SMTL ID : 5d57.2 (1 other biounit)

In meso X-ray crystallography structure of diacylglycerol kinase, DgkA, at 100 K

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-trimer

Ligands

4 x 78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE(Non-covalent)

78M.1: 8 residues within 4Å: Chain A: A.55, W.56, L.57, R.64, I.68 Chain B: I.119, W.126 Ligands: 78M.2 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:I.119, B:W.126, A:I.68 Hydrogen bonds: A:D.58, A:R.64 Salt bridges: A:R.64 78M.2: 10 residues within 4Å: Chain A: L.30, R.31, W.34, I.35, I.68, M.72 Chain B: I.112, I.115, I.119 Ligands: 78M.1 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:I.112, B:I.115, B:I.119, A:L.30, A:L.30, A:W.34, A:I.68 78M.3: 4 residues within 4Å: Chain A: W.56, L.57, D.58, F.129 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.56, A:W.56, A:L.57, A:F.129 Hydrogen bonds: A:D.58 78M.4: 3 residues within 4Å: Chain A: R.41, Q.42, V.45 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, C.Y. et al., In meso in situ serial X-ray crystallography of soluble and membrane proteins at cryogenic temperatures. Acta Crystallogr D Struct Biol (2016)

Release Date

2016-01-13

Peptides

Diacylglycerol kinase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

Membrane

We predict this structure to be a membrane protein.
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Diacylglycerol kinase

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