5EKC

Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+

• PDB DOI: https://doi.org/10.2210/pdb5EKC/pdb

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


• Deposited: 2015-11-03 Released: 2016-11-16 
• Deposition Author(s): Petrova, T., Bezsudnova, E.Y., Boyko, K.M., Nikolaeva, A.Y., Rakitina, T.V., Shabalin, I.G., Popov, V.O.
• Funding Organization(s): RFBR

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.221 
• R-Value Work: 0.193 
• R-Value Observed: 0.194 

Literature

Structure of thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+

Bezsudnova, E.Y., Petrova, T.E., Rakitina, T.V., Boyko, K.M., Nikolaeva, A.Y., Polyakov, K.M., Shabalin, I.G., Popov, V.O.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

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

Macromolecule Content

• Total Structure Weight: 441.62 kDa 
• Atom Count: 33,123 
• Modelled Residue Count: 3,878 
• 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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	I [auth A], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F], O [auth G], P [auth H]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.221 
• R-Value Work: 0.193 
• R-Value Observed: 0.194 
• Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 164.55	α = 90
b = 185.21	β = 90
c = 208.29	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-11-16 
Deposition Author(s): Petrova, T., Bezsudnova, E.Y., Boyko, K.M., Nikolaeva, A.Y., Rakitina, T.V., Shabalin, I.G., Popov, V.O.

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Funding Organization	Location	Grant Number
RFBR	Russian Federation	13-04-00798/13

Revision History  

• Version 1.0: 2016-11-16
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description