3HEM | pdb_00003hem

Structure of Mycobacterium tuberculosis Mycolic Acid Cyclopropane Synthase CmaA2 in Complex with Dioctylamine

• PDB DOI: https://doi.org/10.2210/pdb3HEM/pdb

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


• Deposited: 2009-05-09 Released: 2009-06-16 
• Deposition Author(s): Liu, Z., Sacchettini, J.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.39 Å
• R-Value Free: 
  0.266 (Depositor), 0.262 (DCC) 
• R-Value Work: 
  0.243 (Depositor), 0.243 (DCC) 

Literature

Structure of Mycobacterium tuberculosis Mycolic Acid Cyclopropane Synthase CmaA2 in Complex with Dioctylamine

Barkan, D., Liu, Z., Sacchettini, J.C., Glickman, M.S.

To be published.

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 (software)

Macromolecule Content 

• Total Structure Weight: 34.94 kDa 
• Atom Count: 2,402 
• Modeled Residue Count: 291 
• Deposited Residue Count: 302 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclopropane-fatty-acyl-phospholipid synthase 2	A	302	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: cma2, cmaA2, MT0524, MTCY20G9.30c, Rv0503c EC: 2.1.1.79
UniProt
Find proteins for P9WPB5 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WPB5  Go to UniProtKB:  P9WPB5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
D22	B [auth A]	N-octyloctan-1-amine C16 H35 N LAWOZCWGWDVVSG-UHFFFAOYSA-N
CO3	C [auth A]	CARBONATE ION C O3 BVKZGUZCCUSVTD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.39 Å
• R-Value Free:  0.266 (Depositor), 0.262 (DCC) 
• R-Value Work:  0.243 (Depositor), 0.243 (DCC) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.857	α = 90
b = 106.857	β = 90
c = 224.979	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
DENZO	data reduction
SCALEPACK	data scaling
PROCESS	data scaling
XFIT	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-16 
Deposition Author(s): Liu, Z., Sacchettini, J.C.

Revision History  

• Version 1.0: 2009-06-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations