SMTL ID : 1m5r.2 (1 other biounit)

Ternary complex of T4 phage BGT with UDP and a 13 mer DNA duplex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

UDP.1: 17 residues within 4Å: Chain C: V.18, G.187, G.188, S.189, R.191, R.195, F.213, G.214, K.237, I.238, M.240, V.243, Y.261, L.268, R.269, E.272 Ligands: TRS.2 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:F.213 Hydrogen bonds: C:S.189, C:I.238, C:I.238, C:E.272 Water bridges: C:D.100, C:D.100, C:Y.186, C:S.189, C:T.267, C:T.267, C:R.269, C:R.269 Salt bridges: C:R.191, C:R.191, C:R.195, C:R.269, C:R.269

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.2: 6 residues within 4Å: Chain C: V.18, E.22, T.99, D.100, R.191 Ligands: UDP.1 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:T.99, C:D.100, C:D.100, C:R.191 Water bridges: C:N.66, C:N.66, C:Q.137, C:Q.137, C:Q.137, C:L.268 TRS.3: 5 residues within 4Å: Chain C: N.57, Y.59, Y.90, K.91, S.92 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.57, C:D.60, C:K.91, C:S.92 TRS.4: 3 residues within 4Å: Chain C: I.238, M.242, Q.249 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.249 Water bridges: C:K.246, C:K.246, C:K.246

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 6 residues within 4Å: Chain C: K.180, T.181, L.182, D.183, N.209, K.314 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:K.180, C:N.209 Hydrogen bonds: C:K.314 MPD.6: 2 residues within 4Å: Chain C: Y.159, R.291 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lariviere, L. et al., A Base-flipping mechanism for the T4 phage beta-glucosyltransferase and identification of a transition state analog. J.Mol.Biol. (2002)

Release Date

2002-12-11

Peptides

DNA beta-glucosyltransferase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
B

DNA beta-glucosyltransferase

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