4UBE | pdb_00004ube

CRYSTAL STRUCTURE OF M TUBERCULOSIS ADENOSINE KINASE COMPLEXED WITH 2-FLURO ADENOSINE

• PDB DOI: https://doi.org/10.2210/pdb4UBE/pdb

• Classification: TRANSFERASE
• Organism(s): Mycobacterium tuberculosis variant bovis AF2122/97
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-08-12 Released: 2014-09-24 
• Deposition Author(s): Reddy, M.C.M., Palaninathan, S.K., Shetty, N.D., Owen, J.L., Watson, M.D., Sacchettini, J.C.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free: 
  0.243 (Depositor), 0.241 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: other

Literature

CRYSTAL STRUCTURE OF M TUBERCULOSIS ADENOSINE KINASE COMPLEXED WITH 2-FLURO ADENOSINE

Reddy, M.C.M., Palaninathan, S.K., Shetty, N.D., Owen, J.L., Watson, M.D., Sacchettini, J.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 35.97 kDa 
• Atom Count: 2,717 
• Modeled Residue Count: 331 
• Deposited Residue Count: 334 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenosine kinase	A	334	Mycobacterium tuberculosis variant bovis AF2122/97	Mutation(s): 0  Gene Names: adoK, cbhK, Mb2225c EC: 2.7.1.20
UniProt
Find proteins for P83736 (Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)) Explore P83736  Go to UniProtKB:  P83736

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2FA	B [auth A]	2-(6-AMINO-2-FLUORO-PURIN-9-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL C10 H12 F N5 O4 HBUBKKRHXORPQB-UUOKFMHZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free:  0.243 (Depositor), 0.241 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.916	α = 90
b = 71.916	β = 90
c = 110.521	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2014-09-24 
Deposition Author(s): Reddy, M.C.M., Palaninathan, S.K., Shetty, N.D., Owen, J.L., Watson, M.D., Sacchettini, J.C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	PO1 AI 68135

Revision History  

• Version 1.0: 2014-09-24
  Type: Initial release
  
• Version 1.1: 2017-09-20
  Changes: Advisory, Author supporting evidence, Derived calculations, Other, Source and taxonomy
• Version 1.2: 2019-09-04
  Changes: Data collection
• Version 1.3: 2019-12-11
  Changes: Author supporting evidence
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references, Refinement description
• Version 1.5: 2026-03-04
  Changes: Refinement description, Structure summary