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.


2vqt

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:28, 13 December 2023) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
-
==STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA-MANNOSIDASES==
+
 
-
<StructureSection load='2vqt' size='340' side='right' caption='[[2vqt]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+
==Structural and biochemical evidence for a boat-like transition state in beta-mannosidases==
 +
<StructureSection load='2vqt' size='340' side='right'caption='[[2vqt]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[2vqt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VQT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VQT FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[2vqt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VQT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VQT FirstGlance]. <br>
-
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=15A:(2Z,3R,4S,5R,6R)-2-[(2-AMINOETHYL)IMINO]-6-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL'>15A</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene><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]] 2.1&#8491;</td></tr>
-
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2vot|2vot]], [[2vl4|2vl4]], [[2vqu|2vqu]], [[2vo5|2vo5]], [[2je8|2je8]], [[2vr4|2vr4]], [[2vjx|2vjx]], [[2vmf|2vmf]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=15A:(2Z,3R,4S,5R,6R)-2-[(2-AMINOETHYL)IMINO]-6-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL'>15A</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-
<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-mannosidase Beta-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.25 3.2.1.25] </span></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=2vqt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vqt OCA], [https://pdbe.org/2vqt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vqt RCSB], [https://www.ebi.ac.uk/pdbsum/2vqt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vqt ProSAT]</span></td></tr>
-
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2vqt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vqt OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vqt RCSB], [http://www.ebi.ac.uk/pdbsum/2vqt PDBsum]</span></td></tr>
+
</table>
-
<table>
+
== Function ==
 +
[https://www.uniprot.org/uniprot/Q8AAK6_BACTN Q8AAK6_BACTN]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vq/2vqt_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vq/2vqt_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</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/chain_selection.php?pdb_ID=2ata ConSurf].
+
</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=2vqt ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
Line 26: Line 28:
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
</div>
 +
<div class="pdbe-citations 2vqt" style="background-color:#fffaf0;"></div>
==See Also==
==See Also==
-
*[[Mannosidase|Mannosidase]]
+
*[[Mannosidase 3D structures|Mannosidase 3D structures]]
== References ==
== References ==
<references/>
<references/>
Line 34: Line 37:
</StructureSection>
</StructureSection>
[[Category: Bacteroides thetaiotaomicron]]
[[Category: Bacteroides thetaiotaomicron]]
-
[[Category: Beta-mannosidase]]
+
[[Category: Large Structures]]
-
[[Category: Bleriot, Y.]]
+
[[Category: Bleriot Y]]
-
[[Category: Davies, G J.]]
+
[[Category: Davies GJ]]
-
[[Category: Dumon, C.]]
+
[[Category: Dumon C]]
-
[[Category: Gilbert, H J.]]
+
[[Category: Gilbert HJ]]
-
[[Category: Gratien, J.]]
+
[[Category: Gratien J]]
-
[[Category: Heck, M P.]]
+
[[Category: Heck MP]]
-
[[Category: Moreland, C.]]
+
[[Category: Moreland C]]
-
[[Category: Offen, W A.]]
+
[[Category: Offen WA]]
-
[[Category: Smith, N L.]]
+
[[Category: Smith NL]]
-
[[Category: Stick, R V.]]
+
[[Category: Stick RV]]
-
[[Category: Tailford, L E.]]
+
[[Category: Tailford LE]]
-
[[Category: Vasella, A.]]
+
[[Category: Vasella A]]
-
[[Category: Glycoside hydrolase]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Linear free energy relationship]]
+
-
[[Category: Mannosidase]]
+
-
[[Category: Transition state mimic]]
+

Current revision

Structural and biochemical evidence for a boat-like transition state in beta-mannosidases

PDB ID 2vqt

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/2vqt"
Personal tools