SMTL ID : 2d3y.1

Crystal structure of uracil-DNA glycosylase from Thermus Thermophilus HB8

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 6 residues within 4Å: Chain A: A.59, P.60, S.65, P.71, F.72, A.111 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.72, A:A.111 Hydrogen bonds: A:S.65, A:F.72 Water bridges: A:G.61, A:S.65 ACT.2: 6 residues within 4Å: Chain A: G.151, R.152, F.171, Y.189, H.190, N.195 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.152, A:H.190 Water bridges: A:I.153 Salt bridges: A:H.190

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.3: 13 residues within 4Å: Chain A: L.10, C.13, L.15, C.16, L.19, R.23, P.42, V.113, R.114, C.115, A.129, C.130, W.133 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.13, A:C.16, A:C.115, A:C.130

1 x DU: 2'-DEOXYURIDINE-5'-MONOPHOSPHATE(Non-covalent)

DU.4: 7 residues within 4Å: Chain A: F.46, G.47, D.48, D.101, L.102, R.103, L.104 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.46 Hydrogen bonds: A:R.103, A:L.104, A:L.104 Water bridges: A:G.47, A:G.47, A:R.70, A:G.106 Salt bridges: A:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kosaka, H. et al., Crystal structure of family 5 uracil-DNA glycosylase bound to DNA. J.Mol.Biol. (2007)

Release Date

2006-10-17

Peptides

uracil-DNA glycosylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

uracil-DNA glycosylase

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