SMTL ID : 7jhi.2 (3 other biounits)

Structure of human beta 1,3-N-acetylglucosaminyltransferase 2 iodide-derivative

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 11 residues within 4Å: Chain A: C.83, R.102, D.105, F.106, Y.109, Y.115, Y.200, R.201, T.203, F.205, N.206 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.115 Hydrogen bonds: A:D.105, A:Y.115

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.234, H.363 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.363, H2O.1, H2O.4

12 x IOD: IODIDE ION(Non-functional Binders)

IOD.3: 1 residues within 4Å: Chain A: K.128 Ligand excluded by PLIP IOD.4: 1 residues within 4Å: Chain A: Y.245 Ligand excluded by PLIP IOD.5: 1 residues within 4Å: Chain A: N.238 Ligand excluded by PLIP IOD.6: 4 residues within 4Å: Chain A: E.49, K.52, R.88, V.92 Ligand excluded by PLIP IOD.7: 3 residues within 4Å: Chain A: K.52, Q.56, R.111 Ligand excluded by PLIP IOD.8: 2 residues within 4Å: Chain A: D.101, R.102 Ligand excluded by PLIP IOD.9: 3 residues within 4Å: Chain A: H.141, A.143, R.144 Ligand excluded by PLIP IOD.10: 1 residues within 4Å: Chain A: T.172 Ligand excluded by PLIP IOD.11: 1 residues within 4Å: Chain A: Q.146 Ligand excluded by PLIP IOD.12: 1 residues within 4Å: Chain A: R.201 Ligand excluded by PLIP IOD.13: 4 residues within 4Å: Chain A: L.117, R.216, W.217, T.220 Ligand excluded by PLIP IOD.14: 2 residues within 4Å: Chain A: R.341, D.358 Ligand excluded by PLIP

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
B

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

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