9YCP | pdb_00009ycp

HSV Helicase-primase complex bound to IM-250

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

Structural basis for herpes simplex virus replication fork assembly and drug targeting

Yu, Z., Abraham, J.

To be published.

Macromolecules

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(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
UL52B [auth C]1,058Human alphaherpesvirus 1 strain R-15Mutation(s): 0 
Gene Names: UL52
UniProt
Find proteins for A0A5J6DWG4 (Human herpesvirus 1)
Explore A0A5J6DWG4 
Go to UniProtKB:  A0A5J6DWG4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A5J6DWG4
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
UL5C [auth A]882Human alphaherpesvirus 1 strain R-15Mutation(s): 0 
Gene Names: UL5
UniProt
Find proteins for A0A5J6DVR7 (Human herpesvirus 1)
Explore A0A5J6DVR7 
Go to UniProtKB:  A0A5J6DVR7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A5J6DVR7
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
UL8D [auth B]750Human alphaherpesvirus 1 strain R-15Mutation(s): 0 
Gene Names: UL8
UniProt
Find proteins for P10192 (Human herpesvirus 1 (strain 17))
Explore P10192 
Go to UniProtKB:  P10192
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP10192
Sequence Annotations
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  • Reference Sequence

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(*TP*TP*TP*TP*TP*T)-3')A [auth D]6Human alphaherpesvirus 1 strain R-15
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
A1CHB (Subject of Investigation/LOI)
Query on A1CHB
Download Ideal Coordinates CCD File 
F [auth C]N-{5-[(R)-amino(hydroxy)(methyl)-lambda~4~-sulfanyl]-4-methyl-1,3-thiazol-2-yl}-2-(2',5'-difluoro[1,1'-biphenyl]-4-yl)-N-methylacetamide
C20 H21 F2 N3 O2 S2
XMZIBPDSCWYNDP-UHFFFAOYSA-N
ZN
Query on ZN
Download Ideal Coordinates CCD File 
E [auth C]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

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