This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

2ek9

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Aminopeptidase from Aneurinibacillus sp. strain AM-1 with Bestatin

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2ek9"

Categories: Aneurinibacillus sp. AM-1 | Large Structures | Akioka M | Nakano H | Watanabe K

@@ Line 1: / Line 1: @@
-[[Image:2ek9.jpg|left|200px]]
- {{Structure
+==Aminopeptidase from Aneurinibacillus sp. strain AM-1 with Bestatin==
-|PDB= 2ek9 |SIZE=350|CAPTION= <scene name='initialview01'>2ek9</scene>, resolution 1.97&Aring;
+<StructureSection load='2ek9' size='340' side='right'caption='[[2ek9]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
-|SITE= <scene name='pdbsite=AC1:Zn+Binding+Site+For+Residue+A+1001'>AC1</scene>, <scene name='pdbsite=AC2:Zn+Binding+Site+For+Residue+A+1002'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Residue+A+1003'>AC3</scene>, <scene name='pdbsite=AC4:Zn+Binding+Site+For+Residue+A+1004'>AC4</scene>, <scene name='pdbsite=AC5:Zn+Binding+Site+For+Residue+A+1005'>AC5</scene>, <scene name='pdbsite=AC6:Zn+Binding+Site+For+Residue+A+1006'>AC6</scene>, <scene name='pdbsite=AC7:Bes+Binding+Site+For+Residue+A+2001'>AC7</scene> and <scene name='pdbsite=AC8:Ipa+Binding+Site+For+Residue+A+3001'>AC8</scene>
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
+<table><tr><td colspan='2'>[[2ek9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aneurinibacillus_sp._AM-1 Aneurinibacillus sp. AM-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EK9 FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.97&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=pfam04389 Peptidase_M28], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd02133 PA_C5a_like]</span>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ek9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ek9 OCA], [https://pdbe.org/2ek9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ek9 RCSB], [https://www.ebi.ac.uk/pdbsum/2ek9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ek9 ProSAT]</span></td></tr>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ek9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ek9 OCA], [http://www.ebi.ac.uk/pdbsum/2ek9 PDBsum], [http://www.fli-leibniz.de/cgi-bin/ImgLib.pl?CODE=1kfv JenaLib], [http://www.rcsb.org/pdb/explore.do?structureId=2ek9 RCSB]</span>
+</table>
-}}
+== Function ==
+[https://www.uniprot.org/uniprot/A2V759_9BACL A2V759_9BACL]
+== 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/ek/2ek9_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=2ek9 ConSurf].
+<div style="clear:both"></div>
-'''Aminopeptidase from Aneurinibacillus sp. strain AM-1 with Bestatin'''
+==See Also==
+*[[Aminopeptidase 3D structures|Aminopeptidase 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-To elucidate the structure and molecular mechanism of a characteristic proline-specific aminopeptidase produced by the thermophile Aneurinibacillus sp. strain AM-1, its gene was cloned and the recombinant protein was overexpressed in Escherichia coli, purified and crystallized using the hanging-drop vapour-diffusion method. X-ray diffraction data were collected to 1.8 A resolution from the recombinant aminopeptidase crystal. The crystals belong to the orthorhombic space group P2(1)2(1)2, with unit-cell parameters a = 93.62, b = 68.20, c = 76.84 A. A complete data set was also obtained from crystals of SeMet-substituted aminopeptidase. Data in the resolution range 20-2.1 A from the MAD data set from the SeMet-substituted crystal were used for phase determination.
+[[Category: Aneurinibacillus sp. AM-1]]
+[[Category: Large Structures]]
-==About this Structure==
+[[Category: Akioka M]]
-EK9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EK9 OCA].
+[[Category: Nakano H]]
+[[Category: Watanabe K]]
-==Reference==
-Overexpression, purification, crystallization and preliminary X-ray crystallographic studies of a proline-specific aminopeptidase from Aneurinibacillus sp. strain AM-1., Akioka M, Nakano H, Horikiri A, Tsujimoto Y, Matsui H, Shimizu T, Nakatsu T, Kato H, Watanabe K, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Dec 1;62(Pt, 12):1266-8. Epub 2006 Nov 30. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17142913 17142913]
-[[Category: Bacteria]]
-[[Category: Single protein]]
-[[Category: Akioka, M.]]
-[[Category: Nakano, H.]]
-[[Category: Watanabe, K.]]
-[[Category: hydrolase]]
-[[Category: metalloproteinase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 26 09:51:01 2008''

2ek9

From Proteopedia

Current revision

Aminopeptidase from Aneurinibacillus sp. strain AM-1 with Bestatin

Structural highlights

Function

Evolutionary Conservation

See Also

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox