SMTL ID : 3v0o.1

Crystal structure of the Fucosylgalactoside alpha N-acetylgalactosaminyltransferase (GTA, cisAB mutant L266G, G268A) in complex with a novel UDP-GalNAc derived inhibitor (4GW) and H-antigen acceptor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 3 residues within 4Å: Chain A: D.155, D.157 Ligands: 4GW.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.155, A:D.157, A:D.157, H2O.6 MN.5: 4 residues within 4Å: Chain B: D.155, D.157, K.290 Ligands: 4GW.6 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.155, B:D.157, B:D.157, H2O.14

2 x 4GW: 5-(5-formylthiophen-2-yl)uridine 5'-(trihydrogen diphosphate)(Non-covalent)

4GW.2: 15 residues within 4Å: Chain A: F.65, A.66, I.67, Y.70, W.125, V.128, R.132, D.155, V.156, D.157, K.290, A.294, V.295 Ligands: MN.1, BHE.3 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:W.125 Hydrogen bonds: A:F.65, A:F.65, A:I.67, A:I.67, A:Y.70, A:R.132, A:V.156, A:D.157, A:V.295 Water bridges: A:Y.70, A:S.129, A:K.290, A:K.290 Salt bridges: A:K.290, A:K.290 pi-Stacking: A:Y.70 4GW.6: 14 residues within 4Å: Chain B: F.65, A.66, I.67, K.68, Y.70, W.125, V.128, R.132, D.155, V.156, D.157, K.290 Ligands: MN.5, BHE.7 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:W.125 Hydrogen bonds: B:F.65, B:F.65, B:I.67, B:I.67, B:Y.70, B:V.156, B:D.157, B:D.157 Water bridges: B:Y.70, B:R.132, B:K.290, B:K.290 Salt bridges: B:K.290, B:K.290 pi-Stacking: B:Y.70

2 x BHE: octyl 2-O-(6-deoxy-alpha-L-galactopyranosyl)-beta-D-galactopyranoside(Non-covalent)

BHE.3: 12 residues within 4Å: Chain A: H.177, G.179, F.180, T.189, Y.208, W.244, E.247, D.270, L.273, A.287, K.290 Ligands: 4GW.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.180, A:D.270, A:L.273 Hydrogen bonds: A:T.189, A:E.247, A:K.290, A:K.290 Water bridges: A:D.270 Salt bridges: A:H.177, A:H.177 BHE.7: 11 residues within 4Å: Chain B: H.177, G.179, F.180, T.189, Y.208, W.244, E.247, D.270, L.273, K.290 Ligands: 4GW.6 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:F.180, B:F.180, B:D.270, B:L.273 Hydrogen bonds: B:T.189, B:T.189, B:E.247, B:D.270, B:D.270, B:K.290, B:K.290 Salt bridges: B:H.177, B:H.177

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: R.54, N.57, R.90 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.57 Water bridges: A:R.90 Salt bridges: A:R.54, A:R.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jrgensen, R. et al., Base-modified donor analogues reveal novel dynamic features of a glycosyltransferase. J.Biol.Chem. (2013)

Release Date

2013-01-23

Peptides

Histo-blood group ABO system transferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histo-blood group ABO system transferase

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