SMTL ID : 3otk.1 (5 other biounits)

Structure and mechanisim of core 2 beta1,6-n-acetylglucosaminyltransferase: a Metal-ion independent gt-a glycosyltransferase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG-FUC.1: 4 residues within 4Å: Chain A: W.51, D.55, N.58, M.59 No protein-ligand interaction detected (PLIP)

2 x HTO: HEPTANE-1,2,3-TRIOL(Non-covalent)

HTO.2: 5 residues within 4Å: Chain A: L.77, T.78, K.79, E.80, R.194 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.78, A:K.79 Hydrogen bonds: A:K.79, A:E.80, A:E.80, A:R.194 HTO.3: 8 residues within 4Å: Chain A: Y.150, A.151, R.155, Y.279, S.280, D.282, E.283 Ligands: UDP.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.150, A:A.151, A:Y.279 Hydrogen bonds: A:A.151

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 3 residues within 4Å: Chain A: A.133, F.136, V.139 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.136

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

NAG.5: 3 residues within 4Å: Chain A: N.21, T.23, K.24 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.21

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

UDP.6: 12 residues within 4Å: Chain A: V.91, V.92, H.93, D.118, K.120, V.148, Y.150, R.155, S.180, R.341, K.364 Ligands: HTO.3 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:V.91, A:H.93, A:D.118, A:K.120, A:Y.150, A:R.341 Water bridges: A:H.94, A:Y.150, A:G.181, A:M.182, A:N.363 Salt bridges: A:R.341, A:K.364, A:K.364 pi-Stacking: A:H.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pak, J.E. et al., Structural and mechanistic characterization of leukocyte-type core 2 beta 1,6-N-acetylglucosaminyltransferase: a metal-ion-independent GT-A glycosyltransferase. J.Mol.Biol. (2011)

Release Date

2011-09-14

Peptides

Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase

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