Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 78.42 kDa 
• Atom Count: 5883 
• Modelled Residue Count: 696 
• Deposited Residue Count: 698 
• Unique protein chains: 1

7KEG

Crystal structure from SARS-COV2 NendoU NSP15

• PDB DOI: 10.2210/pdb7KEG/pdb

• Classification: VIRAL PROTEIN, HYDROLASE
• Organism(s): Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-10-10 Released: 2020-12-02 
• Deposition Author(s): Godoy, A.S., Nakamura, A.M., Pereira, H.M., Noske, G.D., Gawriljuk, V.O., Fernandes, R.S., Oliveira, K.I.Z., Oliva, G.
• Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.218 
• R-Value Work: 0.175 
• R-Value Observed: 0.177 

Literature

Crystal structure from SARS-COV2 NendoU NSP15

Godoy, A.S., Oliva, G.

To be published.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uridylate-specific endoribonuclease	A, B	349	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0  Gene Names: rep, 1a-1b EC: 3.1 (PDB Primary Data), 3.4.19.12 (UniProt), 3.4.22 (UniProt), 3.4.22.69 (UniProt), 2.7.7.48 (UniProt), 3.6.4.12 (UniProt), 3.6.4.13 (UniProt), 3.1.13 (UniProt), 4.6.1 (UniProt), 2.1.1.57 (UniProt)
UniProt
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1  Go to UniProtKB:  P0DTD1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A], D [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.218 
• R-Value Work: 0.175 
• R-Value Observed: 0.177 
• Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 150.683	α = 90
b = 150.683	β = 90
c = 110.299	γ = 120

Software Package:

Software Name	Purpose
BUSTER	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2020-10-10 
• Released Date: 2020-12-02 
Deposition Author(s): Godoy, A.S., Nakamura, A.M., Pereira, H.M., Noske, G.D., Gawriljuk, V.O., Fernandes, R.S., Oliveira, K.I.Z., Oliva, G.

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Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2013/07600-3

Revision History  

• Version 1.0: 2020-12-02
  Type: Initial release