SMTL ID : 7scj.1

Cryo-EM structure of the human Exostosin-1 and Exostosin-2 heterodimer in complex with a 4-sugar oligosaccharide acceptor analog

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 6 residues within 4Å: Chain B: W.392, P.568, N.592, F.639, T.641, P.643 No protein-ligand interaction detected (PLIP)

1 x NDG- BDP- NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-BDP-NDG.2: 6 residues within 4Å: Chain A: L.140, S.141, W.174, Y.177, H.274, R.314 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.174, A:L.140 Hydrophobic interactions: A:R.314

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 2 residues within 4Å: Chain A: K.235, N.304 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.304

2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.4: 9 residues within 4Å: Chain A: K.241, K.243, Y.245, R.254, Y.293, Y.298, F.319, R.320, E.323 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.241, A:K.243, A:Y.245, A:Y.245, A:Y.293, A:E.323 Salt bridges: A:R.254, A:R.254, A:R.320 UDP.5: 7 residues within 4Å: Chain B: L.416, T.417, Y.418, R.420, N.472, L.474, D.495 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.418 Hydrogen bonds: B:L.416, B:T.417, B:N.472, B:N.472, B:D.495 Salt bridges: B:R.420

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Structural basis for heparan sulfate co-polymerase action by the EXT1-2 complex. Nat.Chem.Biol. (2023)

Release Date

2022-09-28

Peptides

Exostosin-1: A
Exostosin-2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Exostosin-1

Exostosin-2

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