9F6L

Human DNA Polymerase epsilon bound to T-C mismatched DNA (Mismatch Excision state)

• PDB DOI: https://doi.org/10.2210/pdb9F6L/pdb
• EM Map EMD-50228: EMDB EMDataResource

• Classification: REPLICATION
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2024-05-01 Released: 2024-08-07 
• Deposition Author(s): Roske, J.J., Yeeles, J.T.P.
• Funding Organization(s): UK Research and Innovation (UKRI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for processive daughter-strand synthesis and proofreading by the human leading-strand DNA polymerase Pol epsilon.

Roske, J.J., Yeeles, J.T.P.

(2024) Nat Struct Mol Biol 

• DOI: https://doi.org/10.1038/s41594-024-01370-y

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 157.62 kDa 
• Atom Count: 9,639 
• Modelled Residue Count: 1,144 
• Deposited Residue Count: 1,262 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA polymerase epsilon catalytic subunit A	A	1,200	Homo sapiens	Mutation(s): 0  Gene Names: POLE, POLE1 EC: 2.7.7.7 (PDB Primary Data), 3.1.11 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q07864 (Homo sapiens) Explore Q07864  Go to UniProtKB:  Q07864
PHAROS:  Q07864 GTEx:  ENSG00000177084

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA nascent strand	B [auth P]	31	Homo sapiens

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA template strand	C [auth T]	31	Homo sapiens

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SF4	D [auth A]	IRON/SULFUR CLUSTER Fe4 S4 LJBDFODJNLIPKO-UHFFFAOYSA-N
CA	E [auth A], F [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21_5207

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-07 
Deposition Author(s): Roske, J.J., Yeeles, J.T.P.

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Funding Organization	Location	Grant Number
UK Research and Innovation (UKRI)	United Kingdom	--

Revision History  

• Version 1.0: 2024-08-07
  Type: Initial release