SMTL ID : 6yjr.1 (1 other biounit)

Crystal structure of unliganded MGAT5 (alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase V) luminal domain.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 8 residues within 4Å: Chain A: K.231, R.232, Q.233, N.234, Y.259, K.379, L.382, N.383 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.383, A:L.382

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

NAG.2: 5 residues within 4Å: Chain A: N.220, S.221, S.222, D.223, R.287 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.222, A:S.222, A:R.287 Water bridges: A:N.220

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain A: Y.239, K.241, P.305, G.308, P.309, A.310, P.311 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.239, A:Y.239, A:A.310 EDO.4: 9 residues within 4Å: Chain A: P.203, H.204, E.307, P.352, Y.353, V.356, F.357, K.437, Q.441 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Darby, J.F. et al., Substrate Engagement and Catalytic Mechanisms of N-Acetylglucosaminyltransferase V. Acs Catalysis (2020)

Release Date

2020-08-05

Peptides

Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A

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