User:Ralf Stephan/Sandbox 2: Difference between revisions

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'''Metalloproteases''' are [http://en.wikipedia.org/wiki/Proteases proteases] where the water molecule that is used for hydrolysis is complexed to a metal ion in the catalytic center of the enzyme. The metal ion is itself hold in position by several amino acid residues. The metalloproteases are one of seven superclans of the proteases in the UniProt/MEROPS classification.
'''Ion channels''' are membrane proteins that catalyze the passive transport of ions through the cell membrane. Most ion channels are specific to an ion, like the [[natrium channels]], or the [[chloride channels]]. Some, like the [[TRP channels]], let through a bunch of cations. Another property of ion channels is that they can be either driven by voltage or concentration gradients, or they can be gated (by voltage, ligands, touch and other sensory signal). Finally, ion channels are the fastest of all membrane transporters, with 10^6 to 10^8 transported units per second versus 10^2 to 10^4 molecules per second for porters/carriers, or 10^0 to 10^3 for ATP-driven pumps.


== Classification ==
== Classification ==
A first raw classification is that into exo- and endopeptidases, according to whether the protein is cleaved at the end or not. The most advanced classification is that edited by UniProt and available at the MEROPS database (see link below). It lists 54 families of closely related metalloproteases that are grouped into 15 clans. We have chosen six examples from different clans that can be viewed by clicking on the green links, each with an additional center scene:
TCDB, the most sophisticated classification of transport proteins to date, classify ion channels as a heterogenous subset of all α-type channels, whose singular property is to consist mainly of [[alpha helix|α-helices]] that span the membrane. They are distinct in this from the [[beta-barrel porins]], but also from non-ribosomally synthesized channels like [[gramicidin]], [[polyglutamine]] or [[digitoxin]].
 
*neutral zinc metallopeptidases, example thermolysin from ''Bac. stearothermophilus'' ([[2a7g]]). Matrix metallopeptidases and a lot of well-known other proteases belong to this big clan.
*carboxypeptidases, example carboxypeptidase A (''Bos taurus'', [[5cpa]])
*insulinases, example pitrilysin (''E. coli'', [[1q2l]])
*cytosol-aminopeptidases, example leucyl aminopeptidase (''Bos taurus'', [[1lam]])
*methionin-aminopeptidases, example human methionine aminopeptidase ([[2b3k]])
*renal dipeptidases, example human renal dipeptidase ([[1itq]])


== Weblinks ==
== Weblinks ==
*[http://merops.sanger.ac.uk/ The MEROPS database]
*[http://www.tcdb.org/ The TCDB database]
*[http://merops.sanger.ac.uk/cgi-bin/make_clan_index?type=peptidase MEROPS: Clans of peptidases]
*[http://www.tcdb.org/tcdb/subclass2.php?tc=1.A TCDB: 1.A α-Type channels]

Revision as of 13:12, 11 February 2009

Ion channels are membrane proteins that catalyze the passive transport of ions through the cell membrane. Most ion channels are specific to an ion, like the natrium channels, or the chloride channels. Some, like the TRP channels, let through a bunch of cations. Another property of ion channels is that they can be either driven by voltage or concentration gradients, or they can be gated (by voltage, ligands, touch and other sensory signal). Finally, ion channels are the fastest of all membrane transporters, with 10^6 to 10^8 transported units per second versus 10^2 to 10^4 molecules per second for porters/carriers, or 10^0 to 10^3 for ATP-driven pumps.

ClassificationClassification

TCDB, the most sophisticated classification of transport proteins to date, classify ion channels as a heterogenous subset of all α-type channels, whose singular property is to consist mainly of α-helices that span the membrane. They are distinct in this from the beta-barrel porins, but also from non-ribosomally synthesized channels like gramicidin, polyglutamine or digitoxin.

WeblinksWeblinks