5JHT | pdb_00005jht

Apo form of influenza strain H1N1 polymerase acidic subunit N-terminal region crystallized with potassium sodium tartrate

• PDB DOI: https://doi.org/10.2210/pdb5JHT/pdb

• Classification: HYDROLASE
• Organism(s): Influenza A virus (A/Puerto Rico/8/1934(H1N1))
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-04-21 Released: 2016-05-11 
• Deposition Author(s): Fudo, S., Yamamoto, N., Nukaga, M., Odagiri, T., Tashiro, M., Hoshino, T.
• Funding Organization(s): Japan Society for the Promotion of Science

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.238 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.194 (Depositor), 0.197 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Starting Model: experimental

Literature

Influence of Precipitants on Molecular Arrangements and Space Groups of Protein Crystals

Fudo, S., Fei, Q., Nukaga, M., Hoshino, T.

(2017) Cryst Growth Des 17: 534-542

• DOI: https://doi.org/10.1021/acs.cgd.6b01385

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 22.56 kDa 
• Atom Count: 1,702 
• Modeled Residue Count: 181 
• Deposited Residue Count: 191 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase acidic protein	A	191	Influenza A virus (A/Puerto Rico/8/1934(H1N1))	Mutation(s): 0  Gene Names: PA EC: 3.1
UniProt
Find proteins for P03433 (Influenza A virus (strain A/Puerto Rico/8/1934 H1N1)) Explore P03433  Go to UniProtKB:  P03433

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TLA	D [auth A]	L(+)-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-JCYAYHJZSA-N
MN	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.238 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.194 (Depositor), 0.197 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.859	α = 90
b = 66.859	β = 90
c = 128.003	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
HKL-2000	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-05-11 
Deposition Author(s): Fudo, S., Yamamoto, N., Nukaga, M., Odagiri, T., Tashiro, M., Hoshino, T.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science	Japan	24590548

Revision History  

• Version 1.0: 2016-05-11
  Type: Initial release
  
• Version 1.1: 2017-03-01
  Changes: Database references
• Version 1.2: 2020-02-19
  Changes: Data collection
• Version 1.3: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description