POLE · Mol* Coordinate Viewer

Loading Mol* viewer…

POLE

DNA Polymerase ε · Mol* Coordinate Viewer · PDB

CHR 12q24.33

2,286 AA

~261 kDa

UniProt Q07864

PDB structure

Finger triad: open (9F6D) → ajar (9F6E) → closed (9F6F)
28° / 19 Å O-helix rotation upon dNTP binding

Representation

Functional domains N → C

N-terminal domain

res. 1–280

NTD

3′→5′ Exonuclease

res. 268–471

EXO

Palm subdomain

res. 472–699

PALM

Processivity (P) domain

res. 700–760

P-DOM

Fingers subdomain

res. 761–1020

FNG

Thumb subdomain

res. 1021–1190

THM

Inactive Pol module

res. 1191–1900

INACT

C-terminal domain

res. 1901–2286

CTD

Display toggles

Auto-rotate

Protein chains

Ligands & metals

Water molecules

Domain labels

Color mode

Tools

Navigation

Schematic Ribbon Viewer

Procedural domain topology model

AlphaFold Predicted Structure

Full-length 2,286 AA · pLDDT confidence

c.138del Mutation Viewer

p.Leu46Phefs*8 · germline frameshift

structure · PDB 9F6D

Mol* · real coordinates

Rotate · left-drag

Pan · right-drag

Zoom · scroll / pinch

Pick · left-click

cartoondomain coloring

Locus & identity

Gene

POLE (ENSG00000177084)

Cytogenetic location

12q24.33

Polymerase family

B-family · Pol ε

Active PDB

9F6D · Roske & Yeeles 2024

Resolution

3.6 Å · Cryo-EM (FSC 0.143)

Structure details

This viewer displays real atomic coordinates from the Protein Data Bank using Mol*, the same viewer used by RCSB PDB and PDBe. Secondary structure assignments, metal coordination geometries, and ligand interactions are derived directly from the deposited experimental data.

B-factor note: 9F6D is a cryo-EM structure. The temperature-factor column represents a per-residue ADP or smoothed local-resolution proxy, not the crystallographic B-factor from X-ray refinement. Interpret accordingly.

Pathogenic hotspots

P286R

EXO · res. 286

Ultra-mutator. Adjacent to ExoI. CRC & endometrial. SBS10a/b.

V411L

EXO · res. 411

Proofreading-deficient. TMB >100 mut/Mb. SBS10a.

S297F

EXO · res. 297

Germline ExoI. PPAP predisposition. SBS28.

L424V

EXO · res. 424

Somatic. Moderate mutator phenotype.

F367S

EXO · res. 367

Germline PPAP. Adjacent to ExoIII catalytic triad.

Catalytic mechanism

Two-metal-ion catalysis: Metal A (Mg²+) lowers the pKa of the primer 3′-OH. Metal B coordinates the β,γ-phosphates of the incoming dNTP. Both metals are chelated by conserved aspartates D640, D642, D860.

References

        Roske & Yeeles, NSMB 31:1921 (2024)

        He et al., Nat Commun 15:7847 (2024)

        Mur et al., Genome Med 15:85 (2023)

        Yuan et al., Nat Commun 11:3156 (2020)

        Hogg et al., NSMB 21:49 (2014)