5MF0 Transcription date Nov 16, 2016
title Crystal Structure Of Smad4-Mh1 Bound To The Ggccg Site.
authors Z.Kaczmarska, R.Freier, J.A.Marquez, M.J.Macias
compound source
Molecule: Mh1 Domain Of Human Smad4
Chain: A, B
Synonym: Mothers Against Dpp Homolog 4,Deletion Target In P Carcinoma 4,Smad Family Member 4,Hsmad4;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Smad4, Dpc4, Madh4
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- D(Papcpgpgpgpcpcpgpcpgpgpcpcpcpgpt)-3');
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 43
R_factor 0.231 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.520 101.520 45.780 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.03 Å
ligand CL, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for genome wide recognition of 5-bp GC motifs by SMAD transcription factors., Martin-Malpartida P, Batet M, Kaczmarska Z, Freier R, Gomes T, Aragon E, Zou Y, Wang Q, Xi Q, Ruiz L, Vea A, Marquez JA, Massague J, Macias MJ, Nat Commun. 2017 Dec 12;8(1):2070. doi: 10.1038/s41467-017-02054-6. PMID:29234012
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (5mf0.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 5MF0
  • CSU: Contacts of Structural Units for 5MF0
  • Structure Factors (318 Kb)
  • Retrieve 5MF0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MF0 from S2C, [Save to disk]
  • View 5MF0 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5MF0
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mf0_A] [5mf0_F] [5mf0_B] [5mf0_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MF0
  • Community annotation for 5MF0 at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science