3a1z

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "3a1z" [edit=sysop:move=sysop])
Current revision (08:10, 23 October 2024) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3a1z.png|left|200px]]
 
-
<!--
+
==Crystal structure of juvenile hormone binding protein from silkworm==
-
The line below this paragraph, containing "STRUCTURE_3a1z", creates the "Structure Box" on the page.
+
<StructureSection load='3a1z' size='340' side='right'caption='[[3a1z]], [[Resolution|resolution]] 2.59&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[3a1z]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bombyx_mori Bombyx mori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A1Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A1Z FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.59&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
{{STRUCTURE_3a1z| PDB=3a1z | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3a1z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a1z OCA], [https://pdbe.org/3a1z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a1z RCSB], [https://www.ebi.ac.uk/pdbsum/3a1z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a1z ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9U556_BOMMO Q9U556_BOMMO]
 +
== 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/a1/3a1z_consurf.spt"</scriptWhenChecked>
 +
<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/main_output.php?pdb_ID=3a1z ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Juvenile hormones (JHs) control a diversity of crucial life events in insects. In Lepidoptera which major agricultural pests belong to, JH signaling is critically controlled by a species-specific high-affinity, low molecular weight JH-binding protein (JHBP) in hemolymph, which transports JH from the site of its synthesis to target tissues. Hence, JHBP is expected to be an excellent target for the development of novel specific insect growth regulators (IGRs) and insecticides. A better understanding of the structural biology of JHBP should pave the way for the structure-based drug design of such compounds. Here, we report the crystal structure of the silkworm Bombyx mori JHBP in complex with two molecules of 2-methyl-2,4-pentanediol (MPD), one molecule (MPD1) bound in the JH-binding pocket while the other (MPD2) in a second cavity. Detailed comparison with the apo-JHBP and JHBP-JH II complex structures previously reported by us led to a number of intriguing findings. First, the JH-binding pocket changes its size in a ligand-dependent manner due to flexibility of the gate alpha1 helix. Second, MPD1 mimics interactions of the epoxide moiety of JH previously observed in the JHBP-JH complex, and MPD can compete with JH in binding to the JH-binding pocket. We also confirmed that methoprene, which has an MPD-like structure, inhibits the complex formation between JHBP and JH while the unepoxydated JH III (methyl farnesoate) does not. These findings may open the door to the development of novel IGRs targeted against JHBP. Third, binding of MPD to the second cavity of JHBP induces significant conformational changes accompanied with a cavity expansion. This finding, together with MPD2-JHBP interaction mechanism identified in the JHBP-MPD complex, should provide important guidance in the search for the natural ligand of the second cavity.
-
===Crystal structure of juvenile hormone binding protein from silkworm===
+
Crystal structure of silkworm Bombyx mori JHBP in complex with 2-methyl-2,4-pentanediol: plasticity of JH-binding pocket and ligand-induced conformational change of the second cavity in JHBP.,Fujimoto Z, Suzuki R, Shiotsuki T, Tsuchiya W, Tase A, Momma M, Yamazaki T PLoS One. 2013;8(2):e56261. doi: 10.1371/journal.pone.0056261. Epub 2013 Feb 20. PMID:23437107<ref>PMID:23437107</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_19636950}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3a1z" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 19636950 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_19636950}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
[[3a1z]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bombyx_mori Bombyx mori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A1Z OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19636950</ref><ref group="xtra">PMID:11422510</ref><references group="xtra"/>
+
[[Category: Bombyx mori]]
[[Category: Bombyx mori]]
-
[[Category: Fujimoto, Z.]]
+
[[Category: Large Structures]]
-
[[Category: Momma, M.]]
+
[[Category: Fujimoto Z]]
-
[[Category: Shiotsuki, T.]]
+
[[Category: Momma M]]
-
[[Category: Suzuki, R.]]
+
[[Category: Shiotsuki T]]
-
[[Category: Tase, A.]]
+
[[Category: Suzuki R]]
-
[[Category: Yamazaki, T.]]
+
[[Category: Tase A]]
-
[[Category: Juvenile hormone]]
+
[[Category: Yamazaki T]]
-
[[Category: Transport protein]]
+

Current revision

Crystal structure of juvenile hormone binding protein from silkworm

PDB ID 3a1z

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3a1z"
Personal tools