1MR2

Structure of the MT-ADPRase in complex with 1 Mn2+ ion and AMP-CP (a inhibitor), a nudix enzyme

• PDB DOI: https://doi.org/10.2210/pdb1MR2/pdb

• Classification: HYDROLASE
• Organism(s): Mycobacterium tuberculosis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-09-17 Released: 2003-08-05 
• Deposition Author(s): Kang, L.-W., Gabelli, S.B., Bianchet, M.A., Cunningham, J.E., O'Handley, S.F., Amzel, L.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.260 
• R-Value Work: 0.205 

Literature

Structure and mechanism of MT-ADPRase, a Nudix hydrolase from Mycobacterium tuberculosis

Kang, L.-W., Gabelli, S.B., Cunningham, J.E., O'Handley, S.F., Amzel, L.M.

(2003) Structure 11: 1015-1023

• PubMed: 12906832 
• DOI: https://doi.org/10.1016/s0969-2126(03)00154-0
• Primary Citation of Related Structures:  
  1MK1, 1MP2, 1MQE, 1MQW, 1MR2


• PubMed Abstract: 
  

  Nudix hydrolases are a family of proteins that contain the characteristic sequence GX(5)EX(7)REUXEEXG(I/L/V), the Nudix box. They catalyze the hydrolysis of a variety of nucleoside diphosphate derivatives such as ADP-ribose, Ap(n)A (3

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Organizational Affiliation: 

Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

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,PQS (software)

Macromolecule Content

• Total Structure Weight: 23.4 kDa 
• Atom Count: 1,549 
• Modelled Residue Count: 187 
• Deposited Residue Count: 207 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADPR pyrophosphatase	A	207	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: Rv1700 EC: 3.6.1.13
UniProt
Find proteins for O33199 (Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)) Explore O33199  Go to UniProtKB:  O33199

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A12	C [auth A]	PHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER C11 H17 N5 O9 P2 OLCWZBFDIYXLAA-IOSLPCCCSA-N
MN	B [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.260 
• R-Value Work: 0.205 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.894	α = 90
b = 63.894	β = 90
c = 182.059	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-08-05 
Deposition Author(s): Kang, L.-W., Gabelli, S.B., Bianchet, M.A., Cunningham, J.E., O'Handley, S.F., Amzel, L.M.

Revision History  

• Version 1.0: 2003-08-05
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations