6FZT

Crystal structure of Smad8_9-MH1 bound to the GGCGC site.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.46 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Unveiling the dimer/monomer propensities of Smad MH1-DNA complexes

Ruiz, L.Kaczmarska, Z.Gomes, T.Aragon, E.Torner, C.Freier, R.Baginski, B.Martin-Malpartida, P.Marquez, J.A.Cordeiro, T.N.Pluta, R.Macias, M.J.

(2021) Computational And Structural Biotechnology Journal 19


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mothers against decapentaplegic homolog 9A, B140Homo sapiensMutation(s): 0 
Gene Names: SMAD9MADH6MADH9SMAD8
UniProt & NIH Common Fund Data Resources
Find proteins for O15198 (Homo sapiens)
Explore O15198 
Go to UniProtKB:  O15198
PHAROS:  O15198
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(P*TP*GP*CP*AP*GP*GP*CP*GP*CP*GP*CP*CP*TP*GP*CP*A)-3')C, D16Homo sapiens
    Protein Feature View
    Expand
    • Reference Sequence
    Small Molecules
    Ligands 2 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    GOL
    Query on GOL

    Download Ideal Coordinates CCD File 
    F [auth A], H [auth B]GLYCEROL
    C3 H8 O3
    PEDCQBHIVMGVHV-UHFFFAOYSA-N
     Ligand Interaction
    ZN
    Query on ZN

    Download Ideal Coordinates CCD File 
    E [auth A], G [auth B]ZINC ION
    Zn
    PTFCDOFLOPIGGS-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.46 Å
    • R-Value Free: 0.237 
    • R-Value Work: 0.193 
    • R-Value Observed: 0.195 
    • Space Group: P 21 21 21
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 75.433α = 90
    b = 79.509β = 90
    c = 88.372γ = 90
    Software Package:
    Software NamePurpose
    BUSTERrefinement
    XDSdata reduction
    autoPROCdata scaling
    PHASERphasing

    Structure Validation

    View Full Validation Report




    Entry History & Funding Information

    Deposition Data


    Funding OrganizationLocationGrant Number
    European CommissionGermanyEMBL_291772
    European CommissionSpainIRBPostPro2.0_600404
    Ministry of Economy and CompetitivenessSpainBFU2014-53787-P
    European CommissionFrance653706

    Revision History  (Full details and data files)

    • Version 1.0: 2019-10-02
      Type: Initial release
    • Version 1.1: 2020-10-07
      Changes: Derived calculations, Refinement description
    • Version 1.2: 2021-01-20
      Changes: Database references