1gt9

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:05, 13 December 2023) (edit) (undo)
 
(16 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1gt9.jpg|left|200px]]<br /><applet load="1gt9" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1gt9, resolution 1.38&Aring;" />
 
-
'''HIGH RESOLUTION CRYSTAL STRUCTURE OF A THERMOSTABLE SERINE-CARBOXYL TYPE PROTEINASE'''<br />
 
-
==Overview==
+
==High resolution crystal structure of a thermostable serine-carboxyl type proteinase, kumamolisin (kscp)==
-
Kumamolysin is a thermostable endopeptidase from Bacillus novosp. MN-32, exhibiting maximal proteolytic activity around pH 3. It belongs to the, newly identified family of serine-carboxyl proteinases, which also, includes CLN2, a human lysosomal homolog recently implicated in a fatal, neurodegenerative disease. Kumamolysin and its complexes with two aldehyde, inhibitors were crystallized, and their three-dimensional structures were, solved and refined with X-ray data to 1.4 A resolution. As its Pseudomonas, homolog, kumamolysin exhibits a Ser/Glu/Asp catalytic triad with, particularly short interconnecting hydrogen bonds and an oxyanion hole, enabling the reactive serine to attack substrate peptide bonds at quite, acidic pH. An additional Glu/Trp pair, unique to kumamolysin, might, further facilitate proton delocalization during nucleophilic attack, in, particular at high temperature.
+
<StructureSection load='1gt9' size='340' side='right'caption='[[1gt9]], [[Resolution|resolution]] 1.38&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1gt9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GT9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GT9 FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.38&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1gt9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gt9 OCA], [https://pdbe.org/1gt9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gt9 RCSB], [https://www.ebi.ac.uk/pdbsum/1gt9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gt9 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q8RR56_9BACI Q8RR56_9BACI]
 +
== 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/gt/1gt9_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1gt9 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Kumamolysin is a thermostable endopeptidase from Bacillus novosp. MN-32, exhibiting maximal proteolytic activity around pH 3. It belongs to the newly identified family of serine-carboxyl proteinases, which also includes CLN2, a human lysosomal homolog recently implicated in a fatal neurodegenerative disease. Kumamolysin and its complexes with two aldehyde inhibitors were crystallized, and their three-dimensional structures were solved and refined with X-ray data to 1.4 A resolution. As its Pseudomonas homolog, kumamolysin exhibits a Ser/Glu/Asp catalytic triad with particularly short interconnecting hydrogen bonds and an oxyanion hole enabling the reactive serine to attack substrate peptide bonds at quite acidic pH. An additional Glu/Trp pair, unique to kumamolysin, might further facilitate proton delocalization during nucleophilic attack, in particular at high temperature.
-
==About this Structure==
+
The 1.4 a crystal structure of kumamolysin: a thermostable serine-carboxyl-type proteinase.,Comellas-Bigler M, Fuentes-Prior P, Maskos K, Huber R, Oyama H, Uchida K, Dunn BM, Oda K, Bode W Structure. 2002 Jun;10(6):865-76. PMID:12057200<ref>PMID:12057200</ref>
-
1GT9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_sp._mn-32 Bacillus sp. mn-32] with <scene name='pdbligand=CA:'>CA</scene> and <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Site: <scene name='pdbsite=CA1:Ca+Binding+Site+For+Chain+2'>CA1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GT9 OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
The 1.4 a crystal structure of kumamolysin: a thermostable serine-carboxyl-type proteinase., Comellas-Bigler M, Fuentes-Prior P, Maskos K, Huber R, Oyama H, Uchida K, Dunn BM, Oda K, Bode W, Structure. 2002 Jun;10(6):865-76. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12057200 12057200]
+
</div>
-
[[Category: Bacillus sp. mn-32]]
+
<div class="pdbe-citations 1gt9" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
== References ==
-
[[Category: Bode, W.]]
+
<references/>
-
[[Category: Comellas-Bigler, M.]]
+
__TOC__
-
[[Category: Dunn, B.M.]]
+
</StructureSection>
-
[[Category: Fuentes-Prior, P.]]
+
[[Category: Bacillus subtilis]]
-
[[Category: Huber, R.]]
+
[[Category: Large Structures]]
-
[[Category: Maskos, K.]]
+
[[Category: Bode W]]
-
[[Category: Oda, K.]]
+
[[Category: Comellas-Bigler M]]
-
[[Category: Oyama, H.]]
+
[[Category: Dunn BM]]
-
[[Category: Uchida, K.]]
+
[[Category: Fuentes-Prior P]]
-
[[Category: CA]]
+
[[Category: Huber R]]
-
[[Category: SO4]]
+
[[Category: Maskos K]]
-
[[Category: serine-carboxyl type proteinase]]
+
[[Category: Oda K]]
-
[[Category: thermostable]]
+
[[Category: Oyama H]]
-
 
+
[[Category: Uchida K]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb 3 09:42:27 2008''
+

Current revision

High resolution crystal structure of a thermostable serine-carboxyl type proteinase, kumamolisin (kscp)

PDB ID 1gt9

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/1gt9"
Personal tools