5DIF Transport Protein date Aug 31, 2015
title Crystal Structure Of Cpeb4 Nes Peptide In Complex With Crm1-
authors H.Y.Fung, Y.M.Chook
compound source
Molecule: Gtp-Binding Nuclear Protein Ran
Chain: A
Synonym: Androgen Receptor-Associated Protein 24,Gtpase Ran Protein Tc4,Ras-Related Nuclear Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ran, Ara24, Oksw-Cl.81
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15

Molecule: Ran-Specific Gtpase-Activating Protein 1
Chain: B
Fragment: Randb1
Synonym: Chromosome Stability Protein 20,Perinuclear Array- Protein,Ran-Binding Protein 1,Ranbp1;
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Yrb1, Cst20, Htn1, Sfo1, Ydr002w, Yd8119.08
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex4t3

Molecule: Exportin-1
Chain: C
Synonym: Chromosome Region Maintenance Protein 1,Karyopheri
Engineered: Yes
Mutation: Yes

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Crm1, Kap124, Xpo1, Ygr218w, G8514
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex4t3

Molecule: Cytoplasmic Polyadenylation Element-Binding Prote
Chain: D
Fragment: Nuclear Export Signal
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: Cpeb4
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal
symmetry Space Group: P 43 21 2
R_factor 0.170 R_Free 0.208
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.993 105.993 304.063 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.09 Å
ligand CL, GNP, GOL, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • intracellular transport of v...

  • B


    C
  • nuclear import signal recept...


  • Primary referenceStructural determinants of nuclear export signal orientation in binding to exportin CRM1., Fung HY, Fu SC, Brautigam CA, Chook YM, Elife. 2015 Sep 8;4. doi: 10.7554/eLife.10034. PMID:26349033
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (483 Kb) [Save to disk]
  • Biological Unit Coordinates (5dif.pdb1.gz) 473 Kb
  • LPC: Ligand-Protein Contacts for 5DIF
  • CSU: Contacts of Structural Units for 5DIF
  • Structure Factors (952 Kb)
  • Retrieve 5DIF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DIF from S2C, [Save to disk]
  • Re-refined 5dif structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DIF 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 5DIF
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dif_B] [5dif] [5dif_D] [5dif_A] [5dif_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5DIF: [CRM1_C] [IBN_N] [RAN] [RanBD] [small_GTPase ] by SMART
  • Other resources with information on 5DIF
  • Community annotation for 5DIF at PDBWiki (http://pdbwiki.org)

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