11 residues within 4Å: Chain F: Y.9, E.12, W.15, M.16, K.19, L.26 Chain I: I.19, S.23 Chain J: W.251, I.253, H.276 8 PLIP interactions: 4 interactions with chain F, 3 interactions with chain J, 1 interactions with chain I Hydrophobic interactions: F:Y.9, F:L.26, J:W.251, J:W.251, J:H.276, I:I.19 Salt bridges: F:E.12, F:K.19 PLC.4: 12 residues within 4Å: Chain C: L.44, W.45, Q.46 Chain E: L.31, I.45, G.54, Y.55, P.82 Chain I: C.14, S.17, W.18, F.21 7 PLIP interactions: 3 interactions with chain E, 2 interactions with chain I, 2 interactions with chain C Hydrophobic interactions: E:L.31, E:Y.55, I:F.21, I:F.21, C:W.45, C:Q.46 Hydrogen bonds: E:Y.55 PLC.5: 12 residues within 4Å: Chain D: E.34, R.37 Chain E: L.268, L.270 Chain I: P.30, E.34, R.37 Chain J: L.257, K.259, L.261, L.268, L.270 8 PLIP interactions: 5 interactions with chain J, 2 interactions with chain I, 1 interactions with chain E Hydrophobic interactions: J:L.257, J:L.268, J:L.268, J:L.270, I:P.30, E:L.268 Salt bridges: J:K.259, I:R.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Periasamy, A. et al., Structure of an ex vivoDrosophila TOM complex determined by single-particle cryoEM. Iucrj (2025)

Release Date

2024-12-04

Peptides

Mitochondrial import receptor subunit TOM6: AF
Mitochondrial import receptor subunit TOM5: BG
Mitochondrial import receptor subunit TOM7: CH
Mitochondrial import receptor subunit TOM22: DI
Mitochondrial import receptor subunit TOM40: EJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

F
H

B
I

G
J

C
E

H
F

D
C

I
D

E
A

J
B

Membrane

We predict this structure to be a membrane protein.
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Mitochondrial import receptor subunit TOM6

Mitochondrial import receptor subunit TOM5

Mitochondrial import receptor subunit TOM7

Mitochondrial import receptor subunit TOM22

Mitochondrial import receptor subunit TOM40