4hrx: Difference between revisions

Revision as of 08:09, 9 November 2022

Crystal structure of KAI2

Structural highlights

4hrx is a 1 chain structure with sequence from Arabidopsis thaliana. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

KAI2_ARATH Involved in seed germination and seedling development. Essential for plant responses to karrikins, a class of butenolide compounds, structurally similar to strigolactones, released from burning vegetation that stimulate seed germination and enhance seedling photomorphogenesis. KAI2 is not required for strigolactone-mediated responses, but MAX2 is necessary for responses to karrikins and strigolactones.^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

KARRIKIN INSENSITIVE 2 (KAI2) is an alpha/beta hydrolase involved in seed germination and seedling development. It is essential for plant responses to karrikins, a class of butenolide compounds derived from burnt plant material that are structurally similar to strigolactone plant hormones. The mechanistic basis for the function of KAI2 in plant development remains unclear. We have determined the crystal structure of Arabidopsis thaliana KAI2 in space groups P2(1) 2(1) 2(1) (a = 63.57 A, b = 66.26 A, c = 78.25 A) and P2(1) (a = 50.20 A, b = 56.04 A, c = 52.43 A, beta = 116.12 degrees ) to 1.55 and 2.11 A respectively. The catalytic residues are positioned within a large hydrophobic pocket similar to that of DAD2, a protein required for strigolactone response in Petunia hybrida. KAI2 possesses a second solvent-accessible pocket, adjacent to the active site cavity, which offers the possibility of allosteric regulation. The structure of KAI2 is consistent with its designation as a serine hydrolase, as well as previous data implicating the protein in karrikin and strigolactone signalling.

The Structure of the Karrikin-Insensitive Protein (KAI2) in Arabidopsis thaliana.,Bythell-Douglas R, Waters MT, Scaffidi A, Flematti GR, Smith SM, Bond CS PLoS One. 2013;8(1):e54758. doi: 10.1371/journal.pone.0054758. Epub 2013 Jan 18. PMID:23349965^[5]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Sun XD, Ni M. HYPOSENSITIVE TO LIGHT, an alpha/beta fold protein, acts downstream of ELONGATED HYPOCOTYL 5 to regulate seedling de-etiolation. Mol Plant. 2011 Jan;4(1):116-26. doi: 10.1093/mp/ssq055. Epub 2010 Sep 23. PMID:20864454 doi:10.1093/mp/ssq055
↑ Waters MT, Nelson DC, Scaffidi A, Flematti GR, Sun YK, Dixon KW, Smith SM. Specialisation within the DWARF14 protein family confers distinct responses to karrikins and strigolactones in Arabidopsis. Development. 2012 Apr;139(7):1285-95. doi: 10.1242/dev.074567. Epub 2012 Feb 22. PMID:22357928 doi:10.1242/dev.074567
↑ Waters MT, Smith SM. KAI2- and MAX2-mediated responses to karrikins and strigolactones are largely independent of HY5 in Arabidopsis seedlings. Mol Plant. 2013 Jan;6(1):63-75. doi: 10.1093/mp/sss127. Epub 2012 Nov 9. PMID:23142794 doi:10.1093/mp/sss127
↑ Kagiyama M, Hirano Y, Mori T, Kim SY, Kyozuka J, Seto Y, Yamaguchi S, Hakoshima T. Structures of D14 and D14L in the strigolactone and karrikin signaling pathways. Genes Cells. 2013 Jan 10. doi: 10.1111/gtc.12025. PMID:23301669 doi:10.1111/gtc.12025
↑ Bythell-Douglas R, Waters MT, Scaffidi A, Flematti GR, Smith SM, Bond CS. The Structure of the Karrikin-Insensitive Protein (KAI2) in Arabidopsis thaliana. PLoS One. 2013;8(1):e54758. doi: 10.1371/journal.pone.0054758. Epub 2013 Jan 18. PMID:23349965 doi:https://dx.doi.org/10.1371/journal.pone.0054758

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Sun XD, Ni M. HYPOSENSITIVE TO LIGHT, an alpha/beta fold protein, acts downstream of ELONGATED HYPOCOTYL 5 to regulate seedling de-etiolation. Mol Plant. 2011 Jan;4(1):116-26. doi: 10.1093/mp/ssq055. Epub 2010 Sep 23. PMID:20864454 doi:10.1093/mp/ssq055

[2] Waters MT, Nelson DC, Scaffidi A, Flematti GR, Sun YK, Dixon KW, Smith SM. Specialisation within the DWARF14 protein family confers distinct responses to karrikins and strigolactones in Arabidopsis. Development. 2012 Apr;139(7):1285-95. doi: 10.1242/dev.074567. Epub 2012 Feb 22. PMID:22357928 doi:10.1242/dev.074567

[3] Waters MT, Smith SM. KAI2- and MAX2-mediated responses to karrikins and strigolactones are largely independent of HY5 in Arabidopsis seedlings. Mol Plant. 2013 Jan;6(1):63-75. doi: 10.1093/mp/sss127. Epub 2012 Nov 9. PMID:23142794 doi:10.1093/mp/sss127

[4] Kagiyama M, Hirano Y, Mori T, Kim SY, Kyozuka J, Seto Y, Yamaguchi S, Hakoshima T. Structures of D14 and D14L in the strigolactone and karrikin signaling pathways. Genes Cells. 2013 Jan 10. doi: 10.1111/gtc.12025. PMID:23301669 doi:10.1111/gtc.12025

[5] Bythell-Douglas R, Waters MT, Scaffidi A, Flematti GR, Smith SM, Bond CS. The Structure of the Karrikin-Insensitive Protein (KAI2) in Arabidopsis thaliana. PLoS One. 2013;8(1):e54758. doi: 10.1371/journal.pone.0054758. Epub 2013 Jan 18. PMID:23349965 doi:https://dx.doi.org/10.1371/journal.pone.0054758

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@@ Line 1: / Line 1: @@
 ==Crystal structure of KAI2==
-<StructureSection load='4hrx' size='340' side='right' caption='[[4hrx]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
+<StructureSection load='4hrx' size='340' side='right'caption='[[4hrx]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4hrx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HRX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HRX FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4hrx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HRX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HRX FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4hry|4hry]], [[4hta|4hta]]</td></tr>
+</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4hrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hrx OCA], [https://pdbe.org/4hrx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hrx RCSB], [https://www.ebi.ac.uk/pdbsum/4hrx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hrx ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AT4g37470, F6G17.120 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4hrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hrx OCA], [http://pdbe.org/4hrx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hrx RCSB], [http://www.ebi.ac.uk/pdbsum/4hrx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hrx ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/KAI2_ARATH KAI2_ARATH]] Involved in seed germination and seedling development. Essential for plant responses to karrikins, a class of butenolide compounds, structurally similar to strigolactones, released from burning vegetation that stimulate seed germination and enhance seedling photomorphogenesis. KAI2 is not required for strigolactone-mediated responses, but MAX2 is necessary for responses to karrikins and strigolactones.<ref>PMID:20864454</ref> <ref>PMID:22357928</ref> <ref>PMID:23142794</ref> <ref>PMID:23301669</ref>
+[https://www.uniprot.org/uniprot/KAI2_ARATH KAI2_ARATH] Involved in seed germination and seedling development. Essential for plant responses to karrikins, a class of butenolide compounds, structurally similar to strigolactones, released from burning vegetation that stimulate seed germination and enhance seedling photomorphogenesis. KAI2 is not required for strigolactone-mediated responses, but MAX2 is necessary for responses to karrikins and strigolactones.<ref>PMID:20864454</ref> <ref>PMID:22357928</ref> <ref>PMID:23142794</ref> <ref>PMID:23301669</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Arath]]
+[[Category: Arabidopsis thaliana]]
-[[Category: Bond, C S]]
+[[Category: Large Structures]]
-[[Category: Bythell-Douglas, R]]
+[[Category: Bond CS]]
-[[Category: Flematti, G R]]
+[[Category: Bythell-Douglas R]]
-[[Category: Scaffidi, A]]
+[[Category: Flematti GR]]
-[[Category: Smith, S M]]
+[[Category: Scaffidi A]]
-[[Category: Waters, M T]]
+[[Category: Smith SM]]
-[[Category: Alpha/beta hydrolase]]
+[[Category: Waters MT]]
-[[Category: Hydrolase]]
-[[Category: Signaling protein]]

4hrx: Difference between revisions

Revision as of 08:09, 9 November 2022

Crystal structure of KAI2

Structural highlights

Function

Publication Abstract from PubMed

References

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Proteopedia Page Contributors and Editors (what is this?)

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