SMTL ID : 7yp3.4 (3 other biounits)

Crystal structure of elaiophylin glycosyltransferase in complex with elaiophylin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

1 x ELO: Elaiophylin(Non-covalent)

ELO.1: 26 residues within 4Å: Chain A: E.30, S.32, H.33, T.36, S.89, L.90, N.92, L.94, S.95, W.97, M.112, V.116, S.117, F.120, A.121, Y.122, Y.125, V.150, W.170, Y.175, H.339, G.341, F.342, Y.362, A.363, W.365 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.94, A:V.116, A:F.120, A:A.121, A:Y.122, A:V.150, A:W.170, A:Y.175, A:A.363, A:W.365 Hydrogen bonds: A:S.32, A:N.92, A:N.92, A:Y.125, A:F.342, A:Y.362 Water bridges: A:G.343, A:A.363, A:A.363 Salt bridges: A:H.33

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 4 residues within 4Å: Chain A: T.229, Q.232, L.233, P.234 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Q.232 Water bridges: A:L.233, A:L.235, A:R.239, A:R.239 Salt bridges: A:R.239 ACT.3: 4 residues within 4Å: Chain A: H.422 Chain B: H.422, P.426 Ligands: ACT.8 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:H.422, B:H.422 Hydrophobic interactions: B:P.426 ACT.4: 5 residues within 4Å: Chain A: A.47, E.429 Chain B: H.422, D.423 Ligands: ACT.8 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.429 Salt bridges: B:H.422 ACT.8: 5 residues within 4Å: Chain A: H.422, P.426 Chain B: H.422 Ligands: ACT.3, ACT.4 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:H.422, B:H.422 ACT.9: 4 residues within 4Å: Chain A: H.422, D.423 Chain B: A.47, E.429 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:H.422 Hydrogen bonds: B:A.47 ACT.10: 4 residues within 4Å: Chain B: T.229, Q.232, L.233, P.234 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.229, B:P.234 Hydrogen bonds: B:Q.232 Water bridges: B:L.235, B:L.235, B:L.235, B:L.235 Salt bridges: B:R.239

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: W.42, A.45, H.49, E.50, V.51, G.67, L.68, T.69 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.49, A:V.51, A:V.51, A:T.69, A:T.69, B:H.247 GOL.6: 3 residues within 4Å: Chain A: S.236, L.237, R.238 No protein-ligand interaction detected (PLIP) GOL.7: 2 residues within 4Å: Chain A: H.131, Y.209 No protein-ligand interaction detected (PLIP) GOL.11: 9 residues within 4Å: Chain A: P.246, H.247 Chain B: W.42, H.49, E.50, V.51, G.67, L.68, T.69 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.51, B:V.51, B:T.69, A:H.247 GOL.12: 6 residues within 4Å: Chain A: P.72, V.73, Y.136 Chain B: I.253, D.255, R.258 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.258, B:R.258

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, T. et al., Substrate-induced dimerization of elaiophylin glycosyltransferase reveals a novel self-activating form of glycosyltransferase for symmetric glycosylation. Acta Crystallogr D Struct Biol (2022)

Release Date

2022-11-02

Peptides

Glycosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

Glycosyltransferase

Related Entries With Identical Sequence