2Z0A | pdb_00002z0a

Crystal structure of RNA-binding domain of NS1 from influenza A virus A/crow/Kyoto/T1/2004(H5N1)

• PDB DOI: https://doi.org/10.2210/pdb2Z0A/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus
• Mutation(s): No 


• Deposited: 2007-05-07 Released: 2008-05-13 
• Deposition Author(s): Saijo, S., Kishishita, S., Kamo-Uchikubo, T., Terada, T., Shirouzu, M., Ito, H., Ito, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.238 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of RNA-binding domain of NS1 from influenza A virus A/crow/Kyoto/T1/2004(H5N1)

Saijo, S., Kishishita, S., Kamo-Uchikubo, T., Terada, T., Shirouzu, M., Ito, H., Ito, T., Yokoyama, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 35.92 kDa 
• Atom Count: 2,653 
• Modeled Residue Count: 287 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nonstructural protein 1	A, B, C, D	79	Influenza A virus	Mutation(s): 0  Gene Names: NS1
UniProt
Find proteins for Q5H7J4 (Influenza A virus) Explore Q5H7J4  Go to UniProtKB:  Q5H7J4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SIN	G [auth A], H [auth B]	SUCCINIC ACID C4 H6 O4 KDYFGRWQOYBRFD-UHFFFAOYSA-N
GLY	E [auth A], F [auth A], I [auth C], J [auth D]	GLYCINE C2 H5 N O2 DHMQDGOQFOQNFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.238 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.723	α = 90
b = 54.378	β = 100.57
c = 66.347	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
BSS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-13 
Deposition Author(s): Saijo, S., Kishishita, S., Kamo-Uchikubo, T., Terada, T., Shirouzu, M., Ito, H., Ito, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2008-05-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description