3W5K Nuclear Protein Metal Binding Protein date Jan 30, 2013
title Crystal Structure Of Snail1 And Importin Beta Complex
authors S.Choi, E.Yamashita, N.Yasuhara, J.Song, S.Y.Son, Y.H.Won, Y.S.Shi T.Sekimoto, I.Y.Park, Y.Yoneda, S.J.Lee
compound source
Molecule: Importin Subunit Beta-1
Chain: A
Synonym: Importin-90, Karyopherin Subunit Beta-1, Nuclear F Pore Targeting Complex 97 Kda Subunit, Ptac97;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Kpnb1, Ntf97
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex4t-Tev

Molecule: Zinc Finger Protein Snai1
Chain: B
Synonym: Protein Snail Homolog 1, Protein Sna
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snai1, Snah
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex4t-Tev
symmetry Space Group: C 1 2 1
R_factor 0.215 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
228.210 77.528 72.019 90.00 100.96 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • establishment of mitotic spi...
  • intracellular transport of v...

  • B


    Primary referenceStructural basis for the selective nuclear import of the C2H2 zinc-finger protein Snail by importin beta., Choi S, Yamashita E, Yasuhara N, Song J, Son SY, Won YH, Hong HR, Shin YS, Sekimoto T, Park IY, Yoneda Y, Lee SJ, Acta Crystallogr D Biol Crystallogr. 2014 Apr 1;70(Pt 4):1050-60. doi:, 10.1107/S1399004714000972. Epub 2014 Mar 19. PMID:24699649
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (328 Kb) [Save to disk]
  • Biological Unit Coordinates (3w5k.pdb1.gz) 321 Kb
  • LPC: Ligand-Protein Contacts for 3W5K
  • CSU: Contacts of Structural Units for 3W5K
  • Structure Factors (627 Kb)
  • Retrieve 3W5K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3W5K from S2C, [Save to disk]
  • Re-refined 3w5k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3W5K 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 3W5K
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3W5K, from MSDmotif at EBI
  • Fold representative 3w5k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3w5k_B] [3w5k_A] [3w5k]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3W5K: [IBN_N] [ZnF_C2H2 ] by SMART
  • Other resources with information on 3W5K
  • Community annotation for 3W5K at PDBWiki (http://pdbwiki.org)

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