SMTL ID : 7cp9.1

Cryo-EM structure of human mitochondrial translocase TOM complex at 3.0 angstrom.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

11 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Covalent)

PC1.1: 10 residues within 4Å: Chain C: R.38, R.43, N.44, L.47, N.48, L.51 Chain I: S.320, N.321, W.322, R.348 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain I Salt bridges: C:R.43 Hydrogen bonds: I:R.348, I:R.348 PC1.2: 9 residues within 4Å: Chain E: F.16, Q.20 Chain J: M.176, K.184, F.185, W.188, P.208, D.209, V.210 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain J Hydrophobic interactions: E:F.16, J:P.208, J:V.210 PC1.3: 4 residues within 4Å: Chain E: F.36, K.37, G.39, E.46 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:G.39 PC1.4: 9 residues within 4Å: Chain F: F.16, Q.20 Chain I: M.176, K.184, F.185, W.188, P.208, D.209, V.210 3 PLIP interactions: 3 interactions with chain I Hydrophobic interactions: I:W.188, I:V.210 Hydrogen bonds: I:V.210 PC1.5: 3 residues within 4Å: Chain F: F.36, K.37, E.46 No protein-ligand interaction detected (PLIP) PC1.6: 22 residues within 4Å: Chain G: M.93, I.94, P.98, E.102, K.105 Chain H: M.93, P.98, E.102, E.109 Chain I: F.314, L.328, K.330, L.332, L.339, L.341, A.343, L.358 Chain J: V.101, K.330, L.332, P.333, L.358 19 PLIP interactions: 7 interactions with chain I, 5 interactions with chain H, 4 interactions with chain J, 3 interactions with chain G Hydrophobic interactions: I:F.314, I:L.328, I:K.330, I:L.339, I:L.341, I:A.343, I:L.358, H:P.98, H:P.98, J:V.101, J:K.330, J:L.358, G:P.98 Salt bridges: H:K.105, H:K.105, H:E.109, J:K.330, G:K.105, G:E.109 PC1.7: 8 residues within 4Å: Chain E: L.53 Chain G: R.82, L.85, W.86 Chain J: S.127, Y.129, N.156 Ligands: PC1.8 8 PLIP interactions: 3 interactions with chain J, 5 interactions with chain G Hydrophobic interactions: J:Y.129, J:Y.129, G:L.85 Hydrogen bonds: J:N.156 Salt bridges: G:R.82, G:R.82 pi-Cation interactions: G:W.86, G:W.86 PC1.8: 11 residues within 4Å: Chain E: W.25, L.52, L.53 Chain G: Y.78, R.79, R.82 Chain J: F.131, D.155, N.156, S.157 Ligands: PC1.7 9 PLIP interactions: 4 interactions with chain E, 3 interactions with chain G, 2 interactions with chain J Hydrophobic interactions: E:W.25, E:L.52, E:L.53, E:L.53, J:F.131, J:F.131 Salt bridges: G:R.79, G:R.82, G:R.82 PC1.9: 9 residues within 4Å: Chain F: L.53 Chain H: R.82, L.85, W.86 Chain I: S.127, Y.129, N.156 Chain J: N.350 Ligands: PC1.10 8 PLIP interactions: 5 interactions with chain H, 3 interactions with chain I Hydrophobic interactions: H:L.85, I:Y.129, I:Y.129 Salt bridges: H:R.82, H:R.82 pi-Cation interactions: H:W.86, H:W.86 Hydrogen bonds: I:N.156 PC1.10: 10 residues within 4Å: Chain F: L.52, L.53 Chain H: Y.78, R.79, R.82 Chain I: M.154, D.155, N.156, S.157 Ligands: PC1.9 5 PLIP interactions: 2 interactions with chain F, 3 interactions with chain H Hydrophobic interactions: F:L.52, F:L.53 Salt bridges: H:R.79, H:R.82, H:R.82 PC1.11: 10 residues within 4Å: Chain D: R.38, R.43, N.44, L.47, L.51 Chain J: T.297, S.320, N.321, W.322, R.348 3 PLIP interactions: 1 interactions with chain J, 2 interactions with chain D Salt bridges: J:R.348, D:R.38, D:R.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guan, Z. et al., Structural insights into assembly of human mitochondrial translocase TOM complex. Cell Discov (2021)

Release Date

2021-04-28

Peptides

Mitochondrial import receptor subunit TOM5 homolog: AB
Mitochondrial import receptor subunit TOM6 homolog: CD
Mitochondrial import receptor subunit TOM7 homolog: EF
Mitochondrial import receptor subunit TOM22 homolog: GH
Mitochondrial import receptor subunit TOM40 homolog: IJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

Membrane

We predict this structure to be a membrane protein.
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Mitochondrial import receptor subunit TOM5 homolog

Mitochondrial import receptor subunit TOM6 homolog

Mitochondrial import receptor subunit TOM7 homolog

Mitochondrial import receptor subunit TOM22 homolog

Mitochondrial import receptor subunit TOM40 homolog

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