1ZID | pdb_00001zid

LONG FATTY ACID CHAIN ENOYL-ACP REDUCTASE (INHA) IN COMPLEX WITH AN ISONICOTINIC-ACYL-NADH INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb1ZID/pdb

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


• Deposited: 1997-03-25 Released: 1998-03-25 
• Deposition Author(s): Rozwarski, D.A., Jacobs Jr., W.R., Sacchettini, J.C., TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.297 (Depositor), 0.287 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.197 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Starting Model: experimental

Literature

Modification of the NADH of the isoniazid target (InhA) from Mycobacterium tuberculosis.

Rozwarski, D.A., Grant, G.A., Barton, D.H., Jacobs Jr., W.R., Sacchettini, J.C.

(1998) Science 279: 98-102

• PubMed: 9417034 
• DOI: https://doi.org/10.1126/science.279.5347.98
• Primary Citation Related Structures: 
  1ZID


• PubMed Abstract: 
  

  The preferred antitubercular drug isoniazid specifically targets a long-chain enoyl-acyl carrier protein reductase (InhA), an enzyme essential for mycolic acid biosynthesis in Mycobacterium tuberculosis. Despite the widespread use of this drug for more than 40 years, its precise mode of action has remained obscure. Data from x-ray crystallography and mass spectrometry reveal that the mechanism of isoniazid action against InhA is covalent attachment of the activated form of the drug to the nicotinamide ring of nicotinamide adenine dinucleotide bound within the active site of InhA.

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Organizational Affiliation: 
• Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, USA.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 29.16 kDa 
• Atom Count: 2,114 
• Modeled Residue Count: 268 
• Deposited Residue Count: 268 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ENOYL-[ACYL-CARRIER-PROTEIN] REDUCTASE	A	268	Mycobacterium tuberculosis	Mutation(s): 0  EC: 1.3.1.9
UniProt
Find proteins for P9WGR1 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WGR1  Go to UniProtKB:  P9WGR1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZID	B [auth A]	ISONICOTINIC-ACETYL-NICOTINAMIDE-ADENINE DINUCLEOTIDE C27 H30 N8 O15 P2 SURAWYIAXPVHGO-XDBKRARRSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.297 (Depositor), 0.287 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.197 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: P 6₂ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.53	α = 90
b = 100.53	β = 90
c = 138.96	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-03-25 
Deposition Author(s): Rozwarski, D.A., Jacobs Jr., W.R., Sacchettini, J.C., TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 1998-03-25
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2023-08-09
  Changes: Database references, Derived calculations, Other, Refinement description
• Version 1.4: 2024-05-22
  Changes: Data collection