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.


1y89

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "1y89" [edit=sysop:move=sysop])
Current revision (08:01, 15 May 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1y89.png|left|200px]]
 
-
{{STRUCTURE_1y89| PDB=1y89 | SCENE= }}
+
==Crystal Structure of devB protein==
-
 
+
<StructureSection load='1y89' size='340' side='right'caption='[[1y89]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-
===Crystal Structure of devB protein===
+
== Structural highlights ==
-
 
+
<table><tr><td colspan='2'>[[1y89]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae_O1_biovar_El_Tor_str._N16961 Vibrio cholerae O1 biovar El Tor str. N16961]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y89 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y89 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]] 2&#8491;</td></tr>
-
==About this Structure==
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PE5:3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL'>PE5</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-
[[1y89]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae_o1_biovar_el_tor_str._n16961 Vibrio cholerae o1 biovar el tor str. n16961]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y89 OCA].
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1y89 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y89 OCA], [https://pdbe.org/1y89 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y89 RCSB], [https://www.ebi.ac.uk/pdbsum/1y89 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y89 ProSAT], [https://www.topsan.org/Proteins/MCSG/1y89 TOPSAN]</span></td></tr>
-
[[Category: Vibrio cholerae o1 biovar el tor str. n16961]]
+
</table>
-
[[Category: Chruszcz, M.]]
+
== Function ==
-
[[Category: Cymborowski, M.]]
+
[https://www.uniprot.org/uniprot/Q9KL51_VIBCH Q9KL51_VIBCH] Hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate.[ARBA:ARBA00002681][RuleBase:RU365095]
-
[[Category: Joachimiak, A.]]
+
== Evolutionary Conservation ==
-
[[Category: Lazarski, K.]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Lezondra, L.]]
+
Check<jmol>
-
[[Category: MCSG, Midwest Center for Structural Genomics.]]
+
<jmolCheckbox>
-
[[Category: Minor, W.]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/y8/1y89_consurf.spt"</scriptWhenChecked>
-
[[Category: Zhang, R.]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: Zheng, H.]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: Mcsg]]
+
</jmolCheckbox>
-
[[Category: Midwest center for structural genomic]]
+
</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=1y89 ConSurf].
-
[[Category: Protein structure initiative]]
+
<div style="clear:both"></div>
-
[[Category: Psi]]
+
__TOC__
-
[[Category: Structural genomic]]
+
</StructureSection>
-
[[Category: Unknown function]]
+
[[Category: Large Structures]]
 +
[[Category: Vibrio cholerae O1 biovar El Tor str. N16961]]
 +
[[Category: Chruszcz M]]
 +
[[Category: Cymborowski M]]
 +
[[Category: Joachimiak A]]
 +
[[Category: Lazarski K]]
 +
[[Category: Lezondra L]]
 +
[[Category: Minor W]]
 +
[[Category: Zhang R]]
 +
[[Category: Zheng H]]

Current revision

Crystal Structure of devB protein

PDB ID 1y89

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/1y89"
Personal tools