Avidin: Difference between revisions
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Avidin is one of the [[CBI Molecules]] being studied in the [http://www.umass.edu/cbi/ University of Massachusetts Amherst Chemistry-Biology Interface Program] at UMass Amherst and on display at the [http://www.molecularplayground.org/ Molecular Playground]. | Avidin is one of the [[CBI Molecules]] being studied in the [http://www.umass.edu/cbi/ University of Massachusetts Amherst Chemistry-Biology Interface Program] at UMass Amherst and on display at the [http://www.molecularplayground.org/ Molecular Playground]. | ||
Avidin is a tetrameric protein what in different words means that if we could, we would see a protein with four regions that look identical one to the other. However, to isolate the four regions as a whole in order to show the protein three dimensional structure has been quite diffucult so far and we just can see the three dimensional structure for two of those four units. <ref group="xtra">PMID:8506353</ref><ref group="xtra">PMID:8344421</ref> | Avidin is a tetrameric protein what in different words means that if we could, we would see a protein with four regions that look identical one to the other. However, to isolate the four regions as a whole in order to show the protein three dimensional structure has been quite diffucult so far and we just can see the three dimensional structure for two of those four units. <ref group="xtra">PMID:8506353</ref><ref group="xtra">PMID:8344421</ref> | ||
{{Clear}} | {{Clear}} | ||
The binding affinity of biotin for the avidin <scene name='Sandbox-test/Biotin_binding_avidin/1'>receptors</scene> is very hight or in other words, the strength of the interations between the biotin and the avidin receptors is so strong that washing the biotin-avidin complex is not enough to remove the ligand from its pocket. This is not even possible by adding more biotin molecules to the system avidin-biotin. Once a biotin has bound a pocket in the avidin, it is almost imposible to remove it in a biologica system! | The binding affinity of biotin for the avidin <scene name='Sandbox-test/Biotin_binding_avidin/1'>receptors</scene> is very hight or in other words, the strength of the interations between the biotin and the avidin receptors is so strong that washing the biotin-avidin complex is not enough to remove the ligand from its pocket. This is not even possible by adding more biotin molecules to the system avidin-biotin. Once a biotin has bound a pocket in the avidin, it is almost imposible to remove it in a biologica system! | ||
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See also: [[Molecular Playground/Streptavidin]]. | See also: [[Molecular Playground/Streptavidin]]. | ||
==About this Structure== | ==About this Structure== | ||
2AVI is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AVI OCA]. | 2AVI is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AVI OCA]. | ||
== 3D structures of Avidin == | == 3D structures of Avidin == | ||
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} | Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} | ||
===Avidin=== | |||
[[3fdc]], [[2jgs]], [[2c4i]], [[1vyo]], [[1rav]], [[1ave]] – cAv – chicken<br /> | [[3fdc]], [[2jgs]], [[2c4i]], [[1vyo]], [[1rav]], [[1ave]] – cAv – chicken<br /> | ||
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[[3t2w]] – SdAV (mutant) + biotin | [[3t2w]] – SdAV (mutant) + biotin | ||
== Streptavidin == | === Streptavidin === | ||
[[2bc3]], [[2iza]], [[2izb]], [[2izc]], [[2izd]], [[2ize]], [[2rta]], [[2rtb]], [[2rtc]], [[3ry1]], [[4gd9]]. [[4gda]], [[4gjs]] - StrAv - ''Streptomyces avidinii''<br /> | [[2bc3]], [[2iza]], [[2izb]], [[2izc]], [[2izd]], [[2ize]], [[2rta]], [[2rtb]], [[2rtc]], [[3ry1]], [[4gd9]]. [[4gda]], [[4gjs]] - StrAv - ''Streptomyces avidinii''<br /> | ||
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[[4jo6]] – StrAv + SBP-TAG<br /> | [[4jo6]] – StrAv + SBP-TAG<br /> | ||
''Streptavidin binary complexes'' | |||
[[1rxh]] – StrAv (mutant)+ biotinyl p-nitroaniline <br /> | [[1rxh]] – StrAv (mutant)+ biotinyl p-nitroaniline <br /> | ||
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[[2qcb]], [[2wpu]] – StrAv+Ru ligand | [[2qcb]], [[2wpu]] – StrAv+Ru ligand | ||
== Rhizavidin == | === Rhizavidin === | ||
[[3ew1]] – RhiAv – ''Rhizobium etli''<br /> | [[3ew1]] – RhiAv – ''Rhizobium etli''<br /> | ||
[[3ew2]] – RhiAV+biotin<br /> | [[3ew2]] – RhiAV+biotin<br /> | ||
== Xenavidin == | === Xenavidin === | ||
[[2uz2]], [[2uyw]] – XenAv – frog<br /> | [[2uz2]], [[2uyw]] – XenAv – frog<br /> | ||
== Tamavidin == | === Tamavidin === | ||
[[2zsc]] – TanAv – Tamogitake mushroom | [[2zsc]] – TanAv – Tamogitake mushroom | ||
===Bradavidin=== | |||
[[4ggr]], [[4ggt]] – Av – ''Bradyrhizobium japonicum''<br /> | [[4ggr]], [[4ggt]] – Av – ''Bradyrhizobium japonicum''<br /> | ||
== AVR2 == | === AVR2 === | ||
[[1wbi]] – cAVR2<br /> | [[1wbi]] – cAVR2<br /> | ||
=== AVR4 === | |||
== AVR4 == | |||
[[2fhl]] – cAVR4+biotinyl p-nitroaniline<br /> | [[2fhl]] – cAVR4+biotinyl p-nitroaniline<br /> | ||
