8R7I

X-ray structure of blue laccase BP76 from the termite Neocapritermes taracua


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.145 
  • R-Value Work: 0.132 
  • R-Value Observed: 0.133 

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Literature

Crystal structure of blue laccase BP76, a unique termite suicidal defense weapon.

Skerlova, J.Brynda, J.Sobotnik, J.Zakopcanik, M.Novak, P.Bourguignon, T.Sillam-Dusses, D.Rezacova, P.

(2024) Structure 

  • DOI: https://doi.org/10.1016/j.str.2024.07.015
  • Primary Citation of Related Structures:  
    8R7I

  • PubMed Abstract: 

    Aging workers of the termite Neocapritermes taracua can defend their colony by sacrificing themselves by body rupture, mixing the externally stored blue laccase BP76 with hydroquinones to produce a sticky liquid rich in toxic benzoquinones. Here, we describe the crystal structure of BP76 isolated from N. taracua in its native form. The structure reveals several stabilization strategies, including compact folding, glycosylation, and flexible loops with disulfide bridges and tight dimer interface. The remarkable stability of BP76 maintains its catalytic activity in solid state during the lifespan of N. taracua workers, providing old workers with an efficient defensive weapon to protect their colony.


  • Organizational Affiliation

    Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, 160 00 Prague, Czech Republic.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Laccase BP76635Neocapritermes taracuaMutation(s): 0 
EC: 1.10.3.2
UniProt
Find proteins for A0A0S3AND7 (Neocapritermes taracua)
Explore A0A0S3AND7 
Go to UniProtKB:  A0A0S3AND7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0S3AND7
Glycosylation
Glycosylation Sites: 4
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
B
7N-Glycosylation
Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-3-O-sulfo-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
C
6N/AN-Glycosylation
Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
3-O-sulfo-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
D
7N/AN-Glycosylation
Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
E
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 7 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
YKK (Subject of Investigation/LOI)
Query on YKK

Download Ideal Coordinates CCD File 
F [auth A]2-methyl-5-oxidanyl-cyclohexa-2,5-diene-1,4-dione
C7 H6 O3
BMBZVGUSOUAIMK-UHFFFAOYSA-N
YMR (Subject of Investigation/LOI)
Query on YMR

Download Ideal Coordinates CCD File 
H [auth A]2-methylcyclohexa-2,5-diene-1,4-dione
C7 H6 O2
VTWDKFNVVLAELH-UHFFFAOYSA-N
PLQ (Subject of Investigation/LOI)
Query on PLQ

Download Ideal Coordinates CCD File 
G [auth A]1,4-benzoquinone
C6 H4 O2
AZQWKYJCGOJGHM-UHFFFAOYSA-N
SO4 (Subject of Investigation/LOI)
Query on SO4

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S [auth A],
T [auth A]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
CU (Subject of Investigation/LOI)
Query on CU

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J [auth A],
K [auth A],
L [auth A],
M [auth A]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
N [auth A],
O [auth A],
P [auth A],
Q [auth A],
R [auth A]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
OH (Subject of Investigation/LOI)
Query on OH

Download Ideal Coordinates CCD File 
I [auth A]HYDROXIDE ION
H O
XLYOFNOQVPJJNP-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.145 
  • R-Value Work: 0.132 
  • R-Value Observed: 0.133 
  • Space Group: P 3 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 163.5α = 90
b = 163.5β = 90
c = 89.21γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata scaling
SHELXphasing
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-28
    Type: Initial release
  • Version 1.1: 2024-09-04
    Changes: Database references