SMTL ID : 6v9t.1 (1 other biounit)

Tudor domain of TDRD3 in complex with a small molecule

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

2 x 36X: 4-methyl-2,3,4,5,6,7-hexahydrodicyclopenta[b,e]pyridin-8(1H)-imine(Non-covalent)

36X.1: 5 residues within 4Å: Chain A: Y.31, Y.38, F.56, Y.59, N.61 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.31, A:Y.31, A:Y.31, A:Y.38, A:Y.38, A:F.56, A:F.56, A:Y.59, A:Y.59, A:Y.59, A:Y.59 Hydrogen bonds: A:N.61 pi-Stacking: A:Y.59 36X.2: 2 residues within 4Å: Chain A: W.32 Ligands: UNX.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.32 pi-Stacking: A:W.32

1 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 3 residues within 4Å: Chain A: E.63, E.64 Ligands: 36X.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., A small molecule antagonist of SMN disrupts the interaction between SMN and RNAP II. Nat Commun (2022)

Release Date

2019-12-25

Peptides

Tudor domain-containing protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Tudor domain-containing protein 3

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