4PA5

Tgl - a bacterial spore coat transglutaminase - cystamine complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.167 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural and Functional Characterization of an Ancient Bacterial Transglutaminase Sheds Light on the Minimal Requirements for Protein Cross-Linking.

Fernandes, C.G.Placido, D.Lousa, D.Brito, J.A.Isidro, A.Soares, C.M.Pohl, J.Carrondo, M.A.Archer, M.Henriques, A.O.

(2015) Biochemistry 54: 5723-5734

  • DOI: 10.1021/acs.biochem.5b00661
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Transglutaminases are best known for their ability to catalyze protein cross-linking reactions that impart chemical and physical resilience to cellular structures. Here, we report the crystal structure and characterization of Tgl, a transglutaminase ...

    Transglutaminases are best known for their ability to catalyze protein cross-linking reactions that impart chemical and physical resilience to cellular structures. Here, we report the crystal structure and characterization of Tgl, a transglutaminase from the bacterium Bacillus subtilis. Tgl is produced during sporulation and cross-links the surface of the highly resilient spore. Tgl-like proteins are found only in spore-forming bacteria of the Bacillus and Clostridia classes, indicating an ancient origin. Tgl is a single-domain protein, produced in active form, and the smallest transglutaminase characterized to date. We show that Tgl is structurally similar to bacterial cell wall endopeptidases and has an NlpC/P60 catalytic core, thought to represent the ancestral unit of the cysteine protease fold. We show that Tgl functions through a unique partially redundant catalytic dyad formed by Cys116 and Glu187 or Glu115. Strikingly, the catalytic Cys is insulated within a hydrophobic tunnel that traverses the molecule from side to side. The lack of similarity of Tgl to other transglutaminases together with its small size suggests that an NlpC/P60 catalytic core and insulation of the active site during catalysis may be essential requirements for protein cross-linking.


    Organizational Affiliation

    Biotechnology Branch, Centers for Disease Control and Prevention , Atlanta, Georgia 30333, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein-glutamine gamma-glutamyltransferase
A, B
260Bacillus subtilis (strain 168)Mutation(s): 0 
Gene Names: tgl (yugV, yuxF)
EC: 2.3.2.13
Find proteins for P40746 (Bacillus subtilis (strain 168))
Go to UniProtKB:  P40746
Small Molecules
Ligands 8 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

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A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

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A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
DHL
Query on DHL

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A
2-AMINO-ETHANETHIOL
2,3-DESHYDROLANTHIONINE
C2 H7 N S
UFULAYFCSOUIOV-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
PG4
Query on PG4

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A
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
 Ligand Interaction
PGE
Query on PGE

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A
TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
 Ligand Interaction
FLC
Query on FLC

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B
CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.167 
  • Space Group: P 41
Unit Cell:
Length (Å)Angle (°)
a = 98.350α = 90.00
b = 98.350β = 90.00
c = 65.814γ = 90.00
Software Package:
Software NamePurpose
BUSTER-TNTrefinement
XDSdata scaling
PHENIXrefinement
SHARPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Fundacao para a Ciencia e a TecnologiaPortugalPOCI/BIA-BCM/60855/2004
Fundacao para a Ciencia e a TecnologiaPortugalPOCTI/BCI/48647/2002
Fundacao para a Ciencia e a TecnologiaPortugalPTDC/SAU-NEU/103720/2008

Revision History 

  • Version 1.0: 2015-09-30
    Type: Initial release
  • Version 1.1: 2017-11-22
    Type: Database references, Derived calculations, Refinement description