4C4P

Crystal Structure of Wild-Type Rab11 Complexed to FIP2

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history. 

Literature

Structural and Functional Analysis of Fip2 Binding to the Endosome-Localised Rab25 Gtpase

Lall, P., Horgan, C.P., Oda, S., Franklin, E., Sultana, A., Hanscomb, S.R., Mccaffrey, M.W., Khan, A.R.

(2013) Biochim.Biophys.Acta 1834: 2679

  • DOI: 10.1016/j.bbapap.2013.09.005

  • PubMed Abstract: 

    • Rab small GTPases are the master regulators of intracellular trafficking in eukaryotes. They mediate spatial and temporal recruitment of effector proteins to distinct cellular compartments through GTP-induced changes in their conformation. Despite nu ...

    Rab small GTPases are the master regulators of intracellular trafficking in eukaryotes. They mediate spatial and temporal recruitment of effector proteins to distinct cellular compartments through GTP-induced changes in their conformation. Despite numerous structural studies, the molecular basis for Rab/effector specificity and subsequent biological activity remains poorly understood. Rab25, also known as Rab11c, which is epithelial-specific, has been heavily implicated in ovarian cancer development and independently appears to act as a tumour suppressor in the context of a distinct subset of carcinomas. Here, we show that Rab25 associates with FIP2 and can recruit this effector protein to endosomal membranes. We report the crystal structure of Rab25 in complex with the C-terminal region of FIP2, which consists of a central dimeric FIP2 coiled-coil that mediates a heterotetrameric Rab25-(FIP2)2-Rab25 complex. Thermodynamic analyses show that, despite a relatively conserved interface, FIP2 binds to Rab25 with an approximate 3-fold weaker affinity than to Rab11a. Reduced affinity is mainly associated with lower enthalpic gains for Rab25:FIP2 complex formation, and can be attributed to subtle differences in the conformations of switch 1 and switch 2. These cellular, structural and thermodynamic studies provide insight into the Rab11/Rab25 subfamily of small GTPases that regulate endosomal trafficking pathways in eukaryotes.

    Organizational Affiliation: 

    School of Biochemistry and Immunology, Trinity College, Dublin 2, Ireland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RAS-RELATED PROTEIN RAB-11A
A
173Homo sapiensMutation(s): 0 
Gene Names: RAB11A (RAB11)
Find proteins for P62491 (Homo sapiens)
Go to Gene View: RAB11A
Go to UniProtKB:  P62491
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RAB11 FAMILY-INTERACTING PROTEIN 2
B
107Homo sapiensMutation(s): 0 
Gene Names: RAB11FIP2 (KIAA0941)
Find proteins for Q7L804 (Homo sapiens)
Go to Gene View: RAB11FIP2
Go to UniProtKB:  Q7L804
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG
Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GNP
Query on GNP
Download SDF File 
Download CCD File 
A
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.180 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 64.560α = 90.00
b = 64.560β = 90.00
c = 112.860γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-09-18
    Type: Initial release
  • Version 1.1: 2013-10-02
    Type: Atomic model, Database references
  • Version 1.2: 2013-10-30
    Type: Database references
  • Version 1.3: 2015-09-16
    Type: Source and taxonomy