9NYI | pdb_00009nyi

Structure of HalA in complex with oligodeoxyadenylate

• PDB DOI: https://doi.org/10.2210/pdb9NYI/pdb
• EM Map EMD-49920: EMDB EMDataResource

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Rhodobacteraceae bacterium QY30, DNA molecule
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-03-27 Released: 2025-05-07 
• Deposition Author(s): Tan, J.M.J., Melamed, S., Cofsky, J.C., Syangtan, D., Hobbs, S.J., Del Marmol, J., Jost, M., Kruse, A.C., Sorek, S., Kranzusch, P.J.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 1.98 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Structure of Hailong HalA in complex with oligodeoxyadenylate

Tan, J.M.J., Melamed, S., Cofsky, J.C., Syangtan, D., Hobbs, S.J., Del Marmol, J., Jost, M., Kruse, A.C., Sorek, R., Kranzusch, P.J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 173.33 kDa 
• Atom Count: 11,736 
• Modelled Residue Count: 1,356 
• Deposited Residue Count: 1,508 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Structure of HalA in complex with oligodeoxyadenylate	A, B, C, D	371	Rhodobacteraceae bacterium QY30	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*AP*AP*AP*AP*AP*A)-3')	E, F, G, H	6	DNA molecule

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 1.98 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.4.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-07 
Deposition Author(s): Tan, J.M.J., Melamed, S., Cofsky, J.C., Syangtan, D., Hobbs, S.J., Del Marmol, J., Jost, M., Kruse, A.C., Sorek, S., Kranzusch, P.J.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1DP2GM146250

Revision History  

• Version 1.0: 2025-05-07
  Type: Initial release