SMTL ID : 7js5.1

Phospholipase D engineered mutant (TNYR) inactive enzyme (H168A) bound to 1-inositol phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x IPD: D-MYO-INOSITOL-1-PHOSPHATE(Non-covalent)

IPD.1: 9 residues within 4Å: Chain A: L.88, A.168, K.170, N.185, Q.337, H.442, K.444, N.459, Y.461 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.185, A:Q.337, A:N.459, A:Y.461 Water bridges: A:K.170, A:K.170, A:K.444, A:K.444 Salt bridges: A:K.170, A:H.442, A:K.444

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 10 residues within 4Å: Chain A: A.122, L.128, S.156, M.157, T.158, P.231, A.232, K.233, V.234, W.235 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.232 pi-Cation interactions: A:W.235, A:W.235

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 10 residues within 4Å: Chain A: Q.49, T.50, P.51, G.52, C.53, W.54, S.199, D.200, S.427, H.443 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.52, A:C.53, A:C.53, A:D.200, A:D.200 Water bridges: A:Q.49, A:S.427

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Samantha, A. et al., Structures of an engineered phospholipase D with specificity for secondary alcohol transphosphatidylation: insights into plasticity of substrate binding and activation. Biochem.J. (2021)

Release Date

2021-04-28

Peptides

Phospholipase D: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phospholipase D