SMTL ID : 7vd2.1

Human TOM complex without cross-linking

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

16 x UND: UNDECANE(Non-covalent)(Non-functional Binders)

UND.1: 1 residues within 4Å: Chain A: W.57 Ligand excluded by PLIP UND.3: 2 residues within 4Å: Chain A: V.56, R.60 Ligand excluded by PLIP UND.5: 1 residues within 4Å: Chain C: W.57 Ligand excluded by PLIP UND.7: 2 residues within 4Å: Chain C: V.56, R.60 Ligand excluded by PLIP UND.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UND.16: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UND.19: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UND.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UND.27: 1 residues within 4Å: Chain C: D.66 Ligand excluded by PLIP UND.29: 4 residues within 4Å: Chain I: Y.135, G.137, T.138, P.148 Ligand excluded by PLIP UND.31: 1 residues within 4Å: Ligands: PC1.30 Ligand excluded by PLIP UND.33: 1 residues within 4Å: Ligands: PC1.28 Ligand excluded by PLIP UND.37: 1 residues within 4Å: Chain A: D.66 Ligand excluded by PLIP UND.38: 1 residues within 4Å: Ligands: PC1.42 Ligand excluded by PLIP UND.40: 1 residues within 4Å: Ligands: PC1.34 Ligand excluded by PLIP UND.41: 5 residues within 4Å: Chain D: L.30 Chain J: Y.135, G.137, T.138, P.148 Ligand excluded by PLIP

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

PC1.2: 18 residues within 4Å: Chain A: R.38, R.43, N.44, L.47, N.48, L.51, A.54, W.57 Chain J: T.297, V.299, F.301, V.318, D.319, S.320, N.321, W.322, R.348 Ligands: PC1.4 Ligand excluded by PLIP PC1.4: 3 residues within 4Å: Chain A: W.57, L.58 Ligands: PC1.2 Ligand excluded by PLIP PC1.6: 4 residues within 4Å: Chain C: W.57, L.58, N.61 Ligands: PC1.26 Ligand excluded by PLIP PC1.8: 6 residues within 4Å: Chain D: P.29, F.36, K.37, G.39, E.46, P.47 Ligand excluded by PLIP PC1.10: 8 residues within 4Å: Chain D: Q.14, K.17, G.18, F.21, A.22, G.26, P.29 Ligands: PC1.11 Ligand excluded by PLIP PC1.11: 5 residues within 4Å: Chain D: F.21, R.24, W.25 Ligands: PC1.10, PC1.35 Ligand excluded by PLIP PC1.12: 9 residues within 4Å: Chain D: F.16, K.17, S.19, Q.20 Chain J: F.185, W.188, P.208, D.209, V.210 Ligand excluded by PLIP PC1.13: 10 residues within 4Å: Chain F: K.76, R.79, F.80, A.83, A.84, I.87, G.88, S.91 Chain J: W.322 Ligands: PC1.14 Ligand excluded by PLIP PC1.14: 6 residues within 4Å: Chain A: R.29, Y.32 Chain F: L.69, F.72, V.73 Ligands: PC1.13 Ligand excluded by PLIP PC1.15: 15 residues within 4Å: Chain F: Y.78, S.81, R.82, L.85, W.86, T.89 Chain H: L.53, W.54 Chain I: H.117, E.126, S.127, Y.129, N.156 Chain J: N.350 Ligands: PC1.25 Ligand excluded by PLIP PC1.17: 10 residues within 4Å: Chain G: K.76, R.79, F.80, A.83, A.84, I.87, G.88, S.91 Chain I: W.322 Ligands: PC1.18 Ligand excluded by PLIP PC1.18: 6 residues within 4Å: Chain C: R.29, Y.32 Chain G: L.69, F.72, V.73 Ligands: PC1.17 Ligand excluded by PLIP PC1.20: 6 residues within 4Å: Chain H: P.29, F.36, K.37, G.39, E.46, P.47 Ligand excluded by PLIP PC1.22: 8 residues within 4Å: Chain H: Q.14, K.17, G.18, F.21, A.22, G.26, P.29 Ligands: PC1.23 Ligand excluded by PLIP PC1.23: 6 residues within 4Å: Chain H: F.21, R.24, W.25 Chain I: S.183 Ligands: PC1.22, PC1.25 Ligand excluded by PLIP PC1.24: 10 residues within 4Å: Chain H: F.16, K.17, S.19, Q.20 Chain I: K.184, F.185, W.188, P.208, D.209, V.210 Ligand excluded by PLIP PC1.25: 13 residues within 4Å: Chain F: Y.78, R.79, R.82 Chain H: W.25, L.53 Chain I: F.131, M.154, D.155, N.156, S.157, G.158 Ligands: PC1.15, PC1.23 Ligand excluded by PLIP PC1.26: 18 residues within 4Å: Chain C: R.38, R.43, N.44, L.47, N.48, L.51, A.54, W.57 Chain I: T.297, V.299, F.301, V.318, D.319, S.320, N.321, W.322, R.348 Ligands: PC1.6 Ligand excluded by PLIP PC1.28: 14 residues within 4Å: Chain C: F.52, R.60 Chain I: L.231, L.250, A.251, G.252, Y.254, L.256, N.257, W.259, A.261, V.263 Ligands: PC1.32, UND.33 Ligand excluded by PLIP PC1.30: 7 residues within 4Å: Chain I: C.76, G.192, E.193, Y.194, A.201, V.203 Ligands: UND.31 Ligand excluded by PLIP PC1.32: 6 residues within 4Å: Chain E: L.38, L.45 Chain I: T.226, L.229, Y.254 Ligands: PC1.28 Ligand excluded by PLIP PC1.34: 14 residues within 4Å: Chain A: F.52, R.60 Chain J: L.231, L.250, A.251, G.252, Y.254, L.256, N.257, W.259, A.261, V.263 Ligands: PC1.39, UND.40 Ligand excluded by PLIP PC1.35: 12 residues within 4Å: Chain D: W.25, L.53 Chain G: Y.78, R.82 Chain J: F.131, M.154, D.155, N.156, S.157, G.158 Ligands: PC1.11, PC1.36 Ligand excluded by PLIP PC1.36: 11 residues within 4Å: Chain D: L.53 Chain G: R.82, L.85, W.86 Chain I: N.350 Chain J: H.117, E.126, S.127, Y.129, N.156 Ligands: PC1.35 Ligand excluded by PLIP PC1.39: 6 residues within 4Å: Chain B: L.38, L.45 Chain J: T.226, L.229, Y.254 Ligands: PC1.34 Ligand excluded by PLIP PC1.42: 6 residues within 4Å: Chain J: G.192, E.193, Y.194, A.201, V.203 Ligands: UND.38 Ligand excluded by PLIP PC1.43: 26 residues within 4Å: Chain F: M.93, L.97, P.98, E.102, K.105 Chain G: M.93, L.97, P.98, K.105 Chain I: V.101, A.326, K.330, L.332, L.339, L.341, A.343, L.358 Chain J: V.101, F.314, L.328, K.330, L.332, L.341, A.343, F.356, L.358 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, J. et al., Structural basis of Tom20 and Tom22 cytosolic domains as the human TOM complex receptors. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-07-13

Peptides

Mitochondrial import receptor subunit TOM6 homolog: AC
Mitochondrial import receptor subunit TOM5 homolog: BE
Mitochondrial import receptor subunit TOM7 homolog: DH
Mitochondrial import receptor subunit TOM22 homolog: FG
Mitochondrial import receptor subunit TOM40 homolog: IJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
F

B
D

E
E

D
G

H
J

F
H

G
C

I
B

J
I

Membrane

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

Mitochondrial import receptor subunit TOM5 homolog

Mitochondrial import receptor subunit TOM7 homolog

Mitochondrial import receptor subunit TOM22 homolog

Mitochondrial import receptor subunit TOM40 homolog

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