SMTL ID : 1n56.2 (1 other biounit)

Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: A.14 Chain C: D.7, D.105, E.106 Ligands: MG.2, ATP.3 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.7, C:D.105, C:E.106, H2O.10

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain C: D.7, F.8, D.105 Ligands: CA.1, ATP.3 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.7, C:D.7, C:D.105, H2O.8, H2O.9

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 18 residues within 4Å: Chain A: A.14 Chain B: T.4 Chain C: D.7, F.8, D.9, Y.10, F.11, Y.12, A.44, T.45, Y.48, R.51, A.57, G.58, D.105, K.159 Ligands: CA.1, MG.2 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:Y.12 Hydrogen bonds: C:D.9, C:Y.10, C:F.11, C:Y.12, C:T.45, C:Y.48, C:Y.48 Water bridges: C:D.7, C:D.7, C:A.46, C:D.105 Salt bridges: C:R.51, C:R.51, C:K.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ling, H. et al., Snapshots of replication through an abasic lesion; structural basis for base substitutions and frameshifts. Mol.Cell (2004)

Release Date

2004-02-24

Peptides

DNA polymerase IV: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
B

DNA polymerase IV

Related Entries With Identical Sequence