SMTL ID : 5t35.1 (1 other biounit)

The PROTAC MZ1 in complex with the second bromodomain of Brd4 and pVHL:ElonginC:ElonginB

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-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(Non-covalent)

759.1: 24 residues within 4Å: Chain A: W.44, P.45, A.54, L.55, G.56, L.57, N.103, H.107, E.108, V.109, M.112 Chain D: P.35, W.37, F.40, Y.47, P.48, L.50, R.56, I.58, H.59, S.60, Y.61, H.64, W.66 16 PLIP interactions: 9 interactions with chain D, 7 interactions with chain A Hydrophobic interactions: D:W.37, D:P.48, D:I.58, D:W.66, A:W.44, A:W.44, A:P.45, A:V.109, A:V.109 Hydrogen bonds: D:H.59, D:S.60, D:Y.61, A:N.103, A:N.103 Water bridges: D:Y.61 pi-Stacking: D:Y.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gadd, M.S. et al., Structural basis of PROTAC cooperative recognition for selective protein degradation. Nat. Chem. Biol. (2017)

Release Date

2017-03-08

Peptides

Bromodomain-containing protein 4: A
Transcription elongation factor B polypeptide 2: B
Transcription elongation factor B polypeptide 1: C
Von Hippel-Lindau disease tumor suppressor: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Bromodomain-containing protein 4

Transcription elongation factor B polypeptide 2

Transcription elongation factor B polypeptide 1

Von Hippel-Lindau disease tumor suppressor

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