7WMV

Structure of human SGLT1-MAP17 complex bound with LX2761


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural mechanism of SGLT1 inhibitors.

Niu, Y.Cui, W.Liu, R.Wang, S.Ke, H.Lei, X.Chen, L.

(2022) Nat Commun 13: 6440-6440

  • DOI: https://doi.org/10.1038/s41467-022-33421-7
  • Primary Citation of Related Structures:  
    7WMV

  • PubMed Abstract: 

    Sodium glucose co-transporters (SGLT) harness the electrochemical gradient of sodium to drive the uphill transport of glucose across the plasma membrane. Human SGLT1 (hSGLT1) plays a key role in sugar uptake from food and its inhibitors show promise in the treatment of several diseases. However, the inhibition mechanism for hSGLT1 remains elusive. Here, we present the cryo-EM structure of the hSGLT1-MAP17 hetero-dimeric complex in the presence of the high-affinity inhibitor LX2761. LX2761 locks the transporter in an outward-open conformation by wedging inside the substrate-binding site and the extracellular vestibule of hSGLT1. LX2761 blocks the putative water permeation pathway of hSGLT1. The structure also uncovers the conformational changes of hSGLT1 during transitions from outward-open to inward-open states.


  • Organizational Affiliation

    State Key Laboratory of Membrane Biology, College of Future Technology, Institute of Molecular Medicine, Peking University, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Beijing, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sodium/glucose cotransporter 1664Homo sapiensMutation(s): 0 
Gene Names: SLC5A1NAGTSGLT1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P13866 (Homo sapiens)
Explore P13866 
Go to UniProtKB:  P13866
PHAROS:  P13866
GTEx:  ENSG00000100170 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP13866
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
PDZK1-interacting protein 1114Homo sapiensMutation(s): 0 
Gene Names: PDZK1IP1MAP17
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13113 (Homo sapiens)
Explore Q13113 
Go to UniProtKB:  Q13113
PHAROS:  Q13113
GTEx:  ENSG00000162366 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13113
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
1YI (Subject of Investigation/LOI)
Query on 1YI

Download Ideal Coordinates CCD File 
C [auth A]N-[2-(dimethylamino)ethyl]-2-methyl-2-[4-[4-[[2-methyl-5-[(2S,3R,4R,5S,6R)-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]phenyl]methyl]phenyl]butanoylamino]propanamide
C32 H47 N3 O6 S
BNPZTRDIESRGTC-IXYVTWBDSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
1YI BindingDB:  7WMV IC50: min: 2.2, max: 10 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARCv3.1.0

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China91957201
National Natural Science Foundation of China (NSFC)China31821091
National Natural Science Foundation of China (NSFC)China31870833

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-16
    Type: Initial release