7SYC

Crystal Structure of Nucleoside triphosphate pyrophosphohydrolase from Klebsiella pneumoniae subsp. pneumoniae

• PDB DOI: https://doi.org/10.2210/pdb7SYC/pdb

• Classification: HYDROLASE
• Organism(s): Klebsiella pneumoniae subsp. pneumoniae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-11-24 Released: 2021-12-08 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.241 
• R-Value Work: 0.198 
• R-Value Observed: 0.202 

Literature

Crystal Structure of Nucleoside triphosphate pyrophosphohydrolase from Klebsiella pneumoniae subsp. pneumoniae

DeBouver, N.D., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 15.93 kDa 
• Atom Count: 1,077 
• Modelled Residue Count: 122 
• Deposited Residue Count: 141 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
7,8-dihydro-8-oxoguanine-triphosphatase	A	141	Klebsiella pneumoniae subsp. pneumoniae	Mutation(s): 0  Gene Names: mutT, E3U38_03970, NCTC9504_05440, RJA_22585 EC: 3.6.1.55
UniProt
Find proteins for A0A1Y0Q4X2 (Klebsiella pneumoniae subsp. pneumoniae) Explore A0A1Y0Q4X2  Go to UniProtKB:  A0A1Y0Q4X2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG (Subject of Investigation/LOI)	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.241 
• R-Value Work: 0.198 
• R-Value Observed: 0.202 
• Space Group: P 6₁ 2 2
• Diffraction Data: https://doi.org/10.18430/M37SYC

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.14	α = 90
b = 67.14	β = 90
c = 136	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MoRDa	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-12-08 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2021-12-08
  Type: Initial release
  
• Version 1.1: 2021-12-15
  Changes: Database references
• Version 1.2: 2023-10-18
  Changes: Data collection, Refinement description