SMTL ID : 1v83.1

Crystal structure of human GlcAT-P in complex with Udp and Mn2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 2 residues within 4Å: Chain A: D.116 Ligands: UDP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.116, A:D.116, H2O.1, H2O.1 MN.4: 4 residues within 4Å: Chain B: D.116, N.117, R.232 Ligands: UDP.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.116, B:D.116, H2O.7, H2O.7

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.2: 5 residues within 4Å: Chain A: R.150, R.159, W.160, H.167 Chain B: F.246 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.150, A:W.160, A:W.160 Salt bridges: A:R.150, A:R.150, A:H.167

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

UDP.3: 16 residues within 4Å: Chain A: P.10, T.11, Y.12, R.14, D.41, K.72, R.84, G.85, Q.88, R.89, D.114, D.115, D.116, H.230, R.232 Ligands: MN.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:R.84 Hydrogen bonds: A:R.14, A:R.14, A:D.41, A:K.72, A:R.84, A:R.89, A:D.115, A:D.115 Water bridges: A:N.117 Salt bridges: A:R.84, A:H.230, A:R.232, A:R.232 pi-Stacking: A:Y.12 UDP.5: 14 residues within 4Å: Chain B: P.10, T.11, Y.12, R.14, D.41, R.84, G.85, R.89, D.114, D.115, D.116, H.230, R.232 Ligands: MN.4 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:R.84 Hydrogen bonds: B:R.14, B:R.14, B:D.41, B:D.41, B:R.84, B:D.115, B:D.115 Water bridges: B:R.84, B:Q.88, B:N.117 Salt bridges: B:R.84, B:H.230, B:R.232, B:R.232 pi-Stacking: B:Y.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kakuda, S. et al., Structural Basis for Acceptor Substrate Recognition of a Human Glucuronyltransferase, GlcAT-P, an Enzyme Critical in the Biosynthesis of the Carbohydrate Epitope HNK-1. J.Biol.Chem. (2004)

Release Date

2004-05-25

Peptides

Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 1

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