4yvo: Difference between revisions

Latest revision as of 15:40, 8 November 2023

Crystal Structure of the TPR Domain of Arabidopsis FLU (FLU-TPR)

Structural highlights

4yvo 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:	X-ray diffraction, Resolution 1.45Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

FLU_ARATH Negative regulator of tetrapyrrole biosynthesis (including chlorophyll) in chloroplasts, probably via HEMA1 repression. Inhibits especially the magnesium ion Mg(2+) branch of tetrapyrrole biosynthesis, but independently of heme.^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

The tetratricopeptide repeat (TPR)-containing protein FLU is a negative regulator of chlorophyll biosynthesis in plants. It directly interacts through its TPR domain with glutamyl-tRNA reductase (GluTR), the rate-limiting enzyme in the formation of delta-aminolevulinic acid (ALA). Delineation of how FLU binds to GluTR is important for understanding the molecular basis for FLU-mediated repression of synthesis of ALA, the universal tetrapyrrole precursor. Here, we characterize the FLU-GluTR interaction by solving the crystal structures of the uncomplexed TPR domain of FLU (FLU(TPR)) at 1.45-A resolution and the complex of the dimeric domain of GluTR bound to FLU(TPR) at 2.4-A resolution. Three non-canonical TPR motifs of each FLU(TPR) form a concave surface and clamp the helix bundle in the C-terminal dimeric domain of GluTR. We demonstrate that a 2:2 FLU(TPR)-GluTR complex is the functional unit for FLU-mediated GluTR regulation and suggest that the formation of the FLU-GluTR complex prevents glutamyl-tRNA, the GluTR substrate, from binding with this enzyme. These results also provide insights into the spatial regulation of ALA synthesis by the membrane-located FLU protein.

The Non-canonical Tetratricopeptide Repeat (TPR) Domain of Fluorescent (FLU) Mediates Complex Formation with Glutamyl-tRNA Reductase.,Zhang M, Zhang F, Fang Y, Chen X, Chen Y, Zhang W, Dai HE, Lin R, Liu L J Biol Chem. 2015 Jul 10;290(28):17559-65. doi: 10.1074/jbc.M115.662981. Epub, 2015 Jun 2. PMID:26037924^[5]

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

References

↑ Meskauskiene R, Nater M, Goslings D, Kessler F, op den Camp R, Apel K. FLU: a negative regulator of chlorophyll biosynthesis in Arabidopsis thaliana. Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12826-31. Epub 2001 Oct 16. PMID:11606728 doi:https://dx.doi.org/10.1073/pnas.221252798
↑ op den Camp RG, Przybyla D, Ochsenbein C, Laloi C, Kim C, Danon A, Wagner D, Hideg E, Gobel C, Feussner I, Nater M, Apel K. Rapid induction of distinct stress responses after the release of singlet oxygen in Arabidopsis. Plant Cell. 2003 Oct;15(10):2320-32. Epub 2003 Sep 24. PMID:14508004 doi:https://dx.doi.org/10.1105/tpc.014662
↑ Goslings D, Meskauskiene R, Kim C, Lee KP, Nater M, Apel K. Concurrent interactions of heme and FLU with Glu tRNA reductase (HEMA1), the target of metabolic feedback inhibition of tetrapyrrole biosynthesis, in dark- and light-grown Arabidopsis plants. Plant J. 2004 Dec;40(6):957-67. PMID:15584960 doi:https://dx.doi.org/10.1111/j.1365-313X.2004.02262.x
↑ Przybyla D, Gobel C, Imboden A, Hamberg M, Feussner I, Apel K. Enzymatic, but not non-enzymatic, 1O2-mediated peroxidation of polyunsaturated fatty acids forms part of the EXECUTER1-dependent stress response program in the flu mutant of Arabidopsis thaliana. Plant J. 2008 Apr;54(2):236-48. doi: 10.1111/j.1365-313X.2008.03409.x. Epub 2008 , Jan 7. PMID:18182022 doi:https://dx.doi.org/10.1111/j.1365-313X.2008.03409.x
↑ Zhang M, Zhang F, Fang Y, Chen X, Chen Y, Zhang W, Dai HE, Lin R, Liu L. The Non-canonical Tetratricopeptide Repeat (TPR) Domain of Fluorescent (FLU) Mediates Complex Formation with Glutamyl-tRNA Reductase. J Biol Chem. 2015 Jul 10;290(28):17559-65. doi: 10.1074/jbc.M115.662981. Epub, 2015 Jun 2. PMID:26037924 doi:https://dx.doi.org/10.1074/jbc.M115.662981

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OCA

[1] Meskauskiene R, Nater M, Goslings D, Kessler F, op den Camp R, Apel K. FLU: a negative regulator of chlorophyll biosynthesis in Arabidopsis thaliana. Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12826-31. Epub 2001 Oct 16. PMID:11606728 doi:https://dx.doi.org/10.1073/pnas.221252798

[2] Camp RG, Przybyla D, Ochsenbein C, Laloi C, Kim C, Danon A, Wagner D, Hideg E, Gobel C, Feussner I, Nater M, Apel K. Rapid induction of distinct stress responses after the release of singlet oxygen in Arabidopsis. Plant Cell. 2003 Oct;15(10):2320-32. Epub 2003 Sep 24. PMID:14508004 doi:https://dx.doi.org/10.1105/tpc.014662

[3] Goslings D, Meskauskiene R, Kim C, Lee KP, Nater M, Apel K. Concurrent interactions of heme and FLU with Glu tRNA reductase (HEMA1), the target of metabolic feedback inhibition of tetrapyrrole biosynthesis, in dark- and light-grown Arabidopsis plants. Plant J. 2004 Dec;40(6):957-67. PMID:15584960 doi:https://dx.doi.org/10.1111/j.1365-313X.2004.02262.x

[4] Przybyla D, Gobel C, Imboden A, Hamberg M, Feussner I, Apel K. Enzymatic, but not non-enzymatic, 1O2-mediated peroxidation of polyunsaturated fatty acids forms part of the EXECUTER1-dependent stress response program in the flu mutant of Arabidopsis thaliana. Plant J. 2008 Apr;54(2):236-48. doi: 10.1111/j.1365-313X.2008.03409.x. Epub 2008 , Jan 7. PMID:18182022 doi:https://dx.doi.org/10.1111/j.1365-313X.2008.03409.x

[5] Zhang M, Zhang F, Fang Y, Chen X, Chen Y, Zhang W, Dai HE, Lin R, Liu L. The Non-canonical Tetratricopeptide Repeat (TPR) Domain of Fluorescent (FLU) Mediates Complex Formation with Glutamyl-tRNA Reductase. J Biol Chem. 2015 Jul 10;290(28):17559-65. doi: 10.1074/jbc.M115.662981. Epub, 2015 Jun 2. PMID:26037924 doi:https://dx.doi.org/10.1074/jbc.M115.662981

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[4]

[5]

@@ Line 1: / Line 1: @@
 ==Crystal Structure of the TPR Domain of Arabidopsis FLU (FLU-TPR)==
-<StructureSection load='4yvo' size='340' side='right' caption='[[4yvo]], [[Resolution|resolution]] 1.45&Aring;' scene=''>
+<StructureSection load='4yvo' size='340' side='right'caption='[[4yvo]], [[Resolution|resolution]] 1.45&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4yvo]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YVO FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4yvo]] 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=4YVO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YVO FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4yvq|4yvq]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.45&#8491;</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=4yvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yvo OCA], [http://pdbe.org/4yvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yvo RCSB], [http://www.ebi.ac.uk/pdbsum/4yvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yvo ProSAT]</span></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=4yvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yvo OCA], [https://pdbe.org/4yvo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yvo RCSB], [https://www.ebi.ac.uk/pdbsum/4yvo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yvo ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/FLU_ARATH FLU_ARATH]] Negative regulator of tetrapyrrole biosynthesis (including chlorophyll) in chloroplasts, probably via HEMA1 repression. Inhibits especially the magnesium ion Mg(2+) branch of tetrapyrrole biosynthesis, but independently of heme.<ref>PMID:11606728</ref> <ref>PMID:14508004</ref> <ref>PMID:15584960</ref> <ref>PMID:18182022</ref>
+[https://www.uniprot.org/uniprot/FLU_ARATH FLU_ARATH] Negative regulator of tetrapyrrole biosynthesis (including chlorophyll) in chloroplasts, probably via HEMA1 repression. Inhibits especially the magnesium ion Mg(2+) branch of tetrapyrrole biosynthesis, but independently of heme.<ref>PMID:11606728</ref> <ref>PMID:14508004</ref> <ref>PMID:15584960</ref> <ref>PMID:18182022</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Liu, L]]
+[[Category: Arabidopsis thaliana]]
-[[Category: Zhang, F]]
+[[Category: Large Structures]]
-[[Category: Zhang, M]]
+[[Category: Liu L]]
-[[Category: Chloroplast]]
+[[Category: Zhang F]]
-[[Category: Fluorescent protein]]
+[[Category: Zhang M]]
-[[Category: Tpr]]

4yvo: Difference between revisions

Latest revision as of 15:40, 8 November 2023

Crystal Structure of the TPR Domain of Arabidopsis FLU (FLU-TPR)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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