SMTL ID : 6iyy.1

Crystal structure of human WIPI3,loop deletion mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: N.16, Q.17, M.56, L.57, F.58, R.59 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.16, A:Q.17, A:F.58, A:R.59 Water bridges: A:R.59 Salt bridges: A:R.59 SO4.2: 3 residues within 4Å: Chain A: R.59, N.141, S.142 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.59, A:S.142 Water bridges: A:N.141, A:N.141, A:N.143 SO4.3: 6 residues within 4Å: Chain A: H.175, E.176, G.177, S.195, K.197, R.202 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:E.176, A:G.177, A:S.195 Water bridges: A:G.198, A:G.198, A:R.202, A:R.202 Salt bridges: A:H.175, A:K.197, A:R.202 SO4.4: 3 residues within 4Å: Chain A: K.197, T.199, R.216 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.199 Salt bridges: A:K.197, A:R.216 SO4.5: 2 residues within 4Å: Chain A: R.216, K.256 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.216, A:K.256 SO4.6: 5 residues within 4Å: Chain A: R.217, T.244, H.246, K.261 Ligands: SO4.7 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.244, A:T.244 Water bridges: A:R.217, A:H.246 Salt bridges: A:R.217, A:H.246, A:K.261 SO4.7: 6 residues within 4Å: Chain A: R.217, G.218, S.219, Q.220, W.257 Ligands: SO4.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.219, A:S.219, A:Q.220 Salt bridges: A:R.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liang, R. et al., Structural Conservation of the Two Phosphoinositide-Binding Sites in WIPI Proteins. J. Mol. Biol. (2019)

Release Date

2019-03-13

Peptides

WD repeat domain phosphoinositide-interacting protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

WD repeat domain phosphoinositide-interacting protein 3