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PDBsum entry 2zhc
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Cell cycle/protein fibril
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PDB id
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2zhc
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Contents |
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* Residue conservation analysis
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PDB id:
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Cell cycle/protein fibril
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Title:
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Parm filament
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Structure:
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Plasmid segregation protein parm. Chain: a. Synonym: protein stba, para locus 36 kda protein. Engineered: yes
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Source:
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Escherichia coli. Organism_taxid: 562. Gene: parm, stba. Expressed in: escherichia coli bl21. Expression_system_taxid: 511693.
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Authors:
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D.Popp,A.Narita,T.Oda,T.Fujisawa,H.Matsuo,Y.Nitanai,M.Iwasa,K.Maeda, H.Onishi,Y.Maeda
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Key ref:
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D.Popp
et al.
(2008).
Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability.
Embo J,
27,
570-579.
PubMed id:
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Date:
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04-Feb-08
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Release date:
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26-Feb-08
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PROCHECK
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Headers
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References
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P11904
(PARM_ECOLX) -
Plasmid segregation protein ParM from Escherichia coli
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Seq:
Struc:
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320 a.a.
320 a.a.
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Key: |
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PfamA domain |
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Secondary structure |
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Embo J
27:570-579
(2008)
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PubMed id:
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Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability.
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D.Popp,
A.Narita,
T.Oda,
T.Fujisawa,
H.Matsuo,
Y.Nitanai,
M.Iwasa,
K.Maeda,
H.Onishi,
Y.Maéda.
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ABSTRACT
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ParM is a prokaryotic actin homologue, which ensures even plasmid segregation
before bacterial cell division. In vivo, ParM forms a labile filament bundle
that is reminiscent of the more complex spindle formed by microtubules
partitioning chromosomes in eukaryotic cells. However, little is known about the
underlying structural mechanism of DNA segregation by ParM filaments and the
accompanying dynamic instability. Our biochemical, TIRF microscopy and
high-pressure SAX observations indicate that polymerization and disintegration
of ParM filaments is driven by GTP rather than ATP and that ParM acts as a
GTP-driven molecular switch similar to a G protein. Image analysis of electron
micrographs reveals that the ParM filament is a left-handed helix, opposed to
the right-handed actin polymer. Nevertheless, the intersubunit contacts are
similar to those of actin. Our atomic model of the ParM-GMPPNP filament, which
also fits well to X-ray fibre diffraction patterns from oriented gels, can
explain why after nucleotide release, large conformational changes of the
protomer lead to a breakage of intra- and interstrand interactions, and thus to
the observed disintegration of the ParM filament after DNA segregation.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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D.Popp,
and
R.C.Robinson
(2011).
Many ways to build an actin filament.
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Mol Microbiol,
80,
300-308.
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R.Dominguez,
and
K.C.Holmes
(2011).
Actin structure and function.
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Annu Rev Biophys,
40,
169-186.
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D.Popp,
A.Narita,
K.Maeda,
T.Fujisawa,
U.Ghoshdastider,
M.Iwasa,
Y.Maéda,
and
R.C.Robinson
(2010).
Filament structure, organization, and dynamics in MreB sheets.
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J Biol Chem,
285,
15858-15865.
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D.Popp,
W.Xu,
A.Narita,
A.J.Brzoska,
R.A.Skurray,
N.Firth,
U.Ghoshdastider,
U.Goshdastider,
Y.Maéda,
R.C.Robinson,
and
M.A.Schumacher
(2010).
Structure and filament dynamics of the pSK41 actin-like ParM protein: implications for plasmid DNA segregation.
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J Biol Chem,
285,
10130-10140.
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PDB code:
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J.Salje,
P.Gayathri,
and
J.Löwe
(2010).
The ParMRC system: molecular mechanisms of plasmid segregation by actin-like filaments.
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Nat Rev Microbiol,
8,
683-692.
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K.Gerdes,
M.Howard,
and
F.Szardenings
(2010).
Pushing and pulling in prokaryotic DNA segregation.
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Cell,
141,
927-942.
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L.Ni,
W.Xu,
M.Kumaraswami,
and
M.A.Schumacher
(2010).
Plasmid protein TubR uses a distinct mode of HTH-DNA binding and recruits the prokaryotic tubulin homolog TubZ to effect DNA partition.
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Proc Natl Acad Sci U S A,
107,
11763-11768.
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PDB codes:
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M.A.Schumacher,
K.M.Piro,
and
W.Xu
(2010).
Insight into F plasmid DNA segregation revealed by structures of SopB and SopB-DNA complexes.
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Nucleic Acids Res,
38,
4514-4526.
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PDB codes:
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M.T.Cabeen,
and
C.Jacobs-Wagner
(2010).
The bacterial cytoskeleton.
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Annu Rev Genet,
44,
365-392.
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T.Oda,
and
Y.Maéda
(2010).
Multiple Conformations of F-actin.
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Structure,
18,
761-767.
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A.I.Derman,
E.C.Becker,
B.D.Truong,
A.Fujioka,
T.M.Tucey,
M.L.Erb,
P.C.Patterson,
and
J.Pogliano
(2009).
Phylogenetic analysis identifies many uncharacterized actin-like proteins (Alps) in bacteria: regulated polymerization, dynamic instability and treadmilling in Alp7A.
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Mol Microbiol,
73,
534-552.
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J.Löwe,
and
L.A.Amos
(2009).
Evolution of cytomotive filaments: the cytoskeleton from prokaryotes to eukaryotes.
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Int J Biochem Cell Biol,
41,
323-329.
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J.Salje,
B.Zuber,
and
J.Löwe
(2009).
Electron cryomicroscopy of E. coli reveals filament bundles involved in plasmid DNA segregation.
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Science,
323,
509-512.
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N.Yutin,
M.Y.Wolf,
Y.I.Wolf,
and
E.V.Koonin
(2009).
The origins of phagocytosis and eukaryogenesis.
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Biol Direct,
4,
9.
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P.L.Graumann
(2009).
Dynamics of bacterial cytoskeletal elements.
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Cell Motil Cytoskeleton,
66,
909-914.
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S.Kunzelmann,
and
M.R.Webb
(2009).
A biosensor for fluorescent determination of ADP with high time resolution.
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J Biol Chem,
284,
33130-33138.
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T.D.Dunham,
W.Xu,
B.E.Funnell,
and
M.A.Schumacher
(2009).
Structural basis for ADP-mediated transcriptional regulation by P1 and P7 ParA.
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EMBO J,
28,
1792-1802.
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PDB codes:
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V.E.Galkin,
A.Orlova,
C.Rivera,
R.D.Mullins,
and
E.H.Egelman
(2009).
Structural polymorphism of the ParM filament and dynamic instability.
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Structure,
17,
1253-1264.
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PDB codes:
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E.H.Egelman
(2008).
Problems in fitting high resolution structures into electron microscopic reconstructions.
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HFSP J,
2,
324-331.
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J.Salje,
and
J.Löwe
(2008).
Bacterial actin: architecture of the ParMRC plasmid DNA partitioning complex.
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EMBO J,
27,
2230-2238.
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N.D.Thomsen,
and
J.M.Berger
(2008).
Structural frameworks for considering microbial protein- and nucleic acid-dependent motor ATPases.
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Mol Microbiol,
69,
1071-1090.
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The most recent references are shown first.
Citation data come partly from CiteXplore and partly
from an automated harvesting procedure. Note that this is likely to be
only a partial list as not all journals are covered by
either method. However, we are continually building up the citation data
so more and more references will be included with time.
Where a reference describes a PDB structure, the PDB
code is
shown on the right.
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Links
