 |
PDBsum entry 1d5c
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
Endocytosis/exocytosis
|
PDB id
|
|
|
|
1d5c
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
Contents |
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
* Residue conservation analysis
|
|
|
|
|
References listed in PDB file
|
|
|
Key reference
|
|
|
Title
|
|
Structure of the nucleotide-Binding domain of plasmodium falciparum rab6 in the gdp-Bound form.
|
|
|
Authors
|
|
D.Chattopadhyay,
G.Langsley,
M.Carson,
R.Recacha,
L.Delucas,
C.Smith.
|
|
|
Ref.
|
|
Acta Crystallogr D Biol Crystallogr, 2000,
56,
937-944.
[DOI no: ]
|
|
|
PubMed id
|
|
|
|
|
|
Abstract
|
|
|
Rab proteins are small Ras-like GTPases which play important roles in regulating
intracellular vesicle trafficking. The nucleotide-binding domain of Rab6 from
the malaria parasite Plasmodium falciparum was crystallized with GDP bound to
the active site. The MAD phasing technique was used to determine the crystal
structure to 2.3 A resolution. Comparisons of the structure of GDP-bound PfRab6
with the recently determined structures of Rab3A in complex with either a GTP
analog or with GTP and Rabphillin present structural evidence supporting the
traditional model for the molecular GTP/GDP switch in Rab proteins. PfRab6
residues homologous to those distinguishing human Rab6 isoforms, which differ in
binding to Rabkinesin-6 in human cells, are located next to the recognized
complementarity-determining region (CDR) and constitute a conceptual broadening
of that domain. Despite significant observable differences in Golgi
ultrastructure, the Rab6 core structure and switch mechanism appear highly
conserved when compared with murine Rab3a structures. A significant difference
between the PfRab6 and higher eukaryotic Rabs may be the lack of CDR features
that allow binding interactions with Rabkinesin-type effectors.
|
|
|
|
|
|
|
|
Figure 1.
Figure 1 MAD electron-density map. The map computed with
experimental MAD phases is shown in stereo contoured at 2.0  .
The refined atomic model is shown with the GDP at the left; the
silver sphere is Mg2+ and the cyan spheres are coordinated water
molecules. All figures were prepared with RIBBONS (Carson,
1997[Carson, M. (1997). Methods Enzymol. 277, 493-505.]),
[95]http://www.cmc.uab.edu/ribbons .
|
|
Figure 5.
Figure 5 Superposition of Rab6t-GDP and Rab3a-GTP. Ribbon
drawings of Rab6t with the Rab3s superposed. The Rab6t ribbon is
white, with switch regions pink or orange as in Fig. 3-. The
3rab ribbon is cyan and the 1zbd ribbon is green. The Rab6t-GDP
atoms are shown as a ball-and-stick model colored by atom type.
The 3rab nucleotide atoms are shown as smaller balls and sticks
colored cyan.
|
|
|
|
|
|
The above figures are
reprinted
by permission from the IUCr:
Acta Crystallogr D Biol Crystallogr
(2000,
56,
937-944)
copyright 2000.
|
|
|
|
|
|
|
