SMTL ID : 9lky.1

Dimer of CRL2-FEM1B bound with PLD6

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-2-2-2-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain D: C.41, E.43, C.44, C.56, H.70 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.41, D:C.44, D:C.56, D:H.70 ZN.2: 5 residues within 4Å: Chain D: C.30, C.33, C.41, 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.3: 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.4: 4 residues within 4Å: Chain G: C.41, C.44, C.56, H.70 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:C.41, G:C.44, G:C.56, G:H.70, G:H.70 ZN.5: 4 residues within 4Å: Chain G: C.30, C.33, H.68, C.71 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.30, G:C.33, G:H.68, G:C.71 ZN.6: 4 residues within 4Å: Chain G: C.63, H.65, C.82, D.85 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.63, G:H.65, G:H.65, G:C.82

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

Mitochondrial cardiolipin hydrolase: A
Cullin-2: BJ
Elongin-C: CF
E3 ubiquitin-protein ligase RBX1, N-terminally processed: DG
Protein fem-1 homolog B: EH
Elongin-B: IK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
A

J
B

C
C

F
G

D
E

G
I

E
F

H
J

I
H

K
D

Mitochondrial cardiolipin hydrolase

Cullin-2

Elongin-C

E3 ubiquitin-protein ligase RBX1, N-terminally processed

Protein fem-1 homolog B

Elongin-B

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