1xmb

From Proteopedia

(Difference between revisions)

Revision as of 10:07, 6 January 2021

X-ray structure of IAA-aminoacid hydrolase from Arabidopsis thaliana gene AT5G56660

Structural highlights

1xmb is a 1 chain structure with sequence from Arath. The February 2009 RCSB PDB Molecule of the Month feature on Auxin and TIR1 Ubiquitin Ligase by David Goodsell is 10.2210/rcsb_pdb/mom_2009_2. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	ILL2 (ARATH)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

[ILL2_ARATH] Hydrolyzes certain amino acid conjugates of the plant growth regulator indole-3-acetic acid (IAA), including IAA-Ala.

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

The plant hormone indole-3-acetic acid (IAA) is the most abundant natural auxin involved in many aspects of plant development and growth. The IAA levels in plants are modulated by a specific group of amidohydrolases from the peptidase M20D family that release the active hormone from its conjugated storage forms. Here, we describe the X-ray crystal structure of IAA-amino acid hydrolase IAA-leucine resistantlike gene 2 (ILL2) from Arabidopsis thaliana at 2.0 A resolution. ILL2 preferentially hydrolyses the auxin-amino acid conjugate N-(indol-3-acetyl)-alanine. The overall structure of ILL2 is reminiscent of dinuclear metallopeptidases from the M20 peptidase family. The structure consists of two domains, a larger catalytic domain with three-layer alpha beta alpha sandwich architecture and aminopeptidase topology and a smaller satellite domain with two-layer alphabeta-sandwich architecture and alpha-beta-plaits topology. The metal-coordinating residues in the active site of ILL2 include a conserved cysteine that clearly distinguishes this protein from previously structurally characterized members of the M20 peptidase family. Modeling of N-(indol-3-acetyl)-alanine into the active site of ILL2 suggests that Leu175 serves as a key determinant for the amino acid side-chain specificity of this enzyme. Furthermore, a hydrophobic pocket nearby the catalytic dimetal center likely recognizes the indolyl moiety of the substrate. Finally, the active site of ILL2 harbors an absolutely conserved glutamate (Glu172), which is well positioned to act as a general acid-base residue. Overall, the structure of ILL2 suggests that this enzyme likely uses a catalytic mechanism that follows the paradigm established for the other enzymes of the M20 peptidase family.

X-ray structure of ILL2, an auxin-conjugate amidohydrolase from Arabidopsis thaliana.,Bitto E, Bingman CA, Bittova L, Houston NL, Boston RS, Fox BG, Phillips GN Jr Proteins. 2009 Jan;74(1):61-71. PMID:18543330^[1]

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

References

↑ Bitto E, Bingman CA, Bittova L, Houston NL, Boston RS, Fox BG, Phillips GN Jr. X-ray structure of ILL2, an auxin-conjugate amidohydrolase from Arabidopsis thaliana. Proteins. 2009 Jan;74(1):61-71. PMID:18543330 doi:10.1002/prot.22124

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/1xmb"

@@ Line 1: / Line 1: @@
 ==X-ray structure of IAA-aminoacid hydrolase from Arabidopsis thaliana gene AT5G56660==
-<StructureSection load='1xmb' size='340' side='right' caption='[[1xmb]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='1xmb' size='340' side='right'caption='[[1xmb]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1xmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. The February 2009 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Auxin and TIR1 Ubiquitin Ligase''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2009_2 10.2210/rcsb_pdb/mom_2009_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XMB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1xmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. The February 2009 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Auxin and TIR1 Ubiquitin Ligase''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2009_2 10.2210/rcsb_pdb/mom_2009_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XMB OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XMB FirstGlance]. <br>
 </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ILL2 ([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=1xmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xmb OCA], [http://pdbe.org/1xmb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xmb RCSB], [http://www.ebi.ac.uk/pdbsum/1xmb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xmb ProSAT], [http://www.topsan.org/Proteins/CESG/1xmb TOPSAN]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1xmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xmb OCA], [http://pdbe.org/1xmb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xmb RCSB], [http://www.ebi.ac.uk/pdbsum/1xmb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xmb ProSAT], [http://www.topsan.org/Proteins/CESG/1xmb TOPSAN]</span></td></tr>
 </table>
 == Function ==
@@ Line 13: / Line 13: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xm/1xmb_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xm/1xmb_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 34: / Line 34: @@
 [[Category: Arath]]
 [[Category: Auxin and TIR1 Ubiquitin Ligase]]
+[[Category: Large Structures]]
 [[Category: RCSB PDB Molecule of the Month]]
 [[Category: Allard, S T.M]]

1xmb

From Proteopedia

Revision as of 10:07, 6 January 2021

X-ray structure of IAA-aminoacid hydrolase from Arabidopsis thaliana gene AT5G56660

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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