Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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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: 70680.20 
• Atom Count: 4853 
• Residue Count: 670 
• Unique protein chains: 1

2QNX

Crystal structure of the complex between the mycobacterium beta-ketoacyl-acyl carrier protein synthase III (FABH) and 11-[(decyloxycarbonyl)dithio]-undecanoic acid

• DOI: 10.2210/pdb2QNX/pdb

• Classification: TRANSFERASE
• Organism(s): Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
• Expression System: Escherichia coli


• Deposited: 2007-07-19 Released: 2008-05-06 
• Deposition Author(s): Sachdeva, S., Musayev, F., Alhamadsheh, M., Scarsdale, J.N., Wright, H.T., Reynolds, K.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.254 
• R-Value Work: 0.209 

Literature

Separate Entrance and Exit Portals for Ligand Traffic in Mycobacterium tuberculosis FabH

Sachdeva, S., Musayev, F.N., Alhamadsheh, M.M., Scarsdale, J.N., Wright, H.T., Reynolds, K.A.

(2008) Chem.Biol. 15: 402-412

• PubMed: 18420147 
• DOI: 10.1016/j.chembiol.2008.03.007
• Primary Citation of Related Structures:  
  2QO0, 2QO1, 2QNY, 2QNZ


• PubMed Abstract: 
  

Mycobacterium tuberculosis FabH initiates type II fatty acid synthase-catalyzed formation of the long chain (C(16)-C(22)) acyl-coenzyme A (CoA) precursors of mycolic acids, which are major constituents of the bacterial cell envelope. Crystal structures of M. tuberculosis FabH (mtFabH) show the substrate binding site to be a buried, extended L-shaped channel with only a single solvent access portal. Entrance of an acyl-CoA substrate through the solvent portal would require energetically unfavorable reptational threading of the substrate to its reactive position. Using a class of FabH inhibitors, we have tested an alternative hypothesis that FabH exists in an "open" form during substrate binding and product release, and a "closed" form in which catalysis and intermediate steps occur. This hypothesis is supported by mass spectrometric analysis of the product profile and crystal structures of complexes of mtFabH with these inhibitors.

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Related Citations: 

• Crystal Structure of a Substrate Complex of Mycobacterium Tuberculosis Beta-Ketoacyl-Acyl Carrier Protein Sythnase III (FABH) with Lauroyl-Coenzyme A.
  Musayev, F.,Sachdeva, S.,Scarsdale, J.N.,Reynolds, K.A.,Wright, H.T.
  (2005) J.Mol.Biol. 346: 1313
• Crystal Structure of the Mycobacterium Tuberculosis Beta-Ketoacyl-Acy; Carrier Protein Synthase III
  Scarsdale, J.N.,Kazanina, G.,He, X.,Reynolds, K.A.,Wright, H.T.
  (2001) J.Biol.Chem. 276: 20516




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Organizational Affiliation: 

Department of Chemistry, Portland State University, Portland, OR 97207, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
3-oxoacyl-[acyl-carrier-protein] synthase 3	A, B	335	Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)	Mutation(s): 0  Gene Names: fabH EC: 2.3.1.180
Find proteins for P9WNG3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Go to UniProtKB:  P9WNG3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MDX	A, B	11-MERCAPTOUNDECANOIC ACID C11 H22 O2 S GWOLZNVIRIHJHB-UHFFFAOYSA-N
UDT	A, B	O-DECYL HYDROGEN THIOCARBONATE C11 H22 O2 S RFWUWWWJCLPVPT-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
UDT	IC50: 2400 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.254 
• R-Value Work: 0.209 
• Space Group: C 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 68.285	α = 90.00
b = 88.981	β = 90.00
c = 230.252	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
d*TREK	data reduction
CNS	phasing
REFMAC	refinement
CrystalClear	data collection
d*TREK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-07-19 
• Released Date: 2008-05-06 
• Deposition Author(s): Sachdeva, S., Musayev, F., Alhamadsheh, M., Scarsdale, J.N., Wright, H.T., Reynolds, K.A.

Revision History 

• Version 1.0: 2008-05-06
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Advisory, Version format compliance
• Version 1.2: 2017-10-25
  Type: Refinement description
• Version 1.3: 2019-07-24
  Type: Data collection, Derived calculations, Refinement description