SMTL ID : 3cxm.1

Leishmania naiffi uracil-DNA glycosylase in complex with 5-bromouracil

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x BR: BROMIDE ION(Non-covalent)

BR.1: 3 residues within 4Å: Chain A: P.123, P.124, S.125 Ligand excluded by PLIP

1 x URB: 5-bromopyrimidine-2,4(1H,3H)-dione(Non-covalent)

URB.2: 9 residues within 4Å: Chain A: G.99, Q.100, D.101, Y.103, C.113, F.114, N.160, H.226 Ligands: URA.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Q.100, A:Y.103, A:F.114, A:N.160, A:N.160 Water bridges: A:D.101, A:D.101, A:Y.103, A:Y.103 pi-Stacking: A:Y.103, A:F.114

1 x URA: URACIL(Non-covalent)

URA.3: 8 residues within 4Å: Chain A: G.99, Q.100, D.101, Y.103, C.113, F.114, N.160 Ligands: URB.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Q.100, A:Y.103, A:F.114, A:N.160, A:N.160 Water bridges: A:D.101, A:D.101, A:Y.103, A:Y.103 pi-Stacking: A:Y.103, A:F.114

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: L.255, P.256, H.258 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.154, A:M.257, A:H.258

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Larson, E.T. et al., Structures of Leishmania naiffi uracil-DNA glycosylase in complex with several ligands identified with fragment cocktail crystallography. To be Published

Release Date

2008-05-06

Peptides

Uracil-DNA glycosylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Uracil-DNA glycosylase