SMTL ID : 3u0y.1 (1 other biounit)

Crystal structure of the Fucosylgalactoside alpha N-acetylgalactosaminyltransferase (GTA, cisAB mutant L266G, G268A) in complex with compound 382 and UDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x GTI: 1-(3-phenyl-1,2,4-thiadiazol-5-yl)piperazine(Non-covalent)

GTI.1: 15 residues within 4Å: Chain A: D.155, D.157, M.158, H.177, P.178, G.179, A.212, W.269, D.270, L.273, L.274, A.287 Ligands: UDP.2, GOL.3, MN.5 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.178, A:L.273, A:L.274 pi-Stacking: A:H.177 GTI.9: 13 residues within 4Å: Chain B: D.155, D.157, M.158, H.177, P.178, A.212, W.269, D.270, L.273, L.274 Ligands: UDP.7, MN.8, GOL.10 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.178, B:L.273, B:L.274 Water bridges: B:D.270, B:D.270 pi-Stacking: B:H.177

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

UDP.2: 12 residues within 4Å: Chain A: F.65, A.66, I.67, K.68, Y.70, V.128, R.132, D.155, V.156, D.157 Ligands: GTI.1, MN.5 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.128 Hydrogen bonds: A:F.65, A:F.65, A:I.67, A:I.67, A:Y.70, A:Y.70, A:V.156, A:D.157, A:D.157 Water bridges: A:R.132 pi-Stacking: A:Y.70 UDP.7: 12 residues within 4Å: Chain B: F.65, A.66, I.67, Y.70, V.128, S.129, R.132, D.155, V.156, D.157 Ligands: MN.8, GTI.9 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.128 Hydrogen bonds: 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 pi-Stacking: B:Y.70

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: H.177, F.180, T.189, Y.208, W.244, E.247 Ligands: GTI.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.189, A:E.247 GOL.10: 7 residues within 4Å: Chain B: H.177, F.180, T.189, Y.208, W.244, E.247 Ligands: GTI.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.189, B:T.189, B:E.247 GOL.11: 3 residues within 4Å: Chain B: Q.56, N.57, D.149 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.56 Water bridges: B:N.57

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

SO4.4: 3 residues within 4Å: Chain A: R.120, Y.122, K.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.123 Salt bridges: A:R.120 SO4.6: 2 residues within 4Å: Chain A: T.110, G.111 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.111 Water bridges: A:L.108, A:G.109

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

MN.5: 4 residues within 4Å: Chain A: D.155, D.157 Ligands: GTI.1, UDP.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.155, A:D.157, A:D.157 MN.8: 4 residues within 4Å: Chain B: D.155, D.157 Ligands: UDP.7, GTI.9 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.155, B:D.157, B:D.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jorgensen, R. et al., A novel compound from a molecular fragment library screen inhibits glycosyltransferases by displacing the metal ion and interfering with substrate binding. To be Published

Release Date

2012-10-24

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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