SMTL ID : 3ee5.3 (2 other biounits)

Crystal structure of human M340H-Beta1,4-Galactosyltransferase-I (M340H-B4GAL-T1) in complex with GLCNAC-Beta1,3-Gal-Beta-Naphthalenemethanol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x GAL- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose(Non-covalent)

GAL-NAG.1: 12 residues within 4Å: Chain A: F.165, Y.171, Y.174, W.199, G.200, G.201, D.203, D.204, R.244, F.245 Ligands: 2NA.3, GOL.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.245 Hydrogen bonds: A:G.201, A:D.203, A:D.204, A:D.204, A:R.244 Water bridges: A:G.177

1 x UDH: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSPHATE(Non-covalent)

UDH.2: 17 residues within 4Å: Chain A: P.72, F.73, R.74, R.76, F.111, D.137, V.138, D.139, K.164, W.199, H.229, H.232, R.234, D.235, N.238 Ligands: GOL.4, MN.9 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:R.234 Hydrogen bonds: A:P.72, A:R.74, A:R.74, A:R.76, A:V.138, A:D.139, A:D.235, A:D.235 Water bridges: A:R.74, A:D.137, A:K.164, A:K.164 Salt bridges: A:R.76, A:K.164, A:H.232, A:H.232 pi-Stacking: A:F.111 pi-Cation interactions: A:R.76

1 x 2NA: naphthalen-2-ylmethanol(Non-covalent)

2NA.3: 3 residues within 4Å: Chain A: Y.171, Q.173 Ligands: GAL-NAG.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.171

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain A: R.113, D.137, G.177, W.199, G.200, E.202, D.203 Ligands: GAL-NAG.1, UDH.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.177, A:W.199, A:G.200 Water bridges: A:G.198, A:G.200

1 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.5: 5 residues within 4Å: Chain A: N.195, W.197, R.247, P.286, S.287 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.287

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 6 residues within 4Å: Chain A: K.126, L.263, T.264, Y.265, Q.266, V.267 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.126, A:Y.265, A:Y.265 Water bridges: A:Q.122 Salt bridges: A:E.123

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

SO4.7: 4 residues within 4Å: Chain A: E.33, F.34, N.35, R.228 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.34, A:N.35 Salt bridges: A:R.228 SO4.8: 2 residues within 4Å: Chain A: H.232, S.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.233

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

MN.9: 4 residues within 4Å: Chain A: D.139, H.229, H.232 Ligands: UDH.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.139, A:H.229, A:H.232, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brown, J.R. et al., Deoxygenated Disaccharide Analogs as Specific Inhibitors of {beta}1-4-Galactosyltransferase 1 and Selectin-mediated Tumor Metastasis. J.Biol.Chem. (2009)

Release Date

2009-01-06

Peptides

Beta-1,4-galactosyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Beta-1,4-galactosyltransferase 1

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