ISDA: 9XH4

Deposition Date 2025-10-31

Release Date 2026-11-04

Last Version Date 2026-11-04

Entry Detail

PDB ID:

9XH4

Keywords:

VIRAL PROTEIN/DNA

Title:

Cryo-EM structure of unnatural-base aptamer AptD1 with DENV1 NS1 hexamer

Biological Source:

Source Organism(s):

Dengue virus 1 Nauru/West Pac/1974 (Taxon ID: 11059)
synthetic construct (Taxon ID: 32630)

Expression System(s):

Homo sapiens

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.72 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Non-structural protein 1
Chain IDs:A, C (auth: B), D (auth: C), F (auth: E), G (auth: F), I
Chain Length:370
Number of Molecules:6
Biological Source:Dengue virus 1 Nauru/West Pac/1974

UniProt ID:P17763 EC:3.4.21.91

Polymer Type:polydeoxyribonucleotide
Molecule:unnatural-base aptamer AptD1
Chain IDs:B (auth: G), E (auth: D), H
Chain Length:48
Number of Molecules:3
Biological Source:synthetic construct

Ligand Molecules

NAG

PLC

Primary Citation

Structural Insights into Enhanced Binding Affinity and Specificity of Six-Letter DNA Aptamers to Dengue Antigen NS1 Proteins via Genetic Alphabet Expansion

Sawada, K, Kimoto, M, Matsunaga, K, Tan, H.P, Takayanagi, R, Sano, F.K, Shuto, Y, Hirano, H, Kusakizako, T, Itoh, Y, Kise, Y, Hirao, I, Nureki, O.Show

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Primary Citation of related structures

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