9BH8

Human DNA polymerase theta helicase domain dimer bound to DNA in the microhomology searching conformation

• PDB DOI: https://doi.org/10.2210/pdb9BH8/pdb
• NAKB: 9BH8
• EM Map EMD-44536: EMDB EMDataResource

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-04-19 Released: 2024-05-01 
• Deposition Author(s): Zerio, C.J., Lander, G.C.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI), National Institutes of Health/National Center for Research Resources (NIH/NCRR)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental

Literature

Human polymerase theta helicase positions DNA microhomologies for double-strand break repair

Zerio, C.J., Bai, Y., Sosa-Alvarado, B.A., Guzi, T., Lander, G.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy, native gel electrophoresis

Macromolecule Content

• Total Structure Weight: 233.87 kDa 
• Atom Count: 13,051 
• Modelled Residue Count: 1,618 
• Deposited Residue Count: 1,898 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA polymerase theta	A, B	893	Homo sapiens	Mutation(s): 0  Gene Names: POLQ, POLH EC: 3.6.4.12 (PDB Primary Data), 2.7.7.7 (PDB Primary Data), 2.7.7.49 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for O75417 (Homo sapiens) Explore O75417  Go to UniProtKB:  O75417
PHAROS:  O75417 GTEx:  ENSG00000051341

Entity ID: 2
Molecule	Chains	Length	Organism	Image
Stem-loop DNA with microhomology in the 3' overhang	C [auth X], D [auth Y]	56	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.3
MODEL REFINEMENT	PHENIX	1.20.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-01 
Deposition Author(s): Zerio, C.J., Lander, G.C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	F32CA288144
National Institutes of Health/National Center for Research Resources (NIH/NCRR)	United States	S10OD032467

Revision History  

• Version 1.0: 2024-05-01
  Type: Initial release