SMTL ID : 5lwv.1

Human OGT in complex with UDP and fused substrate peptide (HCF1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

UDP.1: 16 residues within 4Å: Chain A: P.272, N.551, Q.552, K.555, L.579, F.581, V.608, A.609, K.611, H.614, R.617, G.632, H.633, T.634, T.635, D.638 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:L.579, A:F.581 Hydrogen bonds: A:N.551, A:Q.552, A:A.609, A:A.609, A:K.611, A:H.614, A:H.614, A:R.617, A:H.633, A:T.634, A:T.635, A:T.635 Water bridges: A:H.275, A:K.555, A:K.555, A:H.633, A:T.634, A:T.634 Salt bridges: A:K.555, A:K.555, A:H.633 pi-Stacking: A:H.614

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: G.78, K.79, L.80, Q.81, E.82 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.79, A:L.80, A:Q.81, A:E.82 Water bridges: A:E.82

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 3 residues within 4Å: Chain A: R.41, R.204, L.205 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.205 Water bridges: A:R.41, A:Q.76 Salt bridges: A:R.41, A:R.204 PO4.4: 2 residues within 4Å: Chain A: N.675, R.676 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.676 Water bridges: A:Q.677 Salt bridges: A:R.676

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rafie, K. et al., Recognition of a glycosylation substrate by the O-GlcNAc transferase TPR repeats. Open Biol (2017)

Release Date

2017-07-12

Peptides

Host cell factor 1,UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Host cell factor 1,UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit