Biological Assembly 1  

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

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

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

Macromolecule Content

• Total Structure Weight: 74.47 kDa 
• Atom Count: 4812 
• Modelled Residue Count: 617 
• Deposited Residue Count: 670 
• Unique protein chains: 1

2A87

Crystal Structure of M. tuberculosis Thioredoxin reductase

• PDB DOI: 10.2210/pdb2A87/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Mycobacterium tuberculosis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-07-07 Released: 2005-11-29 
• Deposition Author(s): Akif, M., Suhre, K., Verma, C., Mande, S.C., TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.291 
• R-Value Work: 0.211 
• R-Value Observed: 0.215 

Literature

Conformational flexibility of Mycobacterium tuberculosis thioredoxin reductase: crystal structure and normal-mode analysis.

Akif, M., Suhre, K., Verma, C., Mande, S.C.

(2005) Acta Crystallogr D Biol Crystallogr 61: 1603-1611

• PubMed: 16301794 
• DOI: 10.1107/S0907444905030519
• Primary Citation of Related Structures:  
  2A87


• PubMed Abstract: 
  

The thioredoxin system exists ubiquitously and participates in essential antioxidant and redox-regulation processes via a pair of conserved cysteine residues. In Mycobacterium tuberculosis, which lacks a genuine glutathione system, the thioredoxin system provides reducing equivalents inside the cell. The three-dimensional structure of thioredoxin reductase from M. tuberculosis has been determined at 3 A resolution. TLS refinement reveals a large libration axis, showing that NADPH-binding domain has large anisotropic disorder. The relative rotation of the NADPH domain with respect to the FAD domain is necessary for the thioredoxin reduction cycle, as it brings the spatially distant reacting sites close together. Normal-mode analysis carried out based on the elastic network model shows that the motion required to bring about the functional conformational change can be accounted for by motion along one single mode. TLS refinement and normal-mode analysis thus enhance our understanding of the associated conformational changes.

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Organizational Affiliation: 

Centre for DNA Fingerprinting and Diagnostics, Nacharam, Hyderabad, India.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thioredoxin reductase	A, B	335	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: trxB EC: 1.8.1.9
UniProt
Find proteins for P9WHH1 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WHH1  Go to UniProtKB:  P9WHH1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	D [auth A], G [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
NAP	E [auth A], H [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
MG	C [auth A], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.291 
• R-Value Work: 0.211 
• R-Value Observed: 0.215 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.4	α = 90
b = 107.4	β = 90
c = 118.2	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-07-07 
• Released Date: 2005-11-29 
Deposition Author(s): Akif, M., Suhre, K., Verma, C., Mande, S.C., TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2005-11-29
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance