5A05

Crystal structure of aldose-aldose oxidoreductase from Caulobacter crescentus complexed with maltotriose

• PDB DOI: https://doi.org/10.2210/pdb5A05/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Caulobacter vibrioides CB15
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 2015-04-17 Released: 2015-10-21 
• Deposition Author(s): Taberman, H., Rouvinen, J., Parkkinen, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.178 
• R-Value Work: 0.152 
• R-Value Observed: 0.153 

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)

Macromolecule Content

• Total Structure Weight: 230.53 kDa 
• Atom Count: 17,857 
• Modelled Residue Count: 2,010 
• Deposited Residue Count: 2,034 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALDOSE-ALDOSE OXIDOREDUCTASE	A, B, C, D, E, F	339	Caulobacter vibrioides CB15	Mutation(s): 0  EC: 1.1.99
UniProt
Find proteins for Q9A8X3 (Caulobacter vibrioides (strain ATCC 19089 / CB15)) Explore Q9A8X3  Go to UniProtKB:  Q9A8X3

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose	G, H, I, J	3		N/A
Glycosylation Resources
GlyTouCan:  G00395FS GlyCosmos:  G00395FS GlyGen:  G00395FS

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NDP	K [auth A], L [auth B], O [auth C], P [auth D], Q [auth E], R [auth F]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N
MLI	M [auth B], N [auth B], S [auth F]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900065	G, H, I, J	beta-maltotriose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.178 
• R-Value Work: 0.152 
• R-Value Observed: 0.153 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.295	α = 90
b = 151.321	β = 108.66
c = 108.693	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-10-21 
Deposition Author(s): Taberman, H., Rouvinen, J., Parkkinen, T.

Revision History  

• Version 1.0: 2015-10-21
  Type: Initial release
  
• Version 1.1: 2015-12-09
  Changes: Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary
• Version 2.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary