4GWA

Crystal Structure of a GH7 Family Cellobiohydrolase from Limnoria quadripunctata


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.148 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural characterization of a unique marine animal family 7 cellobiohydrolase suggests a mechanism of cellulase salt tolerance

Kern, M.McGeehan, J.E.Streeter, S.D.Martin, R.N.Besser, K.Elias, L.Eborall, W.Malyon, G.P.Payne, C.M.Himmel, M.E.Schnorr, K.Beckham, G.T.Cragg, S.M.Bruce, N.C.McQueen-Mason, S.J.

(2013) Proc.Natl.Acad.Sci.USA 110: 10189-10194

  • DOI: 10.1073/pnas.1301502110
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Nature uses a diversity of glycoside hydrolase (GH) enzymes to convert polysaccharides to sugars. As lignocellulosic biomass deconstruction for biofuel production remains costly, natural GH diversity offers a starting point for developing industrial ...

    Nature uses a diversity of glycoside hydrolase (GH) enzymes to convert polysaccharides to sugars. As lignocellulosic biomass deconstruction for biofuel production remains costly, natural GH diversity offers a starting point for developing industrial enzymes, and fungal GH family 7 (GH7) cellobiohydrolases, in particular, provide significant hydrolytic potential in industrial mixtures. Recently, GH7 enzymes have been found in other kingdoms of life besides fungi, including in animals and protists. Here, we describe the in vivo spatial expression distribution, properties, and structure of a unique endogenous GH7 cellulase from an animal, the marine wood borer Limnoria quadripunctata (LqCel7B). RT-quantitative PCR and Western blot studies show that LqCel7B is expressed in the hepatopancreas and secreted into the gut for wood degradation. We produced recombinant LqCel7B, with which we demonstrate that LqCel7B is a cellobiohydrolase and obtained four high-resolution crystal structures. Based on a crystallographic and computational comparison of LqCel7B to the well-characterized Hypocrea jecorina GH7 cellobiohydrolase, LqCel7B exhibits an extended substrate-binding motif at the tunnel entrance, which may aid in substrate acquisition and processivity. Interestingly, LqCel7B exhibits striking surface charges relative to fungal GH7 enzymes, which likely results from evolution in marine environments. We demonstrate that LqCel7B stability and activity remain unchanged, or increase at high salt concentration, and that the L. quadripunctata GH mixture generally contains cellulolytic enzymes with highly acidic surface charge compared with enzymes derived from terrestrial microbes. Overall, this study suggests that marine cellulases offer significant potential for utilization in high-solids industrial biomass conversion processes.


    Related Citations: 
    • Molecular insight into lignocellulose digestion by a marine isopod in the absence of gut microbes.
      King, A.J.,Cragg, S.M.,Li, Y.,Dymond, J.,Guille, M.J.,Bowles, D.J.,Bruce, N.C.,Graham, I.A.,McQueen-Mason, S.J.
      (2010) Proc.Natl.Acad.Sci.USA 107: 5345


    Organizational Affiliation

    Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GH7 family protein
A, B
431Limnoria quadripunctataMutation(s): 0 
Gene Names: GH7B
EC: 3.2.1.91
Find proteins for D4HRL0 (Limnoria quadripunctata)
Go to UniProtKB:  D4HRL0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PCA
Query on PCA
A, B
L-PEPTIDE LINKINGC5 H7 N O3GLU
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.148 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 51.920α = 94.13
b = 54.050β = 95.70
c = 71.970γ = 94.64
Software Package:
Software NamePurpose
REFMACrefinement
GDAdata collection
PHASERphasing
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-06-12
    Type: Initial release
  • Version 1.1: 2014-09-03
    Type: Database references