SMTL ID : 7cp9.1

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

Coordinates

PDB Format

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.
Show / Hide

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

Related Entries With Identical Sequence