3rit: Difference between revisions

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[[Image:3rit.png|left|200px]]


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==Crystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg and dipeptide L-Arg-D-Lys==
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<StructureSection load='3rit' size='340' side='right'caption='[[3rit]], [[Resolution|resolution]] 2.70&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'>[[3rit]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Methylococcus_capsulatus Methylococcus capsulatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RIT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RIT FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.701&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ARG:ARGININE'>ARG</scene>, <scene name='pdbligand=DLY:D-LYSINE'>DLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_3rit|  PDB=3rit  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3rit FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rit OCA], [https://pdbe.org/3rit PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rit RCSB], [https://www.ebi.ac.uk/pdbsum/3rit PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rit ProSAT]</span></td></tr>
 
</table>
===Crystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg and dipeptide L-Arg-D-Lys===
== Function ==
 
[https://www.uniprot.org/uniprot/KRDE_METCA KRDE_METCA] Catalyzes the epimerization of L-Lys-L-Arg to L-Lys-D-Arg. Can also catalyze the epimerization of other cationic dipeptides, such as L-Arg-L-Arg, L-Lys-L-Lys and L-Lys-L-His, but with lower efficiency (in vitro).<ref>PMID:22392983</ref>
 
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{{ABSTRACT_PUBMED_22392983}}
 
==About this Structure==
[[3rit]] is a 5 chain structure of [[Muconate cycloisomerase]] with sequence from [http://en.wikipedia.org/wiki/Methylococcus_capsulatus Methylococcus capsulatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RIT OCA].  


==See Also==
==See Also==
*[[Muconate cycloisomerase]]
*[[Muconate cycloisomerase|Muconate cycloisomerase]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:022392983</ref><references group="xtra"/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Methylococcus capsulatus]]
[[Category: Methylococcus capsulatus]]
[[Category: Gerlt, J A.]]
[[Category: Gerlt JA]]
[[Category: Lukk, T.]]
[[Category: Lukk T]]
[[Category: Nair, S K.]]
[[Category: Nair SK]]
[[Category: Sakai, A.]]
[[Category: Sakai A]]
[[Category: Song, L.]]
[[Category: Song L]]
[[Category: Chloromuconate cycloisomerase]]
[[Category: Isomerase]]
[[Category: Tim barrel]]

Latest revision as of 12:43, 1 March 2024

Crystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg and dipeptide L-Arg-D-LysCrystal structure of Dipeptide Epimerase from Methylococcus capsulatus complexed with Mg and dipeptide L-Arg-D-Lys

Structural highlights

3rit is a 5 chain structure with sequence from Methylococcus capsulatus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.701Å
Ligands:, , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

KRDE_METCA Catalyzes the epimerization of L-Lys-L-Arg to L-Lys-D-Arg. Can also catalyze the epimerization of other cationic dipeptides, such as L-Arg-L-Arg, L-Lys-L-Lys and L-Lys-L-His, but with lower efficiency (in vitro).[1]

See Also

References

  1. ↑ Lukk T, Sakai A, Kalyanaraman C, Brown SD, Imker HJ, Song L, Fedorov AA, Fedorov EV, Toro R, Hillerich B, Seidel R, Patskovsky Y, Vetting MW, Nair SK, Babbitt PC, Almo SC, Gerlt JA, Jacobson MP. Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily. Proc Natl Acad Sci U S A. 2012 Mar 13;109(11):4122-7. Epub 2012 Mar 5. PMID:22392983 doi:10.1073/pnas.1112081109

3rit, resolution 2.70Å

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