1GCY

HIGH RESOLUTION CRYSTAL STRUCTURE OF MALTOTETRAOSE-FORMING EXO-AMYLASE

• PDB DOI:  https://doi.org/10.2210/pdb1GCY/pdb

• Classification: HYDROLASE
• Organism(s): Stutzerimonas stutzeri
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-08-14 Released: 2000-08-30 
• Deposition Author(s): Mezaki, Y., Katsuya, Y., Kubota, M., Matsuura, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.304 
• R-Value Work: 0.259 
• R-Value Observed: 0.259 

Literature

Crystallization and structural analysis of intact maltotetraose-forming exo-amylase from Pseudomonas stutzeri.

Mezaki, Y., Katsuya, Y., Kubota, M., Matsuura, Y.

(2001) Biosci Biotechnol Biochem 65: 222-225

• PubMed: 11272837 
• DOI: https://doi.org/10.1271/bbb.65.222
• Primary Citation of Related Structures:  
  1GCY


• PubMed Abstract: 
  

  The intact maltotetraose-forming exo-amylase from Pseudomonas stutzeri (G4-1), which has a raw starch binding domain, has been crystallized. The structure was identified (PDB entry 1GCY) by the molecular replacement method using the structure of its catalytic domain (G4-2). The result showed that the raw starch binding domain is in a disordered state, the corresponding electron densities being almost invisible. Superposition of these two enzyme forms showed evidence for the possible location of the raw starch binding domain (SBD). This crystal is a novel case, in that it forms a regular lattice incorporating flexibly bound SBD in the channel of crystal packing of the catalytic domains.

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Organizational Affiliation: 

Hyogo Prefectural Institute of Industrial Research, Kobe, Japan. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 57.85 kDa 
• Atom Count: 3,503 
• Modelled Residue Count: 415 
• Deposited Residue Count: 527 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUCAN 1,4-ALPHA-MALTOTETRAHYDROLASE	A	527	Stutzerimonas stutzeri	Mutation(s): 0  Gene Names: amyP EC: 3.2.1.60
UniProt
Find proteins for P13507 (Stutzerimonas stutzeri) Explore P13507  Go to UniProtKB:  P13507

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.304 
• R-Value Work: 0.259 
• R-Value Observed: 0.259 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.42	α = 90
b = 171.66	β = 90
c = 46.35	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-08-30 
Deposition Author(s): Mezaki, Y., Katsuya, Y., Kubota, M., Matsuura, Y.

Revision History  

• Version 1.0: 2000-08-30
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description