SMTL ID : 9ggc.1

Structure of the G848S mutant of human mitochondrial DNA polymerase gamma

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.872, V.873, D.1117 Ligands: DCP.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.872, A:D.872, A:V.873, A:D.1117

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

DCP.2: 17 residues within 4Å: Chain A: R.835, D.872, V.873, D.874, S.875, Q.876, E.877, H.914, R.925, K.929, I.930, Y.933, D.1117 Chain D: C.25 Chain E: G.15, G.16 Ligands: CA.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:E.877, A:Y.933 Hydrogen bonds: A:R.835, A:S.875, A:Q.876, A:E.877, A:Y.933, A:Y.933, A:Y.933 Salt bridges: A:K.907, A:H.914, A:R.925, A:K.929, A:K.929, A:K.929

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Valenzuela, S. et al., Small molecules restore mutant mitochondrial DNA polymerase activity. Nature (2025)

Release Date

2025-04-16

Peptides

DNA polymerase subunit gamma-1: A
DNA polymerase subunit gamma-2: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

DNA polymerase subunit gamma-1

DNA polymerase subunit gamma-2

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