2R75

Aquifex aeolicus FtsZ with 8-morpholino-GTP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.137 
  • R-Value Observed: 0.139 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Probing FtsZ and tubulin with C8-substituted GTP analogs reveals differences in their nucleotide binding sites

Lappchen, T.Pinas, V.A.Hartog, A.F.Koomen, G.J.Schaffner-Barbero, C.Andreu, J.M.Trambaiolo, D.Lowe, J.Juhem, A.Popov, A.V.den Blaauwen, T.

(2008) Chem Biol 15: 189-199

  • DOI: 10.1016/j.chembiol.2007.12.013
  • Primary Citation of Related Structures:  
    2R75

  • PubMed Abstract: 
  • The cytoskeletal proteins, FtsZ and tubulin, play a pivotal role in prokaryotic cell division and eukaryotic chromosome segregation, respectively. Selective inhibitors of the GTP-dependent polymerization of FtsZ could constitute a new class of antibiotics, while several inhibitors of tubulin are widely used in antiproliferative therapy ...

    The cytoskeletal proteins, FtsZ and tubulin, play a pivotal role in prokaryotic cell division and eukaryotic chromosome segregation, respectively. Selective inhibitors of the GTP-dependent polymerization of FtsZ could constitute a new class of antibiotics, while several inhibitors of tubulin are widely used in antiproliferative therapy. In this work, we set out to identify selective inhibitors of FtsZ based on the structure of its natural ligand, GTP. We found that GTP analogs with small hydrophobic substituents at C8 of the nucleobase efficiently inhibit FtsZ polymerization, whereas they have an opposite effect on the polymerization of tubulin. The inhibitory activity of the GTP analogs on FtsZ polymerization allowed us to crystallize FtsZ in complex with C8-morpholino-GTP, revealing the binding mode of a GTP derivative containing a nonmodified triphosphate chain.


    Organizational Affiliation

    Van 't Hoff Institute for Molecular Sciences, Bioorganic Chemistry, University of Amsterdam, Nieuwe Achtergracht 129, 1018 WS Amsterdam, The Netherlands.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cell division protein ftsZA [auth 1]338Aquifex aeolicusMutation(s): 0 
Gene Names: ftsZ
UniProt
Find proteins for O66809 (Aquifex aeolicus (strain VF5))
Explore O66809 
Go to UniProtKB:  O66809
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO66809
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
01G
Query on 01G

Download Ideal Coordinates CCD File 
C [auth 1]8-morpholin-4-ylguanosine 5'-(tetrahydrogen triphosphate)
C14 H23 N6 O15 P3
YYAPYNUGMUZNGD-WOUKDFQISA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
B [auth 1]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
01G PDBBind:  2R75 Kd: 714 (nM) from 1 assay(s)
Binding MOAD:  2R75 Kd: 714 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.184 
  • R-Value Work: 0.137 
  • R-Value Observed: 0.139 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.846α = 90
b = 74.177β = 95.08
c = 44.197γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-07-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance