3A47

Crystal structure of isomaltase from Saccharomyces cerevisiae

• PDB DOI: https://doi.org/10.2210/pdb3A47/pdb

• Classification: HYDROLASE
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-07-01 Released: 2010-07-14 
• Deposition Author(s): Yamamoto, K., Miyake, H., Kusunoki, M., Osaki, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.197 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 

Starting Model: experimental

Literature

Crystal structure of isomaltase from Saccharomyces cerevisiae

Yamamoto, K., Miyake, H., Kusunoki, M., Osaki, S.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 68.72 kDa 
• Atom Count: 5,330 
• Modelled Residue Count: 586 
• Deposited Residue Count: 589 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Oligo-1,6-glucosidase	A	589	Saccharomyces cerevisiae	Mutation(s): 0  EC: 3.2.1.10
UniProt
Find proteins for P53051 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53051  Go to UniProtKB:  P53051

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.197 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.709	α = 90
b = 115.674	β = 91.33
c = 61.837	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-07-14 
Deposition Author(s): Yamamoto, K., Miyake, H., Kusunoki, M., Osaki, S.

Revision History  

• Version 1.0: 2010-07-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description