SMTL ID : 2ozm.1

Crystal structure of RB69 gp43 in complex with DNA with 5-NITP opposite an abasic site analog

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain C: D.411, L.412, D.623 Ligands: N5P.2 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.411, C:L.412, C:D.623

1 x N5P: 1-{2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}PHOSPHORYL]-BETA-D-ERYTHRO-PENTOFURANOSYL}-5-NITRO -1H-INDOLE(Non-covalent)

N5P.2: 18 residues within 4Å: Chain A: N.3, C.4 Chain B: G.14 Chain C: D.411, L.412, T.413, S.414, L.415, Y.416, R.482, K.486, K.560, N.564, Y.567, G.568, T.622, D.623 Ligands: MG.1 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:Y.416, C:Y.567 Hydrogen bonds: C:S.414, C:L.415, C:Y.416, C:N.564, C:S.565, C:D.623 Water bridges: C:D.411, C:L.412, C:K.560 Salt bridges: C:R.482, C:K.486, C:K.560, C:K.560, C:K.560

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zahn, K.E. et al., Caught Bending the A-Rule: crystal structures of translesion DNA synthesis with a non-natural nucleotide. Biochemistry (2007)

Release Date

2007-10-23

Peptides

DNA polymerase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA polymerase

Related Entries With Identical Sequence