Crystal structure of SND1 in complex with C-26-A2

Experimental Data Snapshot

  • Resolution: 2.65 Å
  • R-Value Free: 0.338 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.267 

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Small-molecule inhibitors that disrupt the MTDH-SND1 complex suppress breast cancer progression and metastasis.

Shen, M.Wei, Y.Kim, H.Wan, L.Jiang, Y.Z.Hang, X.Raba, M.Remiszewski, S.Rowicki, M.Wu, C.G.Wu, S.Zhang, L.Lu, X.Yuan, M.Smith, H.A.Zheng, A.Bertino, J.Jin, J.F.Xing, Y.Shao, Z.M.Kang, Y.

(2022) Nat Cancer 3: 43-59

  • DOI: https://doi.org/10.1038/s43018-021-00279-5
  • Primary Citation of Related Structures:  
    7KNW, 7KNX

  • PubMed Abstract: 

    Metastatic breast cancer is a leading health burden worldwide. Previous studies have shown that metadherin (MTDH) promotes breast cancer initiation, metastasis and therapy resistance; however, the therapeutic potential of targeting MTDH remains largely unexplored. Here, we used genetically modified mice and demonstrate that genetic ablation of Mtdh inhibits breast cancer development through disrupting the interaction with staphylococcal nuclease domain-containing 1 (SND1), which is required to sustain breast cancer progression in established tumors. We performed a small-molecule compound screening to identify a class of specific inhibitors that disrupts the protein-protein interaction (PPI) between MTDH and SND1 and show that our lead candidate compounds C26-A2 and C26-A6 suppressed tumor growth and metastasis and enhanced chemotherapy sensitivity in preclinical models of triple-negative breast cancer (TNBC). Our results demonstrate a significant therapeutic potential in targeting the MTDH-SND1 complex and identify a new class of therapeutic agents for metastatic breast cancer.

  • Organizational Affiliation

    Department of Molecular Biology, Princeton University, Princeton, NJ, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Staphylococcal nuclease domain-containing protein 1
A, B, C, D
324Homo sapiensMutation(s): 0 
Gene Names: SND1TDRD11
UniProt & NIH Common Fund Data Resources
Find proteins for Q7KZF4 (Homo sapiens)
Explore Q7KZF4 
Go to UniProtKB:  Q7KZF4
GTEx:  ENSG00000197157 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7KZF4
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.65 Å
  • R-Value Free: 0.338 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.267 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.24α = 82.71
b = 86.154β = 72
c = 82.426γ = 65.42
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

  • Released Date: 2021-12-08 
  • Deposition Author(s): Kang, Y.

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-08
    Type: Initial release
  • Version 1.1: 2022-02-16
    Changes: Database references