SMTL ID : 9jtz.1 (2 other biounits)

Crystal structure of Nir2 C-terminal domain in complex with phosphatidic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x 44E: (2R)-3-(phosphonooxy)propane-1,2-diyl dihexanoate(Non-covalent)

44E.1: 12 residues within 4Å: Chain A: S.119, I.120, D.121, G.122, V.158, T.159, G.160, R.161, P.162, Q.165, K.197, K.220 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:D.121, A:R.161 Hydrogen bonds: A:I.120, A:D.121, A:G.122, A:V.158, A:V.158, A:T.159, A:G.160 Salt bridges: A:R.161, A:K.197, A:K.220

1 x DW3: 2-oxidanylethanal(Non-covalent)

DW3.2: 6 residues within 4Å: Chain A: L.173, F.178, P.179, H.180, G.181, V.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.179, A:H.180, A:G.181

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: D.121, T.125 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, D. et al., Structure of Nir2 reveals a phosphatidic acid sensing mechanism at the ER-PM contact sites. To Be Published

Release Date

2025-10-15

Peptides

Membrane-associated phosphatidylinositol transfer protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane-associated phosphatidylinositol transfer protein 1

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