Difference between revisions of "SubtInteract"

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(Visualization of protein-protein interactions in B. subtilis)
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==Visualization of protein-protein interactions in ''B. subtilis''==
 
==Visualization of protein-protein interactions in ''B. subtilis''==
* the beta  version of an [http://cellpublisher.gobics.de/subtinteract/interactionList/1/PtsH interactive protein-protein interaction map] (just replace "PtsH" in the browser line by the protein of your interest)
+
* [http://cellpublisher.gobics.de/subtinteract/startpage/start/ interactive protein-protein interaction map]  
 
* the beta version of [http://subtiwiki.uni-goettingen.de/pathways/SubtInteract/demo_mitlinks/ SubtInteract]
 
* the beta version of [http://subtiwiki.uni-goettingen.de/pathways/SubtInteract/demo_mitlinks/ SubtInteract]
  

Revision as of 20:31, 27 April 2011

Protein-protein interactions are essential for many activities of any living cell. These interactions involve multi-protein complexes that take part in central processes such as DNA replication, transcription or translation. Protein-protein interactions may also be involved in a variety of regulatory events. Metabolic enzymes do often form transien complexes that represent a complete pathways. These complexes are called metabolon. Finally, many interactions may be of a transient nature.

Methods to detect protein-protein interactions

  • Yeast Two Hybrid System PubMed
  • SPINE: A method to detect in vivo protein-protein interactions after cross-linking PubMed
  • in vivo detection of protein-protein interaction using DivIVA and GFP PubMed

Attention: Each technique detects only about 33% of all interactions PubMed

Visualization of protein-protein interactions in B. subtilis

Protein complexes in B. subtilis

DNA replication: the replisome

transcription: RNA polymerase

translation: the ribosome

synthesis of glutamyl-tRNA(Gln): the transamidosome (GatA-GatB-GatC)-GltX-trnS-Gln

RNA processing and degradation: the RNA degradosome

general stress response: the stressosome

cell division: the divisome

DNA uptake: the pseudopilus PubMed

metabolism: the metabolons of glycolysis and the TCA cycle PubMed

Important publications

Agnès Vendeville, Damien Larivière, Eric Fourmentin
An inventory of the bacterial macromolecular components and their spatial organization.
FEMS Microbiol Rev: 2011, 35(2);395-414
[PubMed:20969605] [WorldCat.org] [DOI] (I p)

Mike P Williamson, Michael J Sutcliffe
Protein-protein interactions.
Biochem Soc Trans: 2010, 38(4);875-8
[PubMed:20658969] [WorldCat.org] [DOI] (I p)

Patrick Amar, Guillaume Legent, Michel Thellier, Camille Ripoll, Gilles Bernot, Thomas Nystrom, Milton H Saier, Vic Norris
A stochastic automaton shows how enzyme assemblies may contribute to metabolic efficiency.
BMC Syst Biol: 2008, 2;27
[PubMed:18366733] [WorldCat.org] [DOI] (I e)

Adam Brymora, Valentina A Valova, Phillip J Robinson
Protein-protein interactions identified by pull-down experiments and mass spectrometry.
Curr Protoc Cell Biol: 2004, Chapter 17;Unit 17.5
[PubMed:18228443] [WorldCat.org] [DOI] (I p)

Hongtao Guan, Endre Kiss-Toth
Advanced technologies for studies on protein interactomes.
Adv Biochem Eng Biotechnol: 2008, 110;1-24
[PubMed:18219467] [WorldCat.org] [DOI] (I p)

Vincent Collura, Guillaume Boissy
From protein-protein complexes to interactomics.
Subcell Biochem: 2007, 43;135-83
[PubMed:17953394] [WorldCat.org] [DOI] (P p)

Philippe Noirot, Marie-Françoise Noirot-Gros
Protein interaction networks in bacteria.
Curr Opin Microbiol: 2004, 7(5);505-12
[PubMed:15451506] [WorldCat.org] [DOI] (P p)

Barry Causier
Studying the interactome with the yeast two-hybrid system and mass spectrometry.
Mass Spectrom Rev: 2004, 23(5);350-67
[PubMed:15264234] [WorldCat.org] [DOI] (P p)

Andrzej Dziembowski, Bertrand Séraphin
Recent developments in the analysis of protein complexes.
FEBS Lett: 2004, 556(1-3);1-6
[PubMed:14706816] [WorldCat.org] [DOI] (P p)

Alfonso Valencia, Florencio Pazos
Computational methods for the prediction of protein interactions.
Curr Opin Struct Biol: 2002, 12(3);368-73
[PubMed:12127457] [WorldCat.org] [DOI] (P p)

Peter Uetz
Two-hybrid arrays.
Curr Opin Chem Biol: 2002, 6(1);57-62
[PubMed:11827824] [WorldCat.org] [DOI] (P p)

P Legrain, J Wojcik, J M Gauthier
Protein--protein interaction maps: a lead towards cellular functions.
Trends Genet: 2001, 17(6);346-52
[PubMed:11377797] [WorldCat.org] [DOI] (P p)

C L Tucker, J F Gera, P Uetz
Towards an understanding of complex protein networks.
Trends Cell Biol: 2001, 11(3);102-6
[PubMed:11306254] [WorldCat.org] [DOI] (P p)

P Uetz, R E Hughes
Systematic and large-scale two-hybrid screens.
Curr Opin Microbiol: 2000, 3(3);303-8
[PubMed:10851163] [WorldCat.org] [DOI] (P p)

Z Chen, M Han
Building a protein interaction map: research in the post-genome era.
Bioessays: 2000, 22(6);503-6
[PubMed:10842303] [WorldCat.org] [DOI] (P p)

P A Srere
Macromolecular interactions: tracing the roots.
Trends Biochem Sci: 2000, 25(3);150-3
[PubMed:10694888] [WorldCat.org] [DOI] (P p)

P A Srere, J Ovadi
Enzyme-enzyme interactions and their metabolic role.
FEBS Lett: 1990, 268(2);360-4
[PubMed:2200717] [WorldCat.org] [DOI] (P p)

P A Srere
Complexes of sequential metabolic enzymes.
Annu Rev Biochem: 1987, 56;89-124
[PubMed:2441660] [WorldCat.org] [DOI] (P p)