SMTL ID : 1xv5.1

alpha-glucosyltransferase (AGT) in complex with UDP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

monomer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 6 residues within 4Å: Chain A: E.13, G.14, C.15, G.16, V.17, T.18 Ligand excluded by PLIP

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

UDP.2: 21 residues within 4Å: Chain A: G.14, C.15, G.16, K.19, R.47, S.50, H.51, G.204, R.205, K.210, G.234, C.275, Y.276, N.278, M.281, E.307, Y.308, T.309, E.312 Ligands: EDO.3, GOL.6 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:G.16, A:R.47, A:S.50, A:Y.276, A:Y.276, A:Y.276, A:Y.276, A:N.278, A:Y.308, A:T.309, A:E.312 Water bridges: A:H.115, A:R.205, A:T.309 Salt bridges: A:R.205, A:K.210, A:K.210 pi-Stacking: A:Y.276

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain A: C.15, G.16, V.17, D.116, R.205 Ligands: UDP.2, GOL.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.16, A:V.17, A:D.116 Water bridges: A:D.116, A:D.116, A:R.205 EDO.4: 4 residues within 4Å: Chain A: R.304, R.333, E.394 Ligands: EDO.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.304, A:R.333 EDO.5: 3 residues within 4Å: Chain A: R.333, F.390 Ligands: EDO.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.333, A:R.333 Water bridges: A:Q.384

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain A: G.16, H.115, H.141, F.175, P.177, E.307 Ligands: UDP.2, EDO.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.115 Water bridges: A:H.115, A:H.117, A:L.306 GOL.7: 5 residues within 4Å: Chain A: W.27, N.31, H.33, K.393, F.396 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.31, A:H.33 Water bridges: A:S.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lariviere, L. et al., Structural evidence of a passive base-flipping mechanism for AGT, an unusual GT-B glycosyltransferase. J.Mol.Biol. (2005)

Release Date

2005-08-30

Peptides

DNA alpha-glucosyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA alpha-glucosyltransferase