SMTL ID : 8rwz.1

Open non-crosslinked structure Brd4BD2-MZ1-(NEDD8)-CRL2VHL

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x 759: (2~{S},4~{R})-1-[(2~{S})-2-[2-[2-[2-[2-[2-[(9~{S})-7-(4-chlorophenyl)-4,5,13-trimethyl-3-thia-1,8,11,12-tetrazatricyclo[8.3.0.0^{2,6}]trideca-2(6),4,7,10,12-pentaen-9-yl]ethanoylamino]ethoxy]ethoxy]ethoxy]ethanoylamino]-3,3-dimethyl-butanoyl]-~{N}-[[4-(4-methyl-2,3-dihydro-1,3-thiazol-5-yl)phenyl]methyl]-4-oxidanyl-pyrrolidine-2-carboxamide(Covalent)

759.1: 6 residues within 4Å: Chain A: V.34, A.38, L.39, G.40, C.83 Chain B: S.58 No protein-ligand interaction detected (PLIP)

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ZN.3: 5 residues within 4Å: Chain F: C.30, R.34, N.35, H.36, I.37 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:R.34, F:N.35 ZN.4: 1 residues within 4Å: Chain F: C.63 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crowe, C. et al., Mechanism of degrader-targeted protein ubiquitinability. Sci Adv (2024)

Release Date

2024-03-06

Peptides

Bromodomain-containing protein 4: A
von Hippel-Lindau disease tumor suppressor: B
Elongin-B: C
Elongin-C: D
Cullin-2: E
E3 ubiquitin-protein ligase RBX1, N-terminally processed: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
R

Bromodomain-containing protein 4

von Hippel-Lindau disease tumor suppressor

Elongin-B

Elongin-C

Cullin-2

E3 ubiquitin-protein ligase RBX1, N-terminally processed

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