7KOP | pdb_00007kop

The crystal structure of the 2009/H1N1/California PA endonuclease I38T mutant in complex with SJ000988539

PDB DOI: https://doi.org/10.2210/pdb7KOP/pdb

Classification: VIRAL PROTEIN, Hydrolase
Organism(s): Influenza A virus, Influenza A virus (A/Luxembourg/43/2009(H1N1))
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2020-11-09 Released: 2021-11-10
Deposition Author(s): Cuypers, M.G., Slavish, P.J., Seetharaman, J., White, S.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free:
0.228 (Depositor), 0.235 (DCC)
R-Value Work:
0.207 (Depositor), 0.212 (DCC)
R-Value Observed:
0.208 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

The crystal structure of the 2009/H1N1/California PA endonuclease I38T mutant in complex with SJ000988539

Cuypers, M.G., Slavish, P.J., Seetharaman, J., White, S.W.

To be published.

Macromolecule Content

Total Structure Weight: 24.4 kDa
Atom Count: 1,611
Modeled Residue Count: 185
Deposited Residue Count: 197
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein PA-X	A	197	Influenza A virus, Influenza A virus (A/Luxembourg/43/2009(H1N1)) This entity is chimeric	Mutation(s): 0 Gene Names: PA-X, PA
UniProt
Find proteins for C6H0Y9 (Influenza A virus) Explore C6H0Y9 Go to UniProtKB: C6H0Y9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C6H0Y9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
QQ4 Query on QQ4 Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	Hexa Vinylpyrrolidone K15 C₃₆ H₅₆ N₆ O₆ OFPQNVWJHZVWCZ-CMPUJJQDSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
WTM (Subject of Investigation/LOI) Query on WTM Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	2-(2-fluorophenyl)-5-hydroxy-N-[2-(2-methoxypyridin-4-yl)ethyl]-6-oxo-1,6-dihydropyrimidine-4-carboxamide C₁₉ H₁₇ F N₄ O₄ UVUDZFBAAXHOBN-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain F [auth A] Interactions & Density Focus chain F [auth A]
MN Query on MN Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]