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PDBsum entry 1vz0
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protein metals Protein-protein interface(s) links
Nuclear protein PDB id
1vz0

 

 

 

 

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Contents
Protein chains
(+ 2 more) 187 a.a. *
Metals
_CO ×13
_MG ×2
Waters ×985
* Residue conservation analysis
PDB id:
1vz0
Name: Nuclear protein
Title: Chromosome segregation protein spo0j from thermus thermophilus
Structure: Chromosome-partitioning protein spo0j. Chain: a, b, c, d, e, f, g, h. Fragment: DNA-binding domain, residues 1-222. Engineered: yes
Source: Thermus thermophilus hb27. Organism_taxid: 262724. Atcc: baa-163d. Gene: spo0c, parb, tt_c1604. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Expression_system_variant: c41
Biol. unit: Dimer (from PDB file)
Resolution:
2.30Å     R-factor:   0.235     R-free:   0.278
Authors: T.A.Leonard,P.J.G.Butler,J.Lowe
Key ref: T.A.Leonard et al. (2004). Structural analysis of the chromosome segregation protein Spo0J from Thermus thermophilus. Mol Microbiol, 53, 419-432. PubMed id: 15228524
Date:
12-May-04     Release date:   19-Jul-04    
PROCHECK
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 Headers
 References

Protein chains
Pfam   ArchSchema ?
Q72H91  (SP0J_THET2) -  Chromosome-partitioning protein Spo0J from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)
Seq:
Struc: 		269 a.a.
187 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.?
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

 

 
Mol Microbiol 53:419-432 (2004)
PubMed id: 15228524  
 
 
Structural analysis of the chromosome segregation protein Spo0J from Thermus thermophilus.
T.A.Leonard, P.J.Butler, J.Löwe.
 
  ABSTRACT  
 
Prokaryotic chromosomes and plasmids encode partitioning systems that are required for DNA segregation at cell division. The plasmid partitioning loci encode two proteins, ParA and ParB, and a cis-acting centromere-like site denoted parS. The chromosomally encoded homologues of ParA and ParB, Soj and Spo0J, play an active role in chromosome segregation during bacterial cell division and sporulation. Spo0J is a DNA-binding protein that binds to parS sites in vivo. We have solved the X-ray crystal structure of a C-terminally truncated Spo0J (amino acids 1-222) from Thermus thermophilus to 2.3 A resolution by multiwavelength anomalous dispersion. It is a DNA-binding protein with structural similarity to the helix-turn-helix (HTH) motif of the lambda repressor DNA-binding domain. The crystal structure is an antiparallel dimer with the recognition alpha-helices of the HTH motifs of each monomer separated by a distance of 34 A corresponding to the length of the helical repeat of B-DNA. Sedimentation velocity and equilibrium ultracentrifugation studies show that full-length Spo0J exists in a monomer-dimer equilibrium in solution and that Spo0J1-222 is exclusively monomeric. Sedimentation of the C-terminal domain of Spo0J shows it to be exclusively dimeric, confirming that the C-terminus is the primary dimerization domain. We hypothesize that the C-terminus mediates dimerization of Spo0J, thereby effectively increasing the local concentration of the N-termini, which most probably dimerize, as shown by our structure, upon binding to a cognate parS site.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
  21142182 B.N.Chaudhuri, S.Gupta, V.S.Urban, M.R.Chance, R.D'Mello, L.Smith, K.Lyons, and J.Gee (2011).
A combined global and local approach to elucidate spatial organization of the Mycobacterial ParB-parS partition assembly.
  Biochemistry, 50, 1799-1807.  
21123191 L.Huang, P.Yin, X.Zhu, Y.Zhang, and K.Ye (2011).
Crystal structure and centromere binding of the plasmid segregation protein ParB from pCXC100.
  Nucleic Acids Res, 39, 2954-2968.
PDB code: 3no7
21143314 B.Ditkowski, P.Troć, K.Ginda, M.Donczew, K.F.Chater, J.Zakrzewska-Czerwińska, and D.Jakimowicz (2010).
The actinobacterial signature protein ParJ (SCO1662) regulates ParA polymerization and affects chromosome segregation and cell division during Streptomyces sporulation.
  Mol Microbiol, 78, 1403-1415.  
22477774 F.Gorrec (2009).
The MORPHEUS protein crystallization screen.
  J Appl Crystallogr, 42, 1035-1042.  
19906997 S.Ringgaard, J.van Zon, M.Howard, and K.Gerdes (2009).
Movement and equipositioning of plasmids by ParA filament disassembly.
  Proc Natl Acad Sci U S A, 106, 19369-19374.  
18854156 H.Murray, and J.Errington (2008).
Dynamic control of the DNA replication initiation protein DnaA by Soj/ParA.
  Cell, 135, 74-84.  
17729285 N.Shaw, W.Tempel, J.Chang, H.Yang, C.Cheng, J.Ng, J.Rose, Z.Rao, B.C.Wang, and Z.J.Liu (2008).
Crystal structure solution of a ParB-like nuclease at atomic resolution.
  Proteins, 70, 263-267.
PDB code: 1vk1
17462018 A.M.Breier, and A.D.Grossman (2007).
Whole-genome analysis of the chromosome partitioning and sporulation protein Spo0J (ParB) reveals spreading and origin-distal sites on the Bacillus subtilis chromosome.
  Mol Microbiol, 64, 703-718.  
16415929 F.Hayes, and D.Barillà (2006).
The bacterial segrosome: a dynamic nucleoprotein machine for DNA trafficking and segregation.
  Nat Rev Microbiol, 4, 133-143.  
16584885 F.Hayes, and D.Barillà (2006).
Assembling the bacterial segrosome.
  Trends Biochem Sci, 31, 247-250.  
16925562 H.Murray, H.Ferreira, and J.Errington (2006).
The bacterial chromosome segregation protein Spo0J spreads along DNA from parS nucleation sites.
  Mol Microbiol, 61, 1352-1361.  
16756499 K.A.Michie, and J.Löwe (2006).
Dynamic filaments of the bacterial cytoskeleton.
  Annu Rev Biochem, 75, 467-492.  
15866947 D.Jakimowicz, B.Gust, J.Zakrzewska-Czerwinska, and K.F.Chater (2005).
Developmental-stage-specific assembly of ParB complexes in Streptomyces coelicolor hyphae.
  J Bacteriol, 187, 3572-3580.  
16285868 G.Ebersbach, and K.Gerdes (2005).
Plasmid segregation mechanisms.
  Annu Rev Genet, 39, 453-479.  
15998739 K.Doubrovinski, and M.Howard (2005).
Stochastic model for Soj relocation dynamics in Bacillus subtilis.
  Proc Natl Acad Sci U S A, 102, 9808-9813.  
16306995 M.A.Schumacher, and B.E.Funnell (2005).
Structures of ParB bound to DNA reveal mechanism of partition complex formation.
  Nature, 438, 516-519.
PDB code: 1zx4
15635448 T.A.Leonard, P.J.Butler, and J.Löwe (2005).
Bacterial chromosome segregation: structure and DNA binding of the Soj dimer--a conserved biological switch.
  EMBO J, 24, 270-282.
PDB codes: 1wcv 2bej 2bek
16045624 Y.R.Sevastsyanovich, M.A.Titok, R.Krasowiak, L.E.Bingle, and C.M.Thomas (2005).
Ability of IncP-9 plasmid pM3 to replicate in Escherichia coli is dependent on both rep and par functions.
  Mol Microbiol, 57, 819-833.  
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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