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.


2vlh

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:24, 13 December 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
==QUINONOID INTERMEDIATE OF CITROBACTER FREUNDII TYROSINE PHENOL-LYASE FORMED WITH METHIONINE==
+
 
-
<StructureSection load='2vlh' size='340' side='right' caption='[[2vlh]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
+
==Quinonoid intermediate of Citrobacter freundii tyrosine phenol-lyase formed with methionine==
 +
<StructureSection load='2vlh' size='340' side='right'caption='[[2vlh]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[2vlh]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VLH OCA]. <br>
+
<table><tr><td colspan='2'>[[2vlh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VLH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VLH FirstGlance]. <br>
-
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=PM9:(2E)-2-{[(Z)-{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4(1H)-YLIDENE}METHYL]IMINO}-4-(METHYLSULFANYL)BUTANOIC+ACID'>PM9</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]] 1.95&#8491;</td></tr>
-
<tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)'>LLP</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=PM9:(2E)-2-{[(Z)-{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4(1H)-YLIDENE}METHYL]IMINO}-4-(METHYLSULFANYL)BUTANOIC+ACID'>PM9</scene></td></tr>
-
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2ez1|2ez1]], [[2tpl|2tpl]], [[2vlf|2vlf]], [[2ez2|2ez2]], [[1tpl|1tpl]]</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=2vlh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vlh OCA], [https://pdbe.org/2vlh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vlh RCSB], [https://www.ebi.ac.uk/pdbsum/2vlh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vlh ProSAT]</span></td></tr>
-
<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr>
+
</table>
-
<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=2vlh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vlh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vlh RCSB], [http://www.ebi.ac.uk/pdbsum/2vlh PDBsum]</span></td></tr>
+
== Function ==
-
<table>
+
[https://www.uniprot.org/uniprot/TPL_CITFR TPL_CITFR]
== 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/vl/2vlh_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vl/2vlh_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=2vlh ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
Line 25: Line 26:
Insights into the catalytic mechanism of tyrosine phenol-lyase from X-ray structures of quinonoid intermediates.,Milic D, Demidkina TV, Faleev NG, Matkovic-Calogovic D, Antson AA J Biol Chem. 2008 Oct 24;283(43):29206-14. Epub 2008 Aug 20. PMID:18715865<ref>PMID:18715865</ref>
Insights into the catalytic mechanism of tyrosine phenol-lyase from X-ray structures of quinonoid intermediates.,Milic D, Demidkina TV, Faleev NG, Matkovic-Calogovic D, Antson AA J Biol Chem. 2008 Oct 24;283(43):29206-14. Epub 2008 Aug 20. PMID:18715865<ref>PMID:18715865</ref>
-
From MEDLINE®/PubMed®, 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 2vlh" style="background-color:#fffaf0;"></div>
 +
 +
==See Also==
 +
*[[Tyrosinase 3D structures|Tyrosinase 3D structures]]
== References ==
== References ==
<references/>
<references/>
Line 32: Line 37:
</StructureSection>
</StructureSection>
[[Category: Citrobacter freundii]]
[[Category: Citrobacter freundii]]
-
[[Category: Tyrosine phenol-lyase]]
+
[[Category: Large Structures]]
-
[[Category: Antson, A A.]]
+
[[Category: Antson AA]]
-
[[Category: Demidkina, T V.]]
+
[[Category: Demidkina TV]]
-
[[Category: Matkovic-Calogovic, D.]]
+
[[Category: Matkovic-Calogovic D]]
-
[[Category: Milic, D.]]
+
[[Category: Milic D]]
-
[[Category: Lyase]]
+
-
[[Category: Plp-dependent enzyme]]
+
-
[[Category: Pyridoxal phosphate]]
+
-
[[Category: Quinonoid intermediate]]
+
-
[[Category: Tyrosine degradation]]
+

Current revision

Quinonoid intermediate of Citrobacter freundii tyrosine phenol-lyase formed with methionine

PDB ID 2vlh

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/2vlh"
Personal tools