9wg2: Difference between revisions

Latest revision as of 06:58, 3 June 2026

Cryo-EM structure of IBA-CoA-bound Arabidopsis thaliana fatty acid transporter CTS

Structural highlights

9wg2 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.
Method:	Electron Microscopy, Resolution 3.2Å
Ligands:	A1EV8, Y01
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

AB1D_ARATH Contributes to the transport of fatty acids and their derivatives (acyl CoAs) across the peroxisomal membrane. Provides acetate to the glyoxylate cycle in developing seedlings. Involved in pollen tube elongation, ovule fertilization, and seeds germination after imbibition (controls the switch between the opposing developmental programs of dormancy and germination), probably by promoting beta-oxidation of storage lipids during gluconeogenesis. Required for biosynthesis of jasmonic acid and conversion of indole butyric acid to indole acetic acid. Confers sensitivity to monofluoroacetic acid (FAc), a toxic acetate analog, and to 2,4-dichlorophenoxybutyric acid (2,4-DB) and indole-3-butyric acid (IBA), two precursors of auxin after beta-oxidation.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10] ^[11]

References

↑ Russell L, Larner V, Kurup S, Bougourd S, Holdsworth M. The Arabidopsis COMATOSE locus regulates germination potential. Development. 2000 Sep;127(17):3759-67. PMID:10934020 doi:10.1242/dev.127.17.3759
↑ Zolman BK, Yoder A, Bartel B. Genetic analysis of indole-3-butyric acid responses in Arabidopsis thaliana reveals four mutant classes. Genetics. 2000 Nov;156(3):1323-37. PMID:11063705 doi:10.1093/genetics/156.3.1323
↑ Zolman BK, Silva ID, Bartel B. The Arabidopsis pxa1 mutant is defective in an ATP-binding cassette transporter-like protein required for peroxisomal fatty acid beta-oxidation. Plant Physiol. 2001 Nov;127(3):1266-78 PMID:11706205
↑ Hayashi M, Nito K, Takei-Hoshi R, Yagi M, Kondo M, Suenaga A, Yamaya T, Nishimura M. Ped3p is a peroxisomal ATP-binding cassette transporter that might supply substrates for fatty acid beta-oxidation. Plant Cell Physiol. 2002 Jan;43(1):1-11. PMID:11828016 doi:10.1093/pcp/pcf023
↑ Footitt S, Slocombe SP, Larner V, Kurup S, Wu Y, Larson T, Graham I, Baker A, Holdsworth M. Control of germination and lipid mobilization by COMATOSE, the Arabidopsis homologue of human ALDP. EMBO J. 2002 Jun 17;21(12):2912-22. PMID:12065405 doi:10.1093/emboj/cdf300
↑ Hooks MA, Turner JE, Murphy EC, Graham IA. Acetate non-utilizing mutants of Arabidopsis: evidence that organic acids influence carbohydrate perception in germinating seedlings. Mol Genet Genomics. 2004 Apr;271(3):249-56. PMID:14963767 doi:10.1007/s00438-004-0985-9
↑ Footitt S, Marquez J, Schmuths H, Baker A, Theodoulou FL, Holdsworth M. Analysis of the role of COMATOSE and peroxisomal beta-oxidation in the determination of germination potential in Arabidopsis. J Exp Bot. 2006;57(11):2805-14. doi: 10.1093/jxb/erl045. Epub 2006 Jul 14. PMID:16844736 doi:https://dx.doi.org/10.1093/jxb/erl045
↑ Carrera E, Holman T, Medhurst A, Peer W, Schmuths H, Footitt S, Theodoulou FL, Holdsworth MJ. Gene expression profiling reveals defined functions of the ATP-binding cassette transporter COMATOSE late in phase II of germination. Plant Physiol. 2007 Apr;143(4):1669-79. doi: 10.1104/pp.107.096057. Epub 2007 Feb , 23. PMID:17322332 doi:https://dx.doi.org/10.1104/pp.107.096057
↑ Footitt S, Dietrich D, Fait A, Fernie AR, Holdsworth MJ, Baker A, Theodoulou FL. The COMATOSE ATP-binding cassette transporter is required for full fertility in Arabidopsis. Plant Physiol. 2007 Jul;144(3):1467-80. PMID:17468211 doi:10.1104/pp.107.099903
↑ Hooks MA, Turner JE, Murphy EC, Johnston KA, Burr S, Jarosławski S. The Arabidopsis ALDP protein homologue COMATOSE is instrumental in peroxisomal acetate metabolism. Biochem J. 2007 Sep 15;406(3):399-406. PMID:17581114 doi:10.1042/BJ20070258
↑ Hayashi M, Toriyama K, Kondo M, Nishimura M. 2,4-Dichlorophenoxybutyric acid-resistant mutants of Arabidopsis have defects in glyoxysomal fatty acid beta-oxidation. Plant Cell. 1998 Feb;10(2):183-95. PMID:9490742

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OCA

[1] Russell L, Larner V, Kurup S, Bougourd S, Holdsworth M. The Arabidopsis COMATOSE locus regulates germination potential. Development. 2000 Sep;127(17):3759-67. PMID:10934020 doi:10.1242/dev.127.17.3759

[2] Zolman BK, Yoder A, Bartel B. Genetic analysis of indole-3-butyric acid responses in Arabidopsis thaliana reveals four mutant classes. Genetics. 2000 Nov;156(3):1323-37. PMID:11063705 doi:10.1093/genetics/156.3.1323

[3] Zolman BK, Silva ID, Bartel B. The Arabidopsis pxa1 mutant is defective in an ATP-binding cassette transporter-like protein required for peroxisomal fatty acid beta-oxidation. Plant Physiol. 2001 Nov;127(3):1266-78 PMID:11706205

[4] Hayashi M, Nito K, Takei-Hoshi R, Yagi M, Kondo M, Suenaga A, Yamaya T, Nishimura M. Ped3p is a peroxisomal ATP-binding cassette transporter that might supply substrates for fatty acid beta-oxidation. Plant Cell Physiol. 2002 Jan;43(1):1-11. PMID:11828016 doi:10.1093/pcp/pcf023

[5] Footitt S, Slocombe SP, Larner V, Kurup S, Wu Y, Larson T, Graham I, Baker A, Holdsworth M. Control of germination and lipid mobilization by COMATOSE, the Arabidopsis homologue of human ALDP. EMBO J. 2002 Jun 17;21(12):2912-22. PMID:12065405 doi:10.1093/emboj/cdf300

[6] Hooks MA, Turner JE, Murphy EC, Graham IA. Acetate non-utilizing mutants of Arabidopsis: evidence that organic acids influence carbohydrate perception in germinating seedlings. Mol Genet Genomics. 2004 Apr;271(3):249-56. PMID:14963767 doi:10.1007/s00438-004-0985-9

[7] Footitt S, Marquez J, Schmuths H, Baker A, Theodoulou FL, Holdsworth M. Analysis of the role of COMATOSE and peroxisomal beta-oxidation in the determination of germination potential in Arabidopsis. J Exp Bot. 2006;57(11):2805-14. doi: 10.1093/jxb/erl045. Epub 2006 Jul 14. PMID:16844736 doi:https://dx.doi.org/10.1093/jxb/erl045

[8] Carrera E, Holman T, Medhurst A, Peer W, Schmuths H, Footitt S, Theodoulou FL, Holdsworth MJ. Gene expression profiling reveals defined functions of the ATP-binding cassette transporter COMATOSE late in phase II of germination. Plant Physiol. 2007 Apr;143(4):1669-79. doi: 10.1104/pp.107.096057. Epub 2007 Feb , 23. PMID:17322332 doi:https://dx.doi.org/10.1104/pp.107.096057

[9] Footitt S, Dietrich D, Fait A, Fernie AR, Holdsworth MJ, Baker A, Theodoulou FL. The COMATOSE ATP-binding cassette transporter is required for full fertility in Arabidopsis. Plant Physiol. 2007 Jul;144(3):1467-80. PMID:17468211 doi:10.1104/pp.107.099903

[10] Hooks MA, Turner JE, Murphy EC, Johnston KA, Burr S, Jarosławski S. The Arabidopsis ALDP protein homologue COMATOSE is instrumental in peroxisomal acetate metabolism. Biochem J. 2007 Sep 15;406(3):399-406. PMID:17581114 doi:10.1042/BJ20070258

[11] Hayashi M, Toriyama K, Kondo M, Nishimura M. 2,4-Dichlorophenoxybutyric acid-resistant mutants of Arabidopsis have defects in glyoxysomal fatty acid beta-oxidation. Plant Cell. 1998 Feb;10(2):183-95. PMID:9490742

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 9wg2 is ON HOLD  until Paper Publication
+==Cryo-EM structure of IBA-CoA-bound Arabidopsis thaliana fatty acid transporter CTS==
+<StructureSection load='9wg2' size='340' side='right'caption='[[9wg2]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
-Authors:
+== Structural highlights ==
+<table><tr><td colspan='2'>[[9wg2]] 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=9WG2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9WG2 FirstGlance]. <br>
-Description:
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
-[[Category: Unreleased Structures]]
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1EV8:~{S}-[2-[3-[[(2~{S})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+4-(1~{H}-indol-3-yl)butanethioate'>A1EV8</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></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=9wg2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9wg2 OCA], [https://pdbe.org/9wg2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9wg2 RCSB], [https://www.ebi.ac.uk/pdbsum/9wg2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9wg2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AB1D_ARATH AB1D_ARATH] Contributes to the transport of fatty acids and their derivatives (acyl CoAs) across the peroxisomal membrane. Provides acetate to the glyoxylate cycle in developing seedlings. Involved in pollen tube elongation, ovule fertilization, and seeds germination after imbibition (controls the switch between the opposing developmental programs of dormancy and germination), probably by promoting beta-oxidation of storage lipids during gluconeogenesis. Required for biosynthesis of jasmonic acid and conversion of indole butyric acid to indole acetic acid. Confers sensitivity to monofluoroacetic acid (FAc), a toxic acetate analog, and to 2,4-dichlorophenoxybutyric acid (2,4-DB) and indole-3-butyric acid (IBA), two precursors of auxin after beta-oxidation.<ref>PMID:10934020</ref> <ref>PMID:11063705</ref> <ref>PMID:11706205</ref> <ref>PMID:11828016</ref> <ref>PMID:12065405</ref> <ref>PMID:14963767</ref> <ref>PMID:16844736</ref> <ref>PMID:17322332</ref> <ref>PMID:17468211</ref> <ref>PMID:17581114</ref> <ref>PMID:9490742</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Arabidopsis thaliana]]
+[[Category: Large Structures]]
+[[Category: Chen YX]]
+[[Category: Chen ZP]]
+[[Category: Hou WT]]
+[[Category: Zha ZH]]

9wg2: Difference between revisions

Latest revision as of 06:58, 3 June 2026

Cryo-EM structure of IBA-CoA-bound Arabidopsis thaliana fatty acid transporter CTS

Structural highlights

Function

References

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