SMTL ID : 4f4x.1

Y-family DNA polymerase chimera Dbh-Dpo4-Dpo4 #2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.1: 2 residues within 4Å: Chain A: D.295 Chain B: C.10 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.295 CA.2: 6 residues within 4Å: Chain A: D.7, F.8, D.105, K.160 Ligands: CA.3, DCP.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.7, A:F.8, A:D.105, A:D.105 CA.3: 6 residues within 4Å: Chain A: D.7, D.105, E.106 Chain B: C.14 Ligands: CA.2, DCP.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.7, A:D.105, A:E.106, H2O.2 CA.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)

DCP.4: 19 residues within 4Å: Chain A: D.7, F.8, D.9, Y.10, F.11, F.12, A.44, T.45, Y.48, R.51, A.57, G.58, D.105, K.160 Chain B: G.13, C.14 Chain C: G.5 Ligands: CA.2, CA.3 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.12, A:A.57 Hydrogen bonds: A:F.8, A:Y.10, A:F.11, A:F.12, A:T.45, A:Y.48, A:D.105 Water bridges: A:T.45, A:T.45, A:A.57 Salt bridges: A:R.51, A:R.51, A:K.160

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wilson, R.C. et al., Y-family polymerase conformation is a major determinant of fidelity and translesion specificity. Structure (2013)

Release Date

2013-01-02

Peptides

DNA polymerase IV: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase IV

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