SMTL ID : 7jhm.1 (1 other biounit)

Structure of human beta 1,3-N-acetylglucosaminyltransferase 2 with N-acetyl-lactosamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 12 residues within 4Å: Chain A: C.69, E.70, R.88, D.91, F.92, Y.95, Y.101, Y.186, R.187, T.189, F.191, N.192 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.95, A:E.70, A:D.91, A:Y.101 Hydrophobic interactions: A:Y.101

1 x NAG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-GAL.2: 10 residues within 4Å: Chain A: I.249, H.250, N.251, A.252, H.255, Y.262, Y.273, Y.276, I.304, D.306 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.252 Hydrogen bonds: A:Y.276, A:D.306 Water bridges: A:H.255, A:H.255, A:Y.276, A:Y.276, A:G.279, A:D.306

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

NAG.3: 4 residues within 4Å: Chain A: N.67, C.69, N.100, Y.101 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.101 Hydrogen bonds: A:N.100 NAG.4: 1 residues within 4Å: Chain A: N.146 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.146

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.5: 3 residues within 4Å: Chain A: P.126, R.130, P.353 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hao, Y. et al., Structures and mechanism of human glycosyltransferase beta 1,3-N-acetylglucosaminyltransferase 2 (B3GNT2), an important player in immune homeostasis. J.Biol.Chem. (2020)

Release Date

2020-11-18

Peptides

N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase 2

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