SMTL ID : 9j79.1

Cryo-EM structure of CRL2-FEM1B bound with TOM20(tetramer)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-4-4-2-mer

Ligands

1 x UNK- UNK- UNK- UNK- UNK- UNK- UNK- UNK: Poly-UNK(Non-covalent)

UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK.1: 4 residues within 4Å: Chain O: A.352, D.356, R.387, F.501 4 PLIP interactions: 4 interactions with chain O Hydrophobic interactions: O:F.501 Hydrogen bonds: O:D.356, O:D.356, O:R.387

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain D: C.41, C.44, C.56, H.70 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:C.41, D:C.44, D:C.56, D:H.70, D:H.70 ZN.3: 4 residues within 4Å: Chain D: C.30, C.33, H.68, C.71 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.30, D:C.33, D:H.68, D:C.71 ZN.4: 4 residues within 4Å: Chain D: C.63, H.65, C.82, D.85 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.63, D:H.65, D:C.82, D:D.85 ZN.5: 4 residues within 4Å: Chain H: C.41, C.44, C.56, H.70 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.41, H:C.44, H:C.56, H:H.70 ZN.6: 5 residues within 4Å: Chain H: C.30, C.33, C.41, H.68, C.71 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.30, H:C.33, H:H.68, H:C.71 ZN.7: 4 residues within 4Å: Chain H: C.63, H.65, C.82, D.85 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:C.63, H:H.65, H:C.82, H:D.85, H:D.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, C. et al., TOM20-Driven E3 Ligase Recruitment Regulates Mitochondrial Dynamics Through PLD6. Nat.Chem.Biol. (2025)

Release Date

2025-04-09

Peptides

Cullin-2: AE
Elongin-C: BF
Elongin-B: CG
E3 ubiquitin-protein ligase RBX1, N-terminally processed: DH
Protein fem-1 homolog B: IJNO
Mitochondrial import receptor subunit TOM20 homolog: KLPQ
Poly-UNK: MR

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

E
K

B
F

F
L

C
H

G
M

D
I

H
N

I
J

J
A

N
O

O
P

K
B

L
G

P
S

Q
C

M
D

R
R

Cullin-2

Elongin-C

Elongin-B

E3 ubiquitin-protein ligase RBX1, N-terminally processed

Protein fem-1 homolog B

Mitochondrial import receptor subunit TOM20 homolog

Poly-UNK

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