SMTL ID : 6h6o.1

UbiJ-SCP2 Ubiquinone synthesis protein

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x LMR: (2S)-2-hydroxybutanedioic acid(Non-covalent)

LMR.1: 2 residues within 4Å: Chain A: Y.85 Chain B: Y.85 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.87 LMR.3: 4 residues within 4Å: Chain A: A.78, D.79, G.111, D.112 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.78, A:D.79, A:D.112 Water bridges: A:D.112

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 7 residues within 4Å: Chain A: K.53, I.83, A.84, Y.85, G.105, E.106, E.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.108 Water bridges: A:E.106 PEG.9: 6 residues within 4Å: Chain B: N.27, T.28, Y.31, R.32, R.66, Q.67 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.27 PEG.10: 4 residues within 4Å: Chain B: V.47, D.77, A.78, D.79 No protein-ligand interaction detected (PLIP)

7 x CA: CALCIUM ION(Non-covalent)

CA.4: 1 residues within 4Å: Chain A: D.79 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.79, A:D.79, H2O.1, H2O.2 CA.5: 3 residues within 4Å: Chain A: A.126, D.129, A.131 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:A.126, A:D.129, A:A.131, H2O.1, H2O.1, H2O.4 CA.6: 3 residues within 4Å: Chain A: R.93, D.124, E.127 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:R.93, A:D.124, A:E.127, H2O.3, H2O.3 CA.7: 2 residues within 4Å: Chain A: E.23, D.69 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.69, H2O.1, H2O.2, H2O.3, H2O.4 CA.8: 1 residues within 4Å: Chain A: D.77 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.77, A:D.77 CA.11: 3 residues within 4Å: Chain B: D.124, E.127, D.129 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.124, B:D.124, B:E.127, B:D.129, H2O.5 CA.12: 1 residues within 4Å: Chain B: R.42 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hajj Chehade, M. et al., A Soluble Metabolon Synthesizes the Isoprenoid Lipid Ubiquinone. Cell Chem Biol (2019)

Release Date

2019-02-13

Peptides

Ubiquinone biosynthesis protein UbiJ: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ubiquinone biosynthesis protein UbiJ

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