4JLQ

Crystal structure of human Karyopherin-beta2 bound to the PY-NLS of Saccharomyces cerevisiae NAB2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of human Karyopherin beta 2 bound to the PY-NLS of Saccharomyces cerevisiae Nab2.

Soniat, M.Sampathkumar, P.Collett, G.Gizzi, A.S.Banu, R.N.Bhosle, R.C.Chamala, S.Chowdhury, S.Fiser, A.Glenn, A.S.Hammonds, J.Hillerich, B.Khafizov, K.Love, J.D.Matikainen, B.Seidel, R.D.Toro, R.Rajesh Kumar, P.Bonanno, J.B.Chook, Y.M.Almo, S.C.

(2013) J.Struct.Funct.Genom. 14: 31-35

  • DOI: 10.1007/s10969-013-9150-1

  • PubMed Abstract: 
  • Import-Karyopherin or Importin proteins bind nuclear localization signals (NLSs) to mediate the import of proteins into the cell nucleus. Karyopherin β2 or Kapβ2, also known as Transportin, is a member of this transporter family responsible for the i ...

    Import-Karyopherin or Importin proteins bind nuclear localization signals (NLSs) to mediate the import of proteins into the cell nucleus. Karyopherin β2 or Kapβ2, also known as Transportin, is a member of this transporter family responsible for the import of numerous RNA binding proteins. Kapβ2 recognizes a targeting signal termed the PY-NLS that lies within its cargos to target them through the nuclear pore complex. The recognition of PY-NLS by Kapβ2 is conserved throughout eukaryotes. Kap104, the Kapβ2 homolog in Saccharomyces cerevisiae, recognizes PY-NLSs in cargos Nab2, Hrp1, and Tfg2. We have determined the crystal structure of Kapβ2 bound to the PY-NLS of the mRNA processing protein Nab2 at 3.05-Å resolution. A seven-residue segment of the PY-NLS of Nab2 is observed to bind Kapβ2 in an extended conformation and occupies the same PY-NLS binding site observed in other Kapβ2·PY-NLS structures.


    Organizational Affiliation

    Department of Pharmacology, University of Texas Southwestern, Dallas, TX 75390, USA. michael.soniat@utsouthwestern.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transportin-1
A
854Homo sapiensGene Names: TNPO1 (KPNB2, MIP1, TRN)
Find proteins for Q92973 (Homo sapiens)
Go to Gene View: TNPO1
Go to UniProtKB:  Q92973
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear polyadenylated RNA-binding protein NAB2
B
38Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: NAB2
Find proteins for P32505 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: NAB2
Go to UniProtKB:  P32505
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.184 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 132.234α = 90.00
b = 172.383β = 90.00
c = 68.443γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
HKL-3000data reduction
SCALEPACKdata scaling
REFMACrefinement
CBASSdata collection
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-03
    Type: Initial release
  • Version 1.1: 2013-09-04
    Type: Database references
  • Version 1.2: 2017-07-26
    Type: Refinement description, Source and taxonomy