2O2I | pdb_00002o2i

Crystal structure of haloalkane dehalogenase Rv2579 from Mycobacterium tuberculosis complexed with 1,3-propandiol

• PDB DOI: https://doi.org/10.2210/pdb2O2I/pdb

• Classification: HYDROLASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-11-29 Released: 2007-11-13 
• Deposition Author(s): Mazumdar, P.A., Hulecki, J., Cherney, M.M., Garen, C.R., James, M.N.G., TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.176 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.144 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.146 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of haloalkane dehalogenase Rv2579 from Mycobacterium tuberculosis complexed with 1,3-propandiol

Mazumdar, P.A., Hulecki, J., Cherney, M.M., Garen, C.R., James, M.N.G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 33.92 kDa 
• Atom Count: 2,615 
• Modeled Residue Count: 293 
• Deposited Residue Count: 300 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Haloalkane dehalogenase 3	A	300	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: dhaA EC: 3.8.1.5
UniProt
Find proteins for P9WMR9 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WMR9  Go to UniProtKB:  P9WMR9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BR	B [auth A]	BROMIDE ION Br CPELXLSAUQHCOX-UHFFFAOYSA-M
PDO	C [auth A]	1,3-PROPANDIOL C3 H8 O2 YPFDHNVEDLHUCE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.176 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.144 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.146 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.82	α = 90
b = 65.19	β = 90
c = 126.09	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-11-13 
Deposition Author(s): Mazumdar, P.A., Hulecki, J., Cherney, M.M., Garen, C.R., James, M.N.G., TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2007-11-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description