4H73 | pdb_00004h73

Thermostable aldehyde dehydrogenase from Pyrobaculum sp. complexed with NADP+

• PDB DOI: https://doi.org/10.2210/pdb4H73/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Pyrobaculum ferrireducens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-09-20 Released: 2013-10-02 
• Deposition Author(s): Petrova, T., Shabalin, I.G., Bezsudnova, E.Y., Boyko, K.M., Mardanov, A.V., Gumerov, V.M., Ravin, N.V., Popov, V.O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.261 (Depositor), 0.253 (DCC) 
• R-Value Work: 
  0.212 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.215 (Depositor) 

Literature

Thermostable aldehyde dehydrogenase from Pyrobaculum sp. complexed with NADP+

Petrova, T., Shabalin, I.G., Bezsudnova, E.Y., Boyko, K.M., Mardanov, A.V., M Gumerov, V., Ravin, N.V., Popov, V.O.

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)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Biological Assembly 5  

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

Biological assembly 5 generated by PISA (software)

Biological Assembly 6  

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

Biological assembly 6 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 441.87 kDa 
• Atom Count: 31,843 
• Modeled Residue Count: 3,872 
• Deposited Residue Count: 3,928 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldehyde dehydrogenase	A, B, C, D, E, F, G, H	491	Pyrobaculum ferrireducens	Mutation(s): 0  Gene Names: P186_1147
UniProt
Find proteins for G7VCG0 (Pyrobaculum ferrireducens) Explore G7VCG0  Go to UniProtKB:  G7VCG0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NDP	I [auth A], K [auth B], L [auth C], N [auth D], O [auth E], Q [auth F], R [auth G], T [auth H]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N
NI	J [auth A], M [auth C], P [auth E], S [auth G]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.261 (Depositor), 0.253 (DCC) 
• R-Value Work:  0.212 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 164.21	α = 90
b = 183.77	β = 90
c = 206.47	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
BALBES	phasing
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-10-02 
Deposition Author(s): Petrova, T., Shabalin, I.G., Bezsudnova, E.Y., Boyko, K.M., Mardanov, A.V., Gumerov, V.M., Ravin, N.V., Popov, V.O.

Revision History  

• Version 1.0: 2013-10-02
  Type: Initial release
  
• Version 1.1: 2018-01-24
  Changes: Structure summary
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations