SMTL ID : 4uyo.1 (1 other biounit)

Structure of delta7-DgkA in 7.9 MAG by serial femtosecond crystatallography to 2.18 angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-trimer

Ligands

3 x 79N: (2S)-2,3-dihydroxypropyl (7Z)-hexadec-7-enoate(Non-covalent)

79N.1: 7 residues within 4Å: Chain A: W.27, L.30, R.31, W.34, V.47, L.48, M.75 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.27, A:L.30, A:L.30, A:W.34, A:V.47, A:L.48 Hydrogen bonds: A:R.31 79N.3: 6 residues within 4Å: Chain B: E.43, C.50, V.71, V.74, E.78, W.121 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:E.43, B:V.71, B:W.121, B:W.121, B:W.121 79N.5: 6 residues within 4Å: Chain C: E.43, C.50, E.78, I.114, W.121, L.125 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:W.121, C:W.121, C:L.125 Hydrogen bonds: C:E.43

2 x 79M: (2R)-2,3-dihydroxypropyl (7Z)-hexadec-7-enoate(Non-covalent)

79M.2: 7 residues within 4Å: Chain B: A.55, V.59, D.60, A.61, R.64 Chain C: I.123, W.126 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:A.55, C:I.123, C:W.126 Hydrogen bonds: B:R.64, B:R.64 Salt bridges: B:R.64 79M.4: 4 residues within 4Å: Chain B: I.53, W.56, L.57, D.58 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.53 Hydrogen bonds: B:D.58

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, D. et al., Ternary Structure Reveals Mechanism of a Membrane Diacylglycerol Kinase. Nat.Commun. (2015)

Release Date

2015-09-30

Peptides

DIACYLGLYCEROL KINASE-DELTA 7: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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DIACYLGLYCEROL KINASE-DELTA 7

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