9IHS

Microbial transglutaminase mutant - D3C/G283C

• PDB DOI: https://doi.org/10.2210/pdb9IHS/pdb

• Classification: TRANSFERASE
• Organism(s): Streptomyces mobaraensis
• Expression System: Corynebacterium glutamicum
• Mutation(s): Yes 


• Deposited: 2024-06-18 Released: 2024-09-18 
• Deposition Author(s): Suzuki, M., Date, M., Kashiwagi, T., Takahashi, K., Nakamura, A., Tanokura, M., Suzuki, E., Yokoyama, K.
• Funding Organization(s): Ajinomoto Co., Inc., Development of Systems and Technology for Advanced Measurement and Analysis (Program-S)-Fund of the Japan Science and Technology Agency

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.234 
• R-Value Work: 0.181 

Starting Model: experimental

Literature

Random mutagenesis and disulfide bond formation improved thermostability in microbial transglutaminase.

Suzuki, M., Date, M., Kashiwagi, T., Takahashi, K., Nakamura, A., Tanokura, M., Suzuki, E., Yokoyama, K.

(2024) Appl Microbiol Biotechnol 

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 152.84 kDa 
• Atom Count: 11,885 
• Modelled Residue Count: 1,324 
• Deposited Residue Count: 1,324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein-glutamine gamma-glutamyltransferase	A, B, C, D	331	Streptomyces mobaraensis	Mutation(s): 2  EC: 2.3.2.13
UniProt
Find proteins for P81453 (Streptomyces mobaraensis) Explore P81453  Go to UniProtKB:  P81453

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MES	E [auth A], G [auth B], J [auth C], L [auth D]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N
PEG	H [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
CL	F [auth A], I [auth B], K [auth C], M [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.234 
• R-Value Work: 0.181 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.76	α = 90
b = 117.36	β = 113.028
c = 85.47	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
AMoRE	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-18 
Deposition Author(s): Suzuki, M., Date, M., Kashiwagi, T., Takahashi, K., Nakamura, A., Tanokura, M., Suzuki, E., Yokoyama, K.

---

Funding Organization	Location	Grant Number
Ajinomoto Co., Inc.	Japan	--
Development of Systems and Technology for Advanced Measurement and Analysis (Program-S)-Fund of the Japan Science and Technology Agency	Japan	--

Revision History  

• Version 1.0: 2024-09-18
  Type: Initial release