- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x 58A: 5'-O-[(R)-{[(S)-{(2R)-2,3-bis[(9E)-octadec-9-enoyloxy]propoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine(Non-covalent)
58A.3: 26 residues within 4Å:- Chain A: P.24, N.25, T.28, I.71, S.74, L.75, D.77, F.78, D.80, G.81, R.85, V.90, G.94, K.95, D.98, D.102, K.155, A.159, M.162, V.163, T.166, I.185, L.186
- Ligands: ZN.1, ZN.2, ACY.11
15 PLIP interactions:15 interactions with chain A- Hydrophobic interactions: A:I.71, A:L.75, A:K.155, A:A.159, A:V.163, A:T.166, A:I.185, A:L.186
- Hydrogen bonds: A:N.25, A:T.28, A:G.81
- Salt bridges: A:R.85, A:K.155, A:K.155, A:K.155
58A.14: 26 residues within 4Å:- Chain B: P.24, N.25, T.28, I.71, S.74, L.75, D.77, F.78, D.80, G.81, A.84, R.85, V.90, G.94, K.95, D.98, D.102, K.155, A.159, M.162, V.163, T.166, L.182, L.186
- Ligands: ZN.12, ZN.13
15 PLIP interactions:15 interactions with chain B- Hydrophobic interactions: B:I.71, B:L.75, B:F.78, B:A.84, B:A.159, B:V.163, B:V.163, B:T.166, B:L.182, B:L.186
- Hydrogen bonds: B:T.28, B:R.85, B:D.98
- Salt bridges: B:K.155, B:K.155
- 5 x G3P: SN-GLYCEROL-3-PHOSPHATE(Non-covalent)(Non-functional Binders)
G3P.4: 2 residues within 4Å:- Chain A: Q.184, Y.188
No protein-ligand interaction detected (PLIP)G3P.7: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)G3P.8: 1 residues within 4Å:- Chain A: I.192
No protein-ligand interaction detected (PLIP)G3P.9: 2 residues within 4Å:- Chain A: L.75, V.79
No protein-ligand interaction detected (PLIP)G3P.26: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)- 3 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
OLC.5: 3 residues within 4Å:- Chain A: L.153, F.193, L.196
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:L.153, A:F.193, A:L.196
OLC.16: 9 residues within 4Å:- Chain A: L.97, L.100, L.104
- Chain B: A.129, R.130, A.133, G.198, I.199, F.202
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: A:L.97, A:L.100, A:L.104, B:A.129, B:A.133
OLC.17: 2 residues within 4Å:- Chain B: I.156, F.193
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:I.156, B:F.193, B:F.193
- 10 x BU1: 1,4-BUTANEDIOL(Non-functional Binders)
BU1.6: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)BU1.15: 1 residues within 4Å:- Chain B: L.72
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:L.72
BU1.18: 1 residues within 4Å:- Chain B: V.90
No protein-ligand interaction detected (PLIP)BU1.19: 2 residues within 4Å:- Chain B: N.50, E.58
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.50
BU1.20: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)BU1.21: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)BU1.22: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)BU1.23: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)BU1.24: 2 residues within 4Å:- Chain B: D.45, G.47
No protein-ligand interaction detected (PLIP)BU1.25: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)- 2 x ACY: ACETIC ACID(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yang, B. et al., The phosphatidylglycerol phosphate synthase PgsA utilizes a trifurcated amphipathic cavity for catalysis at the membrane-cytosol interface. Curr Res Struct Biol (2021)
- Release Date
- 2021-12-08
- Peptides
- CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x 58A: 5'-O-[(R)-{[(S)-{(2R)-2,3-bis[(9E)-octadec-9-enoyloxy]propoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine(Non-covalent)
- 5 x G3P: SN-GLYCEROL-3-PHOSPHATE(Non-covalent)(Non-functional Binders)
- 3 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)
- 10 x BU1: 1,4-BUTANEDIOL(Non-functional Binders)
- 2 x ACY: ACETIC ACID(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yang, B. et al., The phosphatidylglycerol phosphate synthase PgsA utilizes a trifurcated amphipathic cavity for catalysis at the membrane-cytosol interface. Curr Res Struct Biol (2021)
- Release Date
- 2021-12-08
- Peptides
- CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B - Membrane
-
We predict this structure to be a membrane protein.