- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-trimer
- Ligands
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 3 x ACT: ACETATE ION(Non-functional Binders)
ACT.3: 3 residues within 4Å:- Chain A: E.37, E.85
- Ligands: NA.2
No protein-ligand interaction detected (PLIP)ACT.6: 2 residues within 4Å:- Chain A: D.60, H.128
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.60, A:D.60
- Salt bridges: A:H.128
ACT.10: 3 residues within 4Å:- Chain B: E.85, K.103
- Ligands: NA.11
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:K.103
- Salt bridges: B:K.103
- 6 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
OLC.4: 10 residues within 4Å:- Chain A: W.27, R.31, W.34, I.35, F.40, V.47, V.51, M.72
- Chain B: I.112, I.119
7 PLIP interactions:5 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: A:W.27, A:F.40, A:V.47, A:V.51, B:I.112, B:I.119
- Hydrogen bonds: A:R.31
OLC.5: 11 residues within 4Å:- Chain A: A.39, Q.42, E.43, A.46, I.53, V.71, I.114, A.117, V.118, W.121, L.125
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:I.53, A:V.71, A:I.114, A:A.117, A:V.118, A:W.121, A:W.121, A:W.121, A:W.121, A:L.125
OLC.8: 14 residues within 4Å:- Chain A: A.22, A.23, S.26
- Chain B: A.39, E.43, A.46, I.53, E.78, N.81, S.107, V.110, L.111, W.121
- Ligands: OLC.9
8 PLIP interactions:1 interactions with chain A, 7 interactions with chain B- Hydrogen bonds: A:S.26, B:E.43, B:E.78, B:N.81
- Hydrophobic interactions: B:A.46, B:I.53, B:L.111, B:W.121
OLC.9: 9 residues within 4Å:- Chain A: I.19
- Chain B: Q.42, E.43, A.46, W.121, C.122, L.125, W.126
- Ligands: OLC.8
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:E.43, B:W.121, B:L.125, B:W.126
- Hydrogen bonds: B:Q.42
OLC.15: 11 residues within 4Å:- Chain B: R.18, I.19, A.22
- Chain C: A.39, Q.42, E.43, V.71, A.117, W.121, C.122
- Ligands: OLC.16
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:V.71, C:A.117, C:W.121, C:W.121
- Hydrogen bonds: C:Q.42
OLC.16: 14 residues within 4Å:- Chain B: A.22, A.23, S.26
- Chain C: E.78, N.81, S.107, V.110, L.111, I.114, I.115, V.118, I.119
- Ligands: ACP.14, OLC.15
8 PLIP interactions:7 interactions with chain C, 1 interactions with chain B- Hydrophobic interactions: C:L.111, C:I.114, C:I.115, C:V.118, C:I.119
- Hydrogen bonds: C:E.78, C:N.81, B:S.26
- 1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 2 x ZN: ZINC ION(Non-covalent)
- 1 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)
ACP.14: 16 residues within 4Å:- Chain B: R.18, Y.25
- Chain C: E.37, N.81, E.85, S.93, E.94, Y.95, H.96, S.99, G.100, K.103, D.104
- Ligands: ZN.12, ZN.13, OLC.16
7 PLIP interactions:6 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: C:N.81, C:E.94, C:H.96, C:D.104, B:R.18
- Water bridges: C:K.103
- Salt bridges: C:K.103
- 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: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-trimer
- Ligands
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 3 x ACT: ACETATE ION(Non-functional Binders)
- 6 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
- 1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 2 x ZN: ZINC ION(Non-covalent)
- 1 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)
- 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: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C - Membrane
-
We predict this structure to be a membrane protein.