4HB0

Crystal structure of CRM1 inhibitor Leptomycin B in complex with CRM1(K541Q,K542Q,R543S,K545Q,K548Q,K579Q)-Ran-RanBP1

Structural Biology Knowledgebase: 4HB0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.186

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4HB0

Classification: PROTEIN TRANSPORT / ANTIBIOTIC

Total Structure Weight: 159388.26

Macromolecule Entities
Molecule Chains Length Organism Details
GTP-binding nuclear protein Ran A 216 Homo sapiens Gene Name(s): RAN Gene View ARA24 OK/SW-cl.81
Ran-specific GTPase-activating protein 1 B 140 Saccharomyces cerevisiae Fragment: RanDB1 (UNP residues 62-201)
Mutation: A98K
Gene Name(s): YRB1 CST20 HTN1 Gene View SFO1 YDR002W YD8119.08
Exportin-1 C 1023 Saccharomyces cerevisiae Fragment: SEE REMARK 999
Mutation: T539C, K541Q, K542Q, R543S, K545Q, K548Q, K579Q, Y1022C
Gene Name(s): CRM1 KAP124 XPO1 Gene View YGR218W G8514

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
GNP
Query on GNP

A PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
Ligand Explorer
 
JSmol
LBF
Query on LBF

C Leptomycin B
C33 H48 O6
YACHGFWEQXFSBS-XYERBDPFSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.186
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 105.54 α = 90.00
b = 105.54 β = 90.00
c = 305.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-09-27
  • Released Date: 2013-01-09
  • Deposition author(s): Sun, Q., Chook, Y.M.

Revision History

  • 2013-02-06
    Type: Citation | Details: Citation update
  • 2013-01-23
    Type: Citation | Details: Citation update