SMTL ID : 2ah9.2 (3 other biounits)

Crystal Structure of Human M340H-Beta-1,4-Galactosyltransferase-I (M340H-B4Gal-T1) in Complex with Chitotriose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG-NAG.1: 13 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, I.248 Ligands: GOL.4, SO4.9 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:R.244, A:F.245, A:I.248 Hydrogen bonds: A:Y.171, A:G.201, A:D.203, A:D.204, A:D.204, A:R.244 Water bridges: A:Y.174

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: MN.3, GOL.4 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, A:N.238 Water bridges: A:D.137, A:K.164, A:D.235 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 MN: MANGANESE (II) ION(Non-covalent)

MN.3: 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.1

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: R.113, W.199, G.200, E.202, D.203 Ligands: NAG-NAG-NAG.1, UDH.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:W.199, A:G.200, A:E.202 Water bridges: A:G.177, A:G.177, A:G.198, A:E.202 GOL.5: 3 residues within 4Å: Chain A: F.207, S.216, I.217 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.217 Water bridges: A:S.216 GOL.6: 4 residues within 4Å: Chain A: F.73, R.74, N.75, N.104 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.75, A:N.75, A:N.104 GOL.7: 5 residues within 4Å: Chain A: N.195, W.197, R.247, P.286, S.287 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.195, A:W.197, A:R.247, A:R.247, A:S.287, A:S.287, A:S.287

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

SO4.8: 2 residues within 4Å: Chain A: R.156, P.220 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.156 Salt bridges: A:R.156 SO4.9: 2 residues within 4Å: Ligands: NAG-NAG-NAG.1, NAG-NAG-NAG.1 No protein-ligand interaction detected (PLIP) SO4.10: 5 residues within 4Å: Chain A: E.33, F.34, N.35, R.228, R.231 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.34 Water bridges: A:R.231 Salt bridges: A:R.228, A:R.231 SO4.11: 4 residues within 4Å: Chain A: N.49, Y.56, P.58, R.59 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.49, A:Y.56, A:Y.56, A:R.59 Water bridges: A:D.60, A:D.60 Salt bridges: A:R.59 SO4.12: 2 residues within 4Å: Chain A: H.232, S.233 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.233 Water bridges: A:H.79, A:R.231 SO4.13: 4 residues within 4Å: Chain A: D.39, L.40, E.41, K.81 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.40, A:E.41 Salt bridges: A:K.81 SO4.14: 2 residues within 4Å: Chain A: S.233, R.234 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.234

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramasamy, V. et al., Oligosaccharide Preferences of beta1,4-Galactosyltransferase-I: Crystal Structures of Met340His Mutant of Human beta1,4-Galactosyltransferase-I with a Pentasaccharide and Trisaccharides of the N-Glycan Moiety. J.Mol.Biol. (2005)

Release Date

2005-10-04

Peptides

Beta-1,4-galactosyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-1,4-galactosyltransferase 1

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