6Z42 | pdb_00006z42

The low resolution structure of a zinc-dependent alcohol dehydrogenase from Halomonas elongata.

• PDB DOI: https://doi.org/10.2210/pdb6Z42/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Halomonas elongata DSM 2581
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-05-22 Released: 2020-06-17 
• Deposition Author(s): Gourlay, L.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å
• R-Value Free: 
  0.367 (Depositor), 0.370 (DCC) 
• R-Value Work: 
  0.329 (Depositor), 0.330 (DCC) 
• R-Value Observed: 
  0.333 (Depositor) 

Starting Model: other

Literature

Uncommon overoxidative catalytic activity in a new halo-tolerant alcohol dehydrogenase

Contente, M.L., Fiore, N., Cannazza, P., Padrosa, D.R., Molinari, F., Gourlay, L.J., Paradisi, F.

(2020) ChemCatChem 

• DOI: https://doi.org/10.1002/cctc.202001112

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 154.47 kDa 
• Atom Count: 9,733 
• Modeled Residue Count: 1,318 
• Deposited Residue Count: 1,452 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alcohol dehydrogenase, zinc-containing	A, B, C, D	363	Halomonas elongata DSM 2581	Mutation(s): 0  Gene Names: adh2, HELO_2818 EC: 1.1.1.1
UniProt
Find proteins for E1V3M3 (Halomonas elongata (strain ATCC 33173 / DSM 2581 / NBRC 15536 / NCIMB 2198 / 1H9)) Explore E1V3M3  Go to UniProtKB:  E1V3M3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	E [auth A], F [auth A], G [auth B], H [auth B], I [auth C], J [auth C], K [auth D], L [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å
• R-Value Free:  0.367 (Depositor), 0.370 (DCC) 
• R-Value Work:  0.329 (Depositor), 0.330 (DCC) 
• R-Value Observed: 0.333 (Depositor) 

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.662	α = 90
b = 104.662	β = 90
c = 516.213	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-06-17 
Deposition Author(s): Gourlay, L.J.

Revision History  

• Version 1.0: 2020-06-17
  Type: Initial release
  
• Version 1.1: 2020-07-08
  Changes: Data collection
• Version 1.2: 2020-12-30
  Changes: Database references
• Version 1.3: 2024-05-01
  Changes: Data collection, Database references, Refinement description