SMTL ID : 8g1p.1 (1 other biounit)

Co-crystal structure of Compound 11 in complex with the bromodomain of human SMARCA2 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 GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: K.11, P.92, F.93, S.94 Chain B: D.25 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.11, A:K.11, A:F.93

1 x FWZ: (2~{S},4~{R})-~{N}-[[2-[2-[4-[[4-[3-azanyl-6-(2-hydroxyphenyl)pyridazin-4-yl]piperazin-1-yl]methyl]phenyl]ethoxy]-4-(4-methyl-1,3-thiazol-5-yl)phenyl]methyl]-1-[(2~{S})-2-[(1-fluoranylcyclopropyl)carbonylamino]-3,3-dimethyl-butanoyl]-4-oxidanyl-pyrrolidine-2-carboxamide(Non-covalent)

FWZ.2: 28 residues within 4Å: Chain C: N.16, R.18, 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 Chain D: V.38, F.39, Q.41, L.42, P.43, L.48, Y.51, V.59, D.60, A.90, F.93, N.94, I.100 21 PLIP interactions: 13 interactions with chain C, 8 interactions with chain D Hydrophobic interactions: C:R.18, C:W.37, C:W.37, C:P.48, C:I.58, C:Y.61, C:W.66, D:L.42, D:L.48, D:D.60 Hydrogen bonds: C:Y.47, C:R.56, C:H.59, C:Y.61, C:H.64, D:Y.51, D:N.94, D:N.94 pi-Stacking: C:Y.47, D:F.39 Halogen bonds: D:N.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wurz, R.P. et al., Affinity and cooperativity modulate ternary complex formation to drive targeted protein degradation. Nat Commun (2023)

Release Date

2023-07-26

Peptides

Elongin-B: A
Elongin-C: B
von Hippel-Lindau disease tumor suppressor: C
Probable global transcription activator SNF2L2: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
G

Elongin-B

Elongin-C

von Hippel-Lindau disease tumor suppressor

Probable global transcription activator SNF2L2

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