2xk5

From Proteopedia

(Difference between revisions)

Revision as of 10:54, 13 April 2022

Crystal structure of K6-linked diubiquitin

Structural highlights

2xk5 is a 2 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1xqq, 2jf5, 1ubq, 2gbj, 2gbk, 1zgu, 2g45, 2j7q, 2wdt, 1f9j, 2bgf, 1tbe, 1fxt, 2ayo, 1xd3, 1gjz, 1ubi, 1g6j, 1nbf, 1sif, 2xew, 1d3z, 2w9n, 1ogw, 2gbn, 1yx5, 2gbm, 1c3t, 1q5w, 1yx6, 1s1q
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Ubiquitination is a reversible post-translational modification that regulates a myriad of eukaryotic functions. Our ability to study the effects of ubiquitination is often limited by the inaccessibility of homogeneously ubiquitinated proteins. In particular, elucidating the roles of the so-called 'atypical' ubiquitin chains (chains other than Lys48- or Lys63-linked ubiquitin), which account for a large fraction of ubiquitin polymers, is challenging because the enzymes for their biosynthesis are unknown. Here we combine genetic code expansion, intein chemistry and chemoselective ligations to synthesize 'atypical' ubiquitin chains. We solve the crystal structure of Lys6-linked diubiquitin, which is distinct from that of structurally characterized ubiquitin chains, providing a molecular basis for the different biological functions this linkage may regulate. Moreover, we profile a panel containing 10% of the known human deubiquitinases on Lys6- and Lys29-linked ubiquitin and discover that TRABID cleaves the Lys29 linkage 40-fold more efficiently than the Lys63 linkage.

Engineered diubiquitin synthesis reveals Lys29-isopeptide specificity of an OTU deubiquitinase.,Virdee S, Ye Y, Nguyen DP, Komander D, Chin JW Nat Chem Biol. 2010 Oct;6(10):750-7. Epub 2010 Aug 29. PMID:20802491^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Virdee S, Ye Y, Nguyen DP, Komander D, Chin JW. Engineered diubiquitin synthesis reveals Lys29-isopeptide specificity of an OTU deubiquitinase. Nat Chem Biol. 2010 Oct;6(10):750-7. Epub 2010 Aug 29. PMID:20802491 doi:10.1038/nchembio.426

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2xk5"

@@ Line 3: / Line 3: @@
 <StructureSection load='2xk5' size='340' side='right'caption='[[2xk5]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2xk5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XK5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XK5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2xk5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XK5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XK5 FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1xqq|1xqq]], [[2jf5|2jf5]], [[1ubq|1ubq]], [[2gbj|2gbj]], [[2gbk|2gbk]], [[1zgu|1zgu]], [[2g45|2g45]], [[2j7q|2j7q]], [[2wdt|2wdt]], [[1f9j|1f9j]], [[2bgf|2bgf]], [[1tbe|1tbe]], [[1fxt|1fxt]], [[2ayo|2ayo]], [[1xd3|1xd3]], [[1gjz|1gjz]], [[1ubi|1ubi]], [[1g6j|1g6j]], [[1nbf|1nbf]], [[1sif|1sif]], [[2xew|2xew]], [[1d3z|1d3z]], [[2w9n|2w9n]], [[1ogw|1ogw]], [[2gbn|2gbn]], [[1yx5|1yx5]], [[2gbm|2gbm]], [[1c3t|1c3t]], [[1q5w|1q5w]], [[1yx6|1yx6]], [[1s1q|1s1q]]</td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1xqq|1xqq]], [[2jf5|2jf5]], [[1ubq|1ubq]], [[2gbj|2gbj]], [[2gbk|2gbk]], [[1zgu|1zgu]], [[2g45|2g45]], [[2j7q|2j7q]], [[2wdt|2wdt]], [[1f9j|1f9j]], [[2bgf|2bgf]], [[1tbe|1tbe]], [[1fxt|1fxt]], [[2ayo|2ayo]], [[1xd3|1xd3]], [[1gjz|1gjz]], [[1ubi|1ubi]], [[1g6j|1g6j]], [[1nbf|1nbf]], [[1sif|1sif]], [[2xew|2xew]], [[1d3z|1d3z]], [[2w9n|2w9n]], [[1ogw|1ogw]], [[2gbn|2gbn]], [[1yx5|1yx5]], [[2gbm|2gbm]], [[1c3t|1c3t]], [[1q5w|1q5w]], [[1yx6|1yx6]], [[1s1q|1s1q]]</div></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2xk5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xk5 OCA], [http://pdbe.org/2xk5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xk5 RCSB], [http://www.ebi.ac.uk/pdbsum/2xk5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xk5 ProSAT]</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=2xk5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xk5 OCA], [https://pdbe.org/2xk5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xk5 RCSB], [https://www.ebi.ac.uk/pdbsum/2xk5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xk5 ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 29: / Line 29: @@
 ==See Also==
-*[[Ubiquitin|Ubiquitin]]
+*[[3D structures of ubiquitin|3D structures of ubiquitin]]
 == References ==
 <references/>

2xk5

From Proteopedia

Revision as of 10:54, 13 April 2022

Crystal structure of K6-linked diubiquitin

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox