4QMG

The Structure of MTDH-SND1 Complex Reveals Novel Cancer-Promoting Interactions

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.701 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.190 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history. 

Literature

Structural Insights into the Tumor-Promoting Function of the MTDH-SND1 Complex.

Guo, F., Wan, L., Zheng, A., Stanevich, V., Wei, Y., Satyshur, K.A., Shen, M., Lee, W., Kang, Y., Xing, Y.

(2014) Cell Rep 8: 1704-1713

  • DOI: 10.1016/j.celrep.2014.08.033

  • PubMed Abstract: 

    • Metadherin (MTDH) and Staphylococcal nuclease domain containing 1 (SND1) are overexpressed and interact in diverse cancer types. The structural mechanism of their interaction remains unclear. Here, we determined the high-resolution crystal structure ...

    Metadherin (MTDH) and Staphylococcal nuclease domain containing 1 (SND1) are overexpressed and interact in diverse cancer types. The structural mechanism of their interaction remains unclear. Here, we determined the high-resolution crystal structure of MTDH-SND1 complex, which reveals an 11-residue MTDH peptide motif occupying an extended protein groove between two SN domains (SN1/2), with two MTDH tryptophan residues nestled into two well-defined pockets in SND1. At the opposite side of the MTDH-SND1 binding interface, SND1 possesses long protruding arms and deep surface valleys that are prone to binding with other partners. Despite the simple binding mode, interactions at both tryptophan-binding pockets are important for MTDH and SND1's roles in breast cancer and for SND1 stability under stress. Our study reveals a unique mode of interaction with SN domains that dictates cancer-promoting activity and provides a structural basis for mechanistic understanding of MTDH-SND1-mediated signaling and for exploring therapeutic targeting of this complex.

    Organizational Affiliation: 

    McArdle Laboratory for Cancer Research, Department of Oncology, University of Wisconsin-Madison, School of Medicine and Public Health, Madison, WI 53706, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Staphylococcal nuclease domain-containing protein 1
A, B, C, D, E
325Homo sapiensMutation(s): 0 
Gene Names: SND1 (TDRD11)
EC: 3.1.31.1
Find proteins for Q7KZF4 (Homo sapiens)
Go to Gene View: SND1
Go to UniProtKB:  Q7KZF4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein LYRIC
F, G, H, I, J
43Homo sapiensMutation(s): 0 
Gene Names: MTDH (AEG1, LYRIC)
Find proteins for Q86UE4 (Homo sapiens)
Go to Gene View: MTDH
Go to UniProtKB:  Q86UE4
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
Download SDF File 
Download CCD File 
A, B, C, D, E
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL
Download SDF File 
Download CCD File 
B, D, E
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
CS
Query on CS
Download SDF File 
Download CCD File 
A, B, C, D, E
CESIUM ION
Cs
NCMHKCKGHRPLCM-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.701 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.190 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 121.830α = 90.00
b = 65.715β = 96.31
c = 135.841γ = 90.00
Software Package:
Software NamePurpose
PHENIXmodel building
HKL-2000data reduction
PHENIXphasing
HKL-2000data scaling
PHENIXrefinement
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-10-08
    Type: Initial release