SMTL ID : 4gc7.2 (1 other biounit)

Crystal structure of Dpo4 in complex with S-MC-dADP opposite dT

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.89 Å

Oligo State

monomer

Ligands

1 x 0OJ: South-methanocarba-2'-deoxyadenosine triphosphate(Non-covalent)

0OJ.1: 15 residues within 4Å: Chain A: D.14, Y.17, F.18, Y.19, A.51, T.52, R.58, A.64, D.112, K.166 Chain B: C.14 Chain C: T.4, G.5 Ligands: CA.2, CA.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.17, A:F.18, A:T.52, A:T.52 Salt bridges: A:R.58, A:R.58, A:K.166

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.14, F.15, D.112 Ligands: 0OJ.1, CA.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.14, A:F.15, A:D.112, H2O.1 CA.3: 3 residues within 4Å: Chain A: D.301 Chain B: G.9, A.10 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.301 CA.4: 2 residues within 4Å: Chain A: A.188, I.193 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.188 CA.5: 6 residues within 4Å: Chain A: D.14, D.112, E.113 Chain B: C.14 Ligands: 0OJ.1, CA.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ketkar, A. et al., Differential furanose selection in the active sites of archaeal DNA polymerases probed by fixed-conformation nucleotide analogues. Biochemistry (2012)

Release Date

2012-10-24

Peptides

DNA polymerase IV: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA polymerase IV

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