2VOJ

Ternary complex of M. tuberculosis Rv2780 with NAD and pyruvate

• PDB DOI: https://doi.org/10.2210/pdb2VOJ/pdb

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


• Deposited: 2008-02-18 Released: 2008-03-04 
• Deposition Author(s): Tripathi, S.M., Ramachandran, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.230 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 

Literature

Crystal Structures of the Mycobacterium Tuberculosis Secretory Antigen Alanine Dehydrogenase (Rv2780) in Apo and Ternary Complex Forms Captures "Open" and "Closed" Enzyme Conformations.

Tripathi, S.M., Ramachandran, R.

(2008) Proteins 72: 1089

• PubMed: 18491387 
• DOI: https://doi.org/10.1002/prot.22101
• Primary Citation of Related Structures:  
  2VOE, 2VOJ

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Organizational Affiliation: 

Molecular and Structural Biology Division, Central Drug Research Institute, Lucknow, India.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 118.52 kDa 
• Atom Count: 8,412 
• Modelled Residue Count: 1,113 
• Deposited Residue Count: 1,113 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALANINE DEHYDROGENASE	A, B [auth C], C [auth E]	371	Mycobacterium tuberculosis	Mutation(s): 0  EC: 1.4.1.1
UniProt
Find proteins for P9WQB1 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WQB1  Go to UniProtKB:  P9WQB1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	D [auth A], F [auth C], H [auth E]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
2OP	E [auth A], G [auth C], I [auth E]	(2S)-2-HYDROXYPROPANOIC ACID C3 H6 O3 JVTAAEKCZFNVCJ-REOHCLBHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.230 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.993	α = 90
b = 88.993	β = 90
c = 373.855	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-03-04 
Deposition Author(s): Tripathi, S.M., Ramachandran, R.

Revision History  

• Version 1.0: 2008-03-04
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description