1TMQ

STRUCTURE OF TENEBRIO MOLITOR LARVAL ALPHA-AMYLASE IN COMPLEX WITH RAGI BIFUNCTIONAL INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb1TMQ/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Tenebrio molitor, Eleusine coracana
• Mutation(s): No 


• Deposited: 1998-01-13 Released: 1999-03-02 
• Deposition Author(s): Gomis-Rueth, F.X., Strobl, S., Glockshuber, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.261 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 

Literature

A novel strategy for inhibition of alpha-amylases: yellow meal worm alpha-amylase in complex with the Ragi bifunctional inhibitor at 2.5 A resolution.

Strobl, S., Maskos, K., Wiegand, G., Huber, R., Gomis-Ruth, F.X., Glockshuber, R.

(1998) Structure 6: 911-921

• PubMed: 9687373 
• DOI: https://doi.org/10.1016/s0969-2126(98)00092-6
• Primary Citation of Related Structures:  
  1TMQ


• PubMed Abstract: 
  

  alpha-Amylases catalyze the hydrolysis of alpha-D-(1,4)-glucan linkages in starch and related compounds. There is a wide range of industrial and medical applications for these enzymes and their inhibitors. The Ragi bifunctional alpha-amylase/trypsin inhibitor (RBI) is the prototype of the cereal inhibitor superfamily and is the only member of this family that inhibits both trypsin and alpha-amylases. The mode of inhibition of alpha-amylases by these cereal inhibitors has so far been unknown.

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Organizational Affiliation: 

Institut für Molekularbiologie und Biophysik, Eidgenössische Technische Hochschule Hönggerberg, Zürich, Switzerland.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 64.05 kDa 
• Atom Count: 4,820 
• Modelled Residue Count: 588 
• Deposited Residue Count: 588 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (ALPHA-AMYLASE)	A	471	Tenebrio molitor	Mutation(s): 0  EC: 3.2.1.1
UniProt
Find proteins for P56634 (Tenebrio molitor) Explore P56634  Go to UniProtKB:  P56634

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (RAGI BIFUNCTIONAL INHIBITOR)	B	117	Eleusine coracana	Mutation(s): 0
UniProt
Find proteins for P01087 (Eleusine coracana) Explore P01087  Go to UniProtKB:  P01087

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PCA	A	L-PEPTIDE LINKING	C5 H7 N O3		GLN

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.261 
• R-Value Work: 0.191 
• R-Value Observed: 0.191 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.16	α = 90
b = 186.87	β = 90
c = 111.54	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
CCP4	data reduction
AMoRE	phasing
X-PLOR	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-03-02 
Deposition Author(s): Gomis-Rueth, F.X., Strobl, S., Glockshuber, R.

Revision History  

• Version 1.0: 1999-03-02
  Type: Initial release
  
• Version 1.1: 2008-04-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-11-20
  Changes: Database references, Derived calculations
• Version 2.0: 2019-12-25
  Changes: Database references, Derived calculations, Polymer sequence
• Version 2.1: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description