SMTL ID : 1fgg.1

CRYSTAL STRUCTURE OF 1,3-GLUCURONYLTRANSFERASE I (GLCAT-I) COMPLEXED WITH GAL-GAL-XYL, UDP, AND MN2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x GAL- GAL: beta-D-galactopyranose-(1-3)-beta-D-galactopyranose(Non-covalent)

GAL-GAL.1: 12 residues within 4Å: Chain A: V.147, G.148, G.149, E.153, W.169, R.173, V.177, D.178, R.203, G.204, E.207 Chain B: Q.244 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:E.153, A:R.173, A:R.173, A:D.178 Water bridges: A:G.148, A:G.148, A:R.203, A:E.207

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

MN.2: 3 residues within 4Å: Chain A: D.122, R.236 Ligands: UDP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.122, A:D.122, H2O.1, H2O.1 MN.5: 3 residues within 4Å: Chain B: D.122, R.236 Ligands: UDP.6 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.122, B:D.122, H2O.5, H2O.5

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

UDP.3: 15 residues within 4Å: Chain A: P.8, T.9, Y.10, R.12, D.39, R.82, G.83, R.87, D.120, D.121, D.122, H.234, R.236 Ligands: MN.2, UNX.4 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:Y.10, A:R.12, A:R.12, A:D.39, A:D.121, A:D.121 Water bridges: A:T.65, A:G.83, A:D.120, A:D.120 Salt bridges: A:R.82, A:R.82, A:H.234, A:R.236, A:R.236 pi-Stacking: A:Y.10 UDP.6: 15 residues within 4Å: Chain B: P.8, T.9, Y.10, R.12, D.39, R.82, G.83, R.87, D.120, D.121, D.122, H.234, R.236 Ligands: MN.5, UNX.7 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:R.82 Hydrogen bonds: B:Y.10, B:R.12, B:R.12, B:D.39, B:D.120, B:D.121, B:D.121 Salt bridges: B:R.82, B:R.82, B:H.234, B:R.236, B:R.236 pi-Stacking: B:Y.10

2 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.4: 3 residues within 4Å: Chain A: D.178, H.234 Ligands: UDP.3 No protein-ligand interaction detected (PLIP) UNX.7: 3 residues within 4Å: Chain B: D.178, H.234 Ligands: UDP.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pedersen, L.C. et al., Heparan/chondroitin sulfate biosynthesis. Structure and mechanism of human glucuronyltransferase I. J.Biol.Chem. (2000)

Release Date

2001-01-31

Peptides

GLUCURONYLTRANSFERASE I: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GLUCURONYLTRANSFERASE I

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