6FZS

Crystal structure of Smad5-MH1 bound to the GGCGC site.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.241 
  • 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)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mothers against decapentaplegic homolog 5A, B132Homo sapiensMutation(s): 0 
Gene Names: SMAD5MADH5
UniProt & NIH Common Fund Data Resources
Find proteins for Q99717 (Homo sapiens)
Explore Q99717 
Go to UniProtKB:  Q99717
PHAROS:  Q99717
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99717
Protein Feature View
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  • Reference Sequence

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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, D 16Homo sapiens
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.195 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.764α = 90
b = 73.374β = 90
c = 89.188γ = 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 ComissionGermanyEMBL_291772
European ComissionSpainIRBPostPro2.0_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