1srp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1srp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1srp, resolution 2.0&Aring;" /> '''STRUCTURAL ANALYSIS O...)
Current revision (08:33, 14 February 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1srp.jpg|left|200px]]<br /><applet load="1srp" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1srp, resolution 2.0&Aring;" />
 
-
'''STRUCTURAL ANALYSIS OF SERRATIA PROTEASE'''<br />
 
-
==Overview==
+
==STRUCTURAL ANALYSIS OF SERRATIA PROTEASE==
-
The crystal structure of Serratia protease from Serratia sp. E-15 was, solved by the single isomorphous replacement method supplemented with, anomalous scattering effects from both the Zn atom in the native crystal, and the Sm atom in the derivative crystal, and refined at 2.0 A resolution, to a crystallographic R-factor of 0.194. The enzyme consists of N-terminal, catalytic and C-terminal beta-sandwich domains, as observed in alkaline, protease from Pseudomonas aeruginosa IFO3080. The catalytic domain with a, five-stranded antiparallel beta-sheet and five alpha-helices shares a, basically common folding topology with those of other zinc, metalloendoproteases. The catalytic zinc ion at the bottom of the active, site cleft is ligated by His176, His180, His186, Tyr216, and a water, molecule in a distorted trigonalbipyramidal manner. The C-terminal domain, is a beta-strand-rich domain containing eighteen beta-strands and a short, alpha-helix, and has seven Ca2+ ions bound to calcium binding loops. An, unusual beta-sheet coil motif is observed in this domain, where the, beta-strands and calcium binding loops are alternately incorporated into, an elliptical right-handed spiral so as to form a two-layer untwisted, beta-sandwich structure. The Ca2+ ions in the C-terminal domain seem to be, very important for the folding and stability of the beta-sheet coil, structure.
+
<StructureSection load='1srp' size='340' side='right'caption='[[1srp]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1srp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_sp._E-15 Serratia sp. E-15]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SRP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SRP FirstGlance]. <br>
-
1SRP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Serratia_sp. Serratia sp.] with CA and ZN as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Serralysin Serralysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.40 3.4.24.40] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1SRP OCA].
+
</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&#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=ZN:ZINC+ION'>ZN</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1srp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1srp OCA], [https://pdbe.org/1srp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1srp RCSB], [https://www.ebi.ac.uk/pdbsum/1srp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1srp ProSAT]</span></td></tr>
-
Crystal structure of Serratia protease, a zinc-dependent proteinase from Serratia sp. E-15, containing a beta-sheet coil motif at 2.0 A resolution., Hamada K, Hata Y, Katsuya Y, Hiramatsu H, Fujiwara T, Katsube Y, J Biochem (Tokyo). 1996 May;119(5):844-51. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8797082 8797082]
+
</table>
-
[[Category: Serralysin]]
+
== Function ==
-
[[Category: Serratia sp.]]
+
[https://www.uniprot.org/uniprot/PRZN_SERME PRZN_SERME] Naturally present in the silkworm intestine and allows the emerging moth to dissolve its cocoon.
-
[[Category: Single protein]]
+
== Evolutionary Conservation ==
-
[[Category: Hamada, K.]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Hata, Y.]]
+
Check<jmol>
-
[[Category: Hiramatsu, H.]]
+
<jmolCheckbox>
-
[[Category: Katsube, Y.]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sr/1srp_consurf.spt"</scriptWhenChecked>
-
[[Category: Katsuya, Y.]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: CA]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: ZN]]
+
</jmolCheckbox>
-
[[Category: hydrolase (metalloprotease)]]
+
</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=1srp ConSurf].
-
 
+
<div style="clear:both"></div>
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:36:41 2007''
+
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Serratia sp. E-15]]
 +
[[Category: Hamada K]]
 +
[[Category: Hata Y]]
 +
[[Category: Hiramatsu H]]
 +
[[Category: Katsube Y]]
 +
[[Category: Katsuya Y]]

Current revision

STRUCTURAL ANALYSIS OF SERRATIA PROTEASE

PDB ID 1srp

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/1srp"
Personal tools