SMTL ID : 5ggk.1 (1 other biounit)

Crystal structure of N-terminal domain of human protein O-mannose beta-1,2-N-acetylglucosaminyltransferase in complex with Man-beta-pNP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x MBE: 4-nitrophenyl beta-D-mannopyranoside(Non-covalent)

MBE.1: 8 residues within 4Å: Chain A: R.43, Y.66, D.93, E.94, W.120, R.121, W.148 Ligands: EDO.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.120, A:W.120 Hydrogen bonds: A:R.43, A:R.121, A:W.148 Water bridges: A:R.21, A:D.93, A:D.93 Salt bridges: A:R.121

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: K.23, Y.25, E.35 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.23, A:E.35 Water bridges: A:K.23, A:Y.25 GOL.3: 3 residues within 4Å: Chain A: T.32, E.35 Ligands: GOL.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.32

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

EDO.4: 4 residues within 4Å: Chain A: R.21, D.93, W.148 Ligands: MBE.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.21, A:R.21 EDO.5: 5 residues within 4Å: Chain A: E.40, Q.41, G.42, R.43, D.64 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.43 Water bridges: A:G.42, A:G.42, A:R.43, A:R.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuwabara, N. et al., Carbohydrate-binding domain of the POMGnT1 stem region modulates O-mannosylation sites of alpha-dystroglycan. Proc.Natl.Acad.Sci.USA (2016)

Release Date

2016-08-10

Peptides

Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1

Related Entries With Identical Sequence