SMTL ID : 4pqg.3 (2 other biounits)

Crystal structure of the pneumococcal O-GlcNAc transferase GtfA in complex with UDP and GlcNAc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

UDP.1: 17 residues within 4Å: Chain A: S.23, G.24, Y.27, R.336, K.341, Y.365, G.366, G.391, H.392, A.393, L.395, E.412, G.415, L.416, T.417, E.420 Ligands: NAG.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.395 Hydrogen bonds: A:G.24, A:V.25, A:A.393, A:A.393, A:G.415, A:L.416, A:T.417, A:E.420 Water bridges: A:H.392, A:L.418 Salt bridges: A:R.336, A:K.341, A:K.341 pi-Stacking: A:H.392 UDP.3: 18 residues within 4Å: Chain B: S.23, G.24, V.25, Y.27, R.336, K.341, Y.365, G.366, G.391, H.392, A.393, L.395, E.412, G.415, L.416, T.417, E.420 Ligands: NAG.4 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:L.395 Hydrogen bonds: B:G.24, B:V.25, B:A.393, B:A.393, B:E.412, B:G.415, B:L.416, B:T.417, B:E.420 Water bridges: B:Y.27, B:K.341, B:K.341, B:H.392, B:A.393, B:T.417, B:L.418 Salt bridges: B:R.336, B:K.341, B:K.341 pi-Stacking: B:H.392

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.2: 14 residues within 4Å: Chain A: G.24, V.25, A.28, H.250, A.251, V.313, E.340, S.411, E.412, G.413, F.414, G.415, L.416 Ligands: UDP.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:H.250, A:E.412, A:G.413, A:F.414, A:G.415, A:L.416 Water bridges: A:E.252, A:S.286 NAG.4: 13 residues within 4Å: Chain B: G.24, V.25, A.28, H.250, A.251, V.313, S.411, E.412, G.413, F.414, G.415, L.416 Ligands: UDP.3 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:E.412, B:E.412, B:G.413, B:F.414, B:G.415, B:L.416 Water bridges: B:E.252, B:S.286, B:S.286

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, W.W. et al., Structure of a Novel O-Linked N-Acetyl-d-glucosamine (O-GlcNAc) Transferase, GtfA, Reveals Insights into the Glycosylation of Pneumococcal Serine-rich Repeat Adhesins. J.Biol.Chem. (2014)

Release Date

2014-06-18

Peptides

Glycosyltransferase Gtf1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glycosyltransferase Gtf1

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