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)

Experimental Data Snapshot

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

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

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.

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

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(by identity cutoff) | 3D Structure

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 Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(APAPAPAPAPA)-3')	E, F, G, H	6	DNA molecule
Sequence Annotations Expand
Reference Sequence

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

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-05-07

Deposition Author(s):

Kranzusch, P.J.

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

Revision History (Full details and data files)

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.