SMTL ID : 5kl2.1

Wilms Tumor Protein (WT1) ZnF2-4 in complex with DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

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

EDO.1: 8 residues within 4Å: Chain A: R.22, D.24, Q.25, R.28 Chain B: A.9 Chain C: A.2, C.3, T.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.22, A:D.24 EDO.2: 9 residues within 4Å: Chain A: K.37, K.47, F.48, S.49, R.50, H.53 Chain B: G.4, T.5, G.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.49, A:S.49, A:R.50, A:H.53 EDO.3: 8 residues within 4Å: Chain A: R.80, D.82, E.83, R.86 Chain B: C.3 Chain C: A.8, C.9, G.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.82 EDO.4: 6 residues within 4Å: Chain A: P.66, F.67, S.68, R.70, L.84, H.88 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.68, A:R.70 EDO.8: 4 residues within 4Å: Chain A: V.85, N.89 Chain C: C.7, A.8 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.89

3 x ZN: ZINC ION(Non-covalent)

ZN.5: 6 residues within 4Å: Chain A: C.11, F.13, C.16, R.18, H.29, H.33 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.11, A:C.16, A:H.29, A:H.33 ZN.6: 5 residues within 4Å: Chain A: C.41, T.43, C.44, H.57, H.61 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.41, A:C.44, A:H.57, A:H.61 ZN.7: 6 residues within 4Å: Chain A: C.69, W.71, C.74, K.76, H.87, H.91 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.69, A:C.74, A:H.87, A:H.91

1 x NA: SODIUM ION(Non-functional Binders)

NA.9: 5 residues within 4Å: Chain A: F.39, S.51 Chain C: A.2, C.3, T.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.51 Water bridges: A:S.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hashimoto, H. et al., Denys-Drash syndrome associated WT1 glutamine 369 mutants have altered sequence-preferences and altered responses to epigenetic modifications. Nucleic Acids Res. (2016)

Release Date

2016-09-14

Peptides

Wilms tumor protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Wilms tumor protein

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