6ZM1

Open-closed state of the Bt1762-Bt1763 levan transport system


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Insights into SusCD-mediated glycan import by a prominent gut symbiont.

Gray, D.A.White, J.B.R.Oluwole, A.O.Rath, P.Glenwright, A.J.Mazur, A.Zahn, M.Basle, A.Morland, C.Evans, S.L.Cartmell, A.Robinson, C.V.Hiller, S.Ranson, N.A.Bolam, D.N.van den Berg, B.

(2021) Nat Commun 12: 44-44

  • DOI: https://doi.org/10.1038/s41467-020-20285-y
  • Primary Citation of Related Structures:  
    6YTC, 6Z8I, 6Z9A, 6ZAZ, 6ZLT, 6ZLU, 6ZM1

  • PubMed Abstract: 

    In Bacteroidetes, one of the dominant phyla of the mammalian gut, active uptake of large nutrients across the outer membrane is mediated by SusCD protein complexes via a "pedal bin" transport mechanism. However, many features of SusCD function in glycan uptake remain unclear, including ligand binding, the role of the SusD lid and the size limit for substrate transport. Here we characterise the β2,6 fructo-oligosaccharide (FOS) importing SusCD from Bacteroides thetaiotaomicron (Bt1762-Bt1763) to shed light on SusCD function. Co-crystal structures reveal residues involved in glycan recognition and suggest that the large binding cavity can accommodate several substrate molecules, each up to ~2.5 kDa in size, a finding supported by native mass spectrometry and isothermal titration calorimetry. Mutational studies in vivo provide functional insights into the key structural features of the SusCD apparatus and cryo-EM of the intact dimeric SusCD complex reveals several distinct states of the transporter, directly visualising the dynamics of the pedal bin transport mechanism.


  • Organizational Affiliation

    Biosciences Institute, The Medical School, Newcastle University, Newcastle upon Tyne, NE2 4HH, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
SusD homolog
A, C
580Bacteroides thetaiotaomicron VPI-5482Mutation(s): 0 
Gene Names: BT_1762
Membrane Entity: Yes 
UniProt
Find proteins for Q8A6W4 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
Explore Q8A6W4 
Go to UniProtKB:  Q8A6W4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8A6W4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
SusC homolog
B, D
1,041Bacteroides thetaiotaomicron VPI-5482Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q8A6W3 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
Explore Q8A6W3 
Go to UniProtKB:  Q8A6W3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8A6W3
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/P003192/1
Wellcome TrustUnited Kingdom215064/Z/18/Z
Wellcome TrustUnited Kingdom108466/Z/15/Z
Swiss National Science FoundationSwitzerland167125
Medical Research Council (MRC, United Kingdom)United KingdomMR/N020413/1

Revision History  (Full details and data files)

  • Version 1.0: 2020-11-11
    Type: Initial release
  • Version 1.1: 2021-01-20
    Changes: Database references