SMTL ID : 6blw.1

Zinc finger Domain of WT1(+KTS form) with M342R Mutation and 17+1mer Oligonucleotide with Triplet GGT

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

monomer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.39, C.44, H.57, H.61 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.39, A:C.44, A:H.57, A:H.61 ZN.2: 4 residues within 4Å: Chain A: C.69, C.72, H.85, H.89 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.69, A:C.72, A:H.85, A:H.89 ZN.3: 5 residues within 4Å: Chain A: C.9, Y.11, C.14, H.27, H.31 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.9, A:C.14, A:H.27, A:H.31 ZN.4: 5 residues within 4Å: Chain A: C.100, W.102, C.105, H.118, H.122 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.100, A:C.105, A:H.118, A:H.122

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: K.65, F.76, S.77, R.78, H.81 Chain B: T.8, G.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.77, A:R.78, A:H.81 EDO.6: 6 residues within 4Å: Chain A: R.56, S.77, R.78, H.81 Chain B: T.8, G.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.78, A:H.81 Water bridges: A:R.56 EDO.7: 7 residues within 4Å: Chain A: R.50, D.52, Q.53, R.56 Chain B: A.12, G.13 Chain C: C.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.52 Water bridges: A:R.56 EDO.8: 3 residues within 4Å: Chain A: K.55 Chain C: C.5, C.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.55

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 2 residues within 4Å: Chain A: L.115, V.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.115, A:V.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, D. et al., Role for first zinc finger of WT1 in DNA sequence specificity: Denys-Drash syndrome-associated WT1 mutant in ZF1 enhances affinity for a subset of WT1 binding sites. Nucleic Acids Res. (2018)

Release Date

2018-01-03

Peptides

Wilms tumor protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Wilms tumor protein