SMTL ID : 5ke7.1

mouse Klf4 ZnF1-3 and TpG/MpA sequence DNA complex structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

monomer

Ligands

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

EDO.1: 9 residues within 4Å: Chain A: D.55, T.58, R.59, R.62, R.81 Chain C: C.3, A.4, C.5, A.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.59, A:R.59 Water bridges: A:T.58, A:R.62, A:R.81 EDO.2: 10 residues within 4Å: Chain A: S.25, H.26, A.29, R.53, D.55 Chain B: T.7 Chain C: C.2, C.3, A.4 Ligands: EDO.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.55 Water bridges: A:S.25, A:H.26 EDO.6: 9 residues within 4Å: Chain A: Y.21, H.26, A.29, H.30, R.53 Chain B: T.5, G.6, T.7 Ligands: EDO.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.53 EDO.7: 4 residues within 4Å: Chain B: G.6, T.7 Chain C: A.6, C.7 No protein-ligand interaction detected (PLIP)

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain A: C.72, K.74, C.75, R.77, H.88, H.92 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.72, A:C.75, A:H.88, A:H.92 ZN.4: 6 residues within 4Å: Chain A: C.42, W.44, C.47, W.49, H.60, H.64 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.42, A:C.47, A:H.60, A:H.64 ZN.5: 6 residues within 4Å: Chain A: C.12, Y.14, C.17, K.19, H.30, H.34 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.12, A:C.17, A:H.30, A:H.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hashimoto, H. et al., Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res. (2016)

Release Date

2016-09-14

Peptides

Krueppel-like factor 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Krueppel-like factor 4

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