1srp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:33, 14 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1srp.jpg|left|200px]]
 
-
<!--
+
==STRUCTURAL ANALYSIS OF SERRATIA PROTEASE==
-
The line below this paragraph, containing "STRUCTURE_1srp", creates the "Structure Box" on the page.
+
<StructureSection load='1srp' size='340' side='right'caption='[[1srp]], [[Resolution|resolution]] 2.00&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'>[[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>
-
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&#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>
-
{{STRUCTURE_1srp| PDB=1srp | SCENE= }}
+
<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>
-
 
+
</table>
-
'''STRUCTURAL ANALYSIS OF SERRATIA PROTEASE'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/PRZN_SERME PRZN_SERME] Naturally present in the silkworm intestine and allows the emerging moth to dissolve its cocoon.
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
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.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sr/1srp_consurf.spt"</scriptWhenChecked>
-
1SRP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Serratia_sp. Serratia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SRP OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
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. 1996 May;119(5):844-51. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8797082 8797082]
+
</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].
-
[[Category: Serralysin]]
+
<div style="clear:both"></div>
-
[[Category: Serratia sp.]]
+
__TOC__
-
[[Category: Single protein]]
+
</StructureSection>
-
[[Category: Hamada, K.]]
+
[[Category: Large Structures]]
-
[[Category: Hata, Y.]]
+
[[Category: Serratia sp. E-15]]
-
[[Category: Hiramatsu, H.]]
+
[[Category: Hamada K]]
-
[[Category: Katsube, Y.]]
+
[[Category: Hata Y]]
-
[[Category: Katsuya, Y.]]
+
[[Category: Hiramatsu H]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 09:04:01 2008''
+
[[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