SMTL ID : 8pdh.1

The phosphatase and C2 domains of SHIP1 with covalent Z1742148362

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x YBU: (5-phenyl-1,3,4-oxadiazol-2-yl)methanimine(Covalent)

YBU.1: 6 residues within 4Å: Chain A: H.110, C.112, M.135, G.172, D.173, K.174 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:H.110, A:D.173 Water bridges: A:T.113, A:K.174 pi-Stacking: A:H.110

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

EDO.2: 5 residues within 4Å: Chain A: G.151, S.152, E.153, K.154, K.271 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.153, A:K.271 Water bridges: A:S.152, A:S.152, A:Y.272, A:Y.272, A:Y.272

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 7 residues within 4Å: Chain A: G.138, T.139, T.186, T.319, D.405, Q.406, H.407 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.319 Water bridges: A:T.139 DMS.4: 5 residues within 4Å: Chain A: Y.286, S.360, S.361, H.407, L.409 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.361 DMS.5: 7 residues within 4Å: Chain A: H.183, H.238, K.284, P.287, C.425, T.441, P.442 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.284, A:C.425, A:T.441

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bradshaw, W.J. et al., Regulation of inositol 5-phosphatase activity by the C2 domain of SHIP1 and SHIP2. Structure (2024)

Release Date

2023-06-28

Peptides

Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 1

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