6Q64

BT1044SeMet E190Q


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci.

Briliute, J.Urbanowicz, P.A.Luis, A.S.Basle, A.Paterson, N.Rebello, O.Hendel, J.Ndeh, D.A.Lowe, E.C.Martens, E.C.Spencer, D.I.R.Bolam, D.N.Crouch, L.I.

(2019) Nat Microbiol --: --

  • DOI: 10.1038/s41564-019-0466-x
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Glycans are the major carbon sources available to the human colonic microbiota. Numerous N-glycosylated proteins are found in the human gut, from both dietary and host sources, including immunoglobulins such as IgA that are secreted into the intestin ...

    Glycans are the major carbon sources available to the human colonic microbiota. Numerous N-glycosylated proteins are found in the human gut, from both dietary and host sources, including immunoglobulins such as IgA that are secreted into the intestine at high levels. Here, we show that many mutualistic gut Bacteroides spp. have the capacity to utilize complex N-glycans (CNGs) as nutrients, including those from immunoglobulins. Detailed mechanistic studies using transcriptomic, biochemical, structural and genetic techniques reveal the pathway employed by Bacteroides thetaiotaomicron (Bt) for CNG degradation. The breakdown process involves an extensive enzymatic apparatus encoded by multiple non-adjacent loci and comprises 19 different carbohydrate-active enzymes from different families, including a CNG-specific endo-glycosidase activity. Furthermore, CNG degradation involves the activity of carbohydrate-active enzymes that have previously been implicated in the degradation of other classes of glycan. This complex and diverse apparatus provides Bt with the capacity to access the myriad different structural variants of CNGs likely to be found in the intestinal niche.


    Organizational Affiliation

    Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI, USA.,Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, UK. david.bolam@ncl.ac.uk.,Diamond Light Source, Didcot, UK.,Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, UK.,Ludger Ltd, Culham Science Centre, Abingdon, UK.,Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, UK. lucy.crouch@ncl.ac.uk.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Endoglycosidase
A
364Bacteroides thetaiotaomicronMutation(s): 1 
Find proteins for A0A0P0FQI4 (Bacteroides thetaiotaomicron)
Go to UniProtKB:  A0A0P0FQI4
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.197 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 119.584α = 90.00
b = 119.584β = 90.00
c = 83.094γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
Cootmodel building
XDSdata scaling
Aimlessdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/M029018/1

Revision History 

  • Version 1.0: 2019-05-08
    Type: Initial release
  • Version 1.1: 2019-06-12
    Type: Data collection, Database references