1njq

From Proteopedia

(Difference between revisions)

Current revision

NMR structure of the single QALGGH zinc finger domain from Arabidopsis thaliana SUPERMAN protein

Structural highlights

1njq is a 1 chain structure with sequence from Arabidopsis thaliana. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR, 20 models
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SUP_ARATH Probable transcriptional regulator considered as cadastral protein that acts indirectly to prevent the B class homeotic proteins APETALA3 and perhaps PISTILLATA from acting in the gynoecial whorl. Principal function is to balance cell proliferation in the third and fourth whorls of developing flowers thereby maintaining the boundary between stamens and carpels. May fulfill this role by repressing genes implicated in cell division. Plays equally a role in the determinacy of the floral meristem. Is also required for normal ovule development.^[1] ^[2] ^[3] ^[4] ^[5]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Zinc finger domains of the classical type represent the most abundant DNA binding domains in eukaryotic transcription factors. Plant proteins contain from one to four zinc finger domains, which are characterized by high conservation of the sequence QALGGH, shown to be critical for DNA-binding activity. The Arabidopsis thaliana SUPERMAN protein, which contains a single QALGGH zinc finger, is necessary for proper spatial development of reproductive floral tissues and has been shown to specifically bind to DNA. Here, we report the synthesis and UV and NMR spectroscopic structural characterization of a 37 amino acid SUPERMAN region complexed to a Zn(2+) ion (Zn-SUP37) and present the first high-resolution structure of a classical zinc finger domain from a plant protein. The NMR structure of the SUPERMAN zinc finger domain consists of a very well-defined betabetaalpha motif, typical of all other Cys(2)-His(2) zinc fingers structurally characterized. As a consequence, the highly conserved QALGGH sequence is located at the N terminus of the alpha helix. This region of the domain of animal zinc finger proteins consists of hypervariable residues that are responsible for recognizing the DNA bases. Therefore, we propose a peculiar DNA recognition code for the QALGGH zinc finger domain that includes all or some of the amino acid residues at positions -1, 2, and 3 (numbered relative to the N terminus of the helix) and possibly others at the C-terminal end of the recognition helix. This study further confirms that the zinc finger domain, though very simple, is an extremely versatile DNA binding motif.

NMR structure of the single QALGGH zinc finger domain from the Arabidopsis thaliana SUPERMAN protein.,Isernia C, Bucci E, Leone M, Zaccaro L, Di Lello P, Digilio G, Esposito S, Saviano M, Di Blasio B, Pedone C, Pedone PV, Fattorusso R Chembiochem. 2003 Mar 3;4(2-3):171-80. PMID:12616630^[6]

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

References

↑ Sakai H, Medrano LJ, Meyerowitz EM. Role of SUPERMAN in maintaining Arabidopsis floral whorl boundaries. Nature. 1995 Nov 9;378(6553):199-203. PMID:7477325 doi:http://dx.doi.org/10.1038/378199a0
↑ Schultz EA, Pickett FB, Haughn GW. The FLO10 Gene Product Regulates the Expression Domain of Homeotic Genes AP3 and PI in Arabidopsis Flowers. Plant Cell. 1991 Nov;3(11):1221-1237. PMID:12324589 doi:http://dx.doi.org/10.1105/tpc.3.11.1221
↑ Bowman JL, Sakai H, Jack T, Weigel D, Mayer U, Meyerowitz EM. SUPERMAN, a regulator of floral homeotic genes in Arabidopsis. Development. 1992 Mar;114(3):599-615. PMID:1352237
↑ Sakai H, Krizek BA, Jacobsen SE, Meyerowitz EM. Regulation of SUP expression identifies multiple regulators involved in arabidopsis floral meristem development. Plant Cell. 2000 Sep;12(9):1607-18. PMID:11006335
↑ Hiratsu K, Ohta M, Matsui K, Ohme-Takagi M. The SUPERMAN protein is an active repressor whose carboxy-terminal repression domain is required for the development of normal flowers. FEBS Lett. 2002 Mar 13;514(2-3):351-4. PMID:11943180
↑ Isernia C, Bucci E, Leone M, Zaccaro L, Di Lello P, Digilio G, Esposito S, Saviano M, Di Blasio B, Pedone C, Pedone PV, Fattorusso R. NMR structure of the single QALGGH zinc finger domain from the Arabidopsis thaliana SUPERMAN protein. Chembiochem. 2003 Mar 3;4(2-3):171-80. PMID:12616630 doi:10.1002/cbic.200390028

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1njq"

@@ Line 1: / Line 1: @@
 ==NMR structure of the single QALGGH zinc finger domain from Arabidopsis thaliana SUPERMAN protein==
-<StructureSection load='1njq' size='340' side='right' caption='[[1njq]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='1njq' size='340' side='right'caption='[[1njq]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1njq]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NJQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1njq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NJQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NJQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 20 models</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1njq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1njq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1njq RCSB], [http://www.ebi.ac.uk/pdbsum/1njq PDBsum]</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=1njq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1njq OCA], [https://pdbe.org/1njq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1njq RCSB], [https://www.ebi.ac.uk/pdbsum/1njq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1njq ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SUP_ARATH SUP_ARATH]] Probable transcriptional regulator considered as cadastral protein that acts indirectly to prevent the B class homeotic proteins APETALA3 and perhaps PISTILLATA from acting in the gynoecial whorl. Principal function is to balance cell proliferation in the third and fourth whorls of developing flowers thereby maintaining the boundary between stamens and carpels. May fulfill this role by repressing genes implicated in cell division. Plays equally a role in the determinacy of the floral meristem. Is also required for normal ovule development.<ref>PMID:7477325</ref> <ref>PMID:12324589</ref> <ref>PMID:1352237</ref> <ref>PMID:11006335</ref> <ref>PMID:11943180</ref>
+[https://www.uniprot.org/uniprot/SUP_ARATH SUP_ARATH] Probable transcriptional regulator considered as cadastral protein that acts indirectly to prevent the B class homeotic proteins APETALA3 and perhaps PISTILLATA from acting in the gynoecial whorl. Principal function is to balance cell proliferation in the third and fourth whorls of developing flowers thereby maintaining the boundary between stamens and carpels. May fulfill this role by repressing genes implicated in cell division. Plays equally a role in the determinacy of the floral meristem. Is also required for normal ovule development.<ref>PMID:7477325</ref> <ref>PMID:12324589</ref> <ref>PMID:1352237</ref> <ref>PMID:11006335</ref> <ref>PMID:11943180</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nj/1njq_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nj/1njq_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1njq ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 27: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 1njq" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Blasio, B Di]]
+[[Category: Arabidopsis thaliana]]
-[[Category: Bucci, E]]
+[[Category: Large Structures]]
-[[Category: Digilio, G]]
+[[Category: Bucci E]]
-[[Category: Esposito, S]]
+[[Category: Di Blasio B]]
-[[Category: Fattorusso, R]]
+[[Category: Di Lello P]]
-[[Category: Isernia, C]]
+[[Category: Digilio G]]
-[[Category: Lello, P Di]]
+[[Category: Esposito S]]
-[[Category: Leone, M]]
+[[Category: Fattorusso R]]
-[[Category: Pedone, C]]
+[[Category: Isernia C]]
-[[Category: Pedone, P V]]
+[[Category: Leone M]]
-[[Category: Saviano, M]]
+[[Category: Pedone C]]
-[[Category: Zaccaro, L]]
+[[Category: Pedone PV]]
-[[Category: Beta-beta-alfa motif]]
+[[Category: Saviano M]]
-[[Category: Metal binding protein]]
+[[Category: Zaccaro L]]
-[[Category: Peptide-zinc complex]]
-[[Category: Zinc-finger]]

1njq

From Proteopedia

Current revision

NMR structure of the single QALGGH zinc finger domain from Arabidopsis thaliana SUPERMAN protein

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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