SMTL ID : 9b8t.1

Human polymerase epsilon bound to PCNA and DNA in the nucleotide bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-mer

Ligands

1 x TTP: THYMIDINE-5'-TRIPHOSPHATE

TTP.1: 18 residues within 4Å: Chain A: Y.416, D.626, V.627, G.628, A.629, M.630, Y.631, P.632, R.765, K.769, K.809, N.813, Y.816, D.862 Chain E: C.35 Chain F: A.24, G.25 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.416, A:Y.631 Hydrogen bonds: A:A.629, A:M.630, A:Y.631, A:N.813 Salt bridges: A:R.765, A:R.765, A:K.769, A:K.809, A:K.809, A:K.809

1 x MG: MAGNESIUM ION

MG.2: 5 residues within 4Å: Chain A: D.626, V.627, M.630, D.862 Ligands: TTP.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.626, A:V.627, A:D.862

1 x SF4: IRON/SULFUR CLUSTER

SF4.3: 9 residues within 4Å: Chain A: T.650, C.651, C.654, F.656, N.657, C.663, Q.664, C.747, R.749 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.651, A:C.654, A:C.663, A:C.747

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, Q. et al., Structures of the human leading strand Pol epsilon-PCNA holoenzyme. Nat Commun (2024)

Release Date

2024-09-11

Peptides

DNA polymerase epsilon catalytic subunit: A
Proliferating cell nuclear antigen: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

DNA polymerase epsilon catalytic subunit

Proliferating cell nuclear antigen

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