SMTL ID : 5zlv.1 (1 other biounit)

DNA polymerase IV - DNA ternary complex with 50mM MgCl2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 7 residues within 4Å: Chain A: D.9, M.10, D.104 Chain C: T.19 Ligands: MG.2, PO4.3, PO4.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.9, A:M.10, A:D.104 MG.2: 6 residues within 4Å: Chain A: D.9, D.104, E.105 Chain C: C.18, T.19 Ligands: MG.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.104, A:E.105, H2O.1 MG.5: 2 residues within 4Å: Chain C: T.19 Ligands: PO4.3 No protein-ligand interaction detected (PLIP)

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 10 residues within 4Å: Chain A: M.10, C.12, F.13, T.44, R.50, D.104 Chain C: T.19 Ligands: MG.1, PO4.4, MG.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:C.12, A:F.13, A:T.44 Salt bridges: A:R.50 PO4.4: 10 residues within 4Å: Chain A: D.9, M.10, D.11, C.12, Y.47, R.50, K.158 Chain C: T.19 Ligands: MG.1, PO4.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.9, A:M.10, A:C.12, A:Y.47 Water bridges: A:D.11 Salt bridges: A:R.50, A:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kottur, J. et al., Pyrophosphate hydrolysis is an intrinsic and critical step of the DNA synthesis reaction. Nucleic Acids Res. (2018)

Release Date

2018-11-07

Peptides

DNA polymerase IV: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

DNA polymerase IV

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