4KX5

Cytosolic 5'-nucleotidase III complexed with cytidine 5'-monophosphate

• PDB DOI: https://doi.org/10.2210/pdb4KX5/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2013-05-24 Released: 2013-06-12 
• Deposition Author(s): Bitto, E., Bingman, C.A., Grobosky, C.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.205 
• R-Value Work: 0.154 
• R-Value Observed: 0.157 

Literature

Cytosolic 5'-nucleotidase III complexed with cytidine 5'-monophosphate

Bitto, E., Bingman, C.A., Grobosky, C.L.

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)

Macromolecule Content

• Total Structure Weight: 35.13 kDa 
• Atom Count: 2,715 
• Modelled Residue Count: 291 
• Deposited Residue Count: 297 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytosolic 5'-nucleotidase 3	A	297	Mus musculus	Mutation(s): 1  Gene Names: Nt5c3 EC: 3.1.3.5
UniProt & NIH Common Fund Data Resources
Find proteins for Q9D020 (Mus musculus) Explore Q9D020  Go to UniProtKB:  Q9D020
IMPC:  MGI:1927186

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C	B [auth A]	CYTIDINE-5'-MONOPHOSPHATE C9 H14 N3 O8 P IERHLVCPSMICTF-XVFCMESISA-N
EPE	E [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
BME	C [auth A], D [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
EDO	F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MG	O [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.205 
• R-Value Work: 0.154 
• R-Value Observed: 0.157 
• Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.846	α = 90
b = 46.846	β = 90
c = 285.894	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-06-12 
Deposition Author(s): Bitto, E., Bingman, C.A., Grobosky, C.L.

Revision History  

• Version 1.0: 2013-06-12
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description