9YC9 | pdb_00009yc9

HSV replication fork complex bound to pritelivir

• PDB DOI: https://doi.org/10.2210/pdb9YC9/pdb
• EM Map EMD-72764: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Human alphaherpesvirus 1 strain R-15
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2025-09-18 Released: 2025-12-31 
• Deposition Author(s): Yu, Z., Abraham, J.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of HSV replisome

Yu, Z., Abraham, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 507.19 kDa 
• Atom Count: 30,754 
• Modeled Residue Count: 3,809 
• Deposited Residue Count: 4,496 
• Unique protein chains: 5
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
UL52	D [auth C]	1,058	Human alphaherpesvirus 1 strain R-15	Mutation(s): 0  Gene Names: UL52
UniProt
Find proteins for A0A5J6DWG4 (Human herpesvirus 1) Explore A0A5J6DWG4  Go to UniProtKB:  A0A5J6DWG4

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
UL5	E [auth A]	882	Human alphaherpesvirus 1 strain R-15	Mutation(s): 0  Gene Names: UL5
UniProt
Find proteins for A0A5J6DVR7 (Human herpesvirus 1) Explore A0A5J6DVR7  Go to UniProtKB:  A0A5J6DVR7

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
UL30	F [auth E]	1,235	Human alphaherpesvirus 1 strain R-15	Mutation(s): 0  Gene Names: UL30, HHV1gp046 EC: 2.7.7.7
UniProt
Find proteins for H9E937 (Human herpesvirus 1) Explore H9E937  Go to UniProtKB:  H9E937

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
UL8	G [auth B]	750	Human alphaherpesvirus 1 strain R-15	Mutation(s): 0  Gene Names: UL8
UniProt
Find proteins for P10192 (Human herpesvirus 1 (strain 17)) Explore P10192  Go to UniProtKB:  P10192

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
UL42	H [auth F]	488	Human alphaherpesvirus 1 strain R-15	Mutation(s): 0  Gene Names: UL42
UniProt
Find proteins for A0A2Z4HDW2 (Human herpesvirus 1) Explore A0A2Z4HDW2  Go to UniProtKB:  A0A2Z4HDW2

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (25-MER)	A [auth D]	25	Human alphaherpesvirus 1 strain R-15

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (25-MER)	B [auth P]	25	Human alphaherpesvirus 1 strain R-15

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (33-MER)	C [auth T]	33	Human alphaherpesvirus 1 strain R-15

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1BXB (Subject of Investigation/LOI)	J [auth A]	Pritelivir C18 H18 N4 O3 S2 IVZKZONQVYTCKC-UHFFFAOYSA-N
ZN	I [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-31 
Deposition Author(s): Yu, Z., Abraham, J.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-12-31
  Type: Initial release