ISDA: 4HB3

Deposition Date 2012-09-27

Release Date 2013-01-09

Last Version Date 2024-02-28

Entry Detail

PDB ID:

4HB3

Keywords:

PROTEIN TRANSPORT/ANTIBIOTIC

Title:

Crystal structure of CRM1(T539S)-Ran-RanBP1 with weakly bound unmodeled Leptomycin B

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)
Saccharomyces cerevisiae (Taxon ID: 4932)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.80 Å

R-Value Free:

0.27

R-Value Work:

0.24

R-Value Observed:

0.24

Space Group:

P 43 21 2

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:GTP-binding nuclear protein Ran
Gene (Uniprot):RAN
Chain IDs:A
Chain Length:216
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62826 Pfam ID:PF00071

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ran-specific GTPase-activating protein 1
Gene (Uniprot):YRB1
Chain IDs:B
Chain Length:140
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P41920 Pfam ID:PF00638

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Exportin-1
Gene (Uniprot):CRM1
Mutagens:T539S,Y1022C
Chain IDs:C
Chain Length:1023
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P30822 Pfam ID:PF03810, PF08389, PF18777, PF18784, PF18787, PF08767

Ligand Molecules

GNP

Primary Citation

Nuclear export inhibition through covalent conjugation and hydrolysis of Leptomycin B by CRM1.

Sun, Q, Carrasco, Y.P, Hu, Y, Guo, X, Mirzaei, H, Macmillan, J, Chook, Y.M.Show

Proc.Natl.Acad.Sci.USA 110 1303 1308 (2013)

PMID: 23297231 DOI: 10.1073/pnas.1217203110

Abstact

The polyketide natural product Leptomycin B inhibits nuclear export mediated by the karyopherin protein chromosomal region maintenance 1 (CRM1). Here, we present 1.8- to 2.0-Å-resolution crystal structures of CRM1 bound to Leptomycin B and related inhibitors Anguinomycin A and Ratjadone A. Structural and complementary chemical analyses reveal an unexpected mechanism of inhibition involving covalent conjugation and CRM1-mediated hydrolysis of the natural products' lactone rings. Furthermore, mutagenesis reveals the mechanism of hydrolysis by CRM1. The nuclear export signal (NES)-binding groove of CRM1 is able to drive a chemical reaction in addition to binding protein cargoes for transport through the nuclear pore complex.

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Primary Citation of related structures

Abstact

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