SUMO: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
Joel L. Sussman (talk | contribs)
ConfirmAccount, Editor, Mutation, Print3D, Tester, Bureaucrats, journal
11,707 edits
No edit summary
Michal Harel (talk | contribs)
32,831 edits
No edit summary
 
(5 intermediate revisions by 2 users not shown)
Line 2: Line 2:
__TOC__
__TOC__
== Function ==
== Function ==
[[SUMO]] is a '''Small Ubiquitin-like MOdifier''' which covalently attaches to cellular proteins to modify their function.  SUMO is similar in structure but not in sequence to [[Ubiquitin|ubiquitin]].  In several organisms SUMO is called SMT3.  The SUMO-conjugating enzyme (E2) is called UBC9.  The sentrin specific protease (SEPN) cleaves the C-terminal peptide from SUMO which then can bind to ubiquitin activating enzyme (E1). For details on SUMO-1 protein complex see <br />
[[SUMO]] is a '''Small Ubiquitin-like MOdifier''' which covalently attaches to cellular proteins to modify their function.  SUMO is similar in structure but not in sequence to [[Ubiquitin|ubiquitin]].  In several organisms SUMO is called '''SMT3'''.  The SUMO-conjugating enzyme (E2) is called UBC9.  The sentrin specific protease (SEPN) cleaves the C-terminal peptide from SUMO which then can bind to ubiquitin activating enzyme (E1). For details on SUMO-1 protein complex see <br />
*[[Human SUMO E1 complex]] <br />  
*[[Human SUMO E1 complex]] <br />  
*[[Human SUMO E1 complex with a SUMO1-AMP mimic]]<br />
*[[Human SUMO E1 complex with a SUMO1-AMP mimic]]<br />
Line 16: Line 16:
The <scene name='3kyc/Al/2'>structural alignment</scene> of the crystal structures for human SUMO E1 in complex with SUMO adenylate (AMSN) and tetrahedral intermediate (AVSN) analogues revealed opened conformation (<font color='orange'><b>SUMO1 in orange</b></font>, <font color='blue'><b>SAE1 colored in blue</b></font>, and <font color='darkviolet'><b>other domains in darkviolet</b></font>) and closed conformation (<font color='yellow'><b>SUMO1 in yellow</b></font>, <font color='cyan'><b>SAE1 colored in cyan</b></font>, and <font color='magenta'><b>other domains in magenta</b></font>), respectively. In the <scene name='3kyc/Al/7'>open conformation</scene> ([[3kyc]]) the distance between Cys domain (including Cys173) and mimic of the acyl adenylate intermediate AMSN is very long, while in the <scene name='3kyc/Al/6'>closed conformation</scene> ([[3kyd]]), the catalytic Cys173 is posioned near AVSN and SUMO1, so the overall structure revealed dramatic rearrangement. This large conformational change forms the <scene name='3kyc/Al/8'>E1~SUMO1-AVSN tetrahedral intermediate analogue</scene>.<ref>PMID:20164921</ref>  
The <scene name='3kyc/Al/2'>structural alignment</scene> of the crystal structures for human SUMO E1 in complex with SUMO adenylate (AMSN) and tetrahedral intermediate (AVSN) analogues revealed opened conformation (<font color='orange'><b>SUMO1 in orange</b></font>, <font color='blue'><b>SAE1 colored in blue</b></font>, and <font color='darkviolet'><b>other domains in darkviolet</b></font>) and closed conformation (<font color='yellow'><b>SUMO1 in yellow</b></font>, <font color='cyan'><b>SAE1 colored in cyan</b></font>, and <font color='magenta'><b>other domains in magenta</b></font>), respectively. In the <scene name='3kyc/Al/7'>open conformation</scene> ([[3kyc]]) the distance between Cys domain (including Cys173) and mimic of the acyl adenylate intermediate AMSN is very long, while in the <scene name='3kyc/Al/6'>closed conformation</scene> ([[3kyd]]), the catalytic Cys173 is posioned near AVSN and SUMO1, so the overall structure revealed dramatic rearrangement. This large conformational change forms the <scene name='3kyc/Al/8'>E1~SUMO1-AVSN tetrahedral intermediate analogue</scene>.<ref>PMID:20164921</ref>  


[[Image:Kyc_smaller.gif]]
[[Image:Kyc_smaller.gif|275px|left|thumb]]
<br>
<br>
For better understanding of the difference between these two conformations you can see this [[Morphs|morph]] (generated by using [http://polyview.cchmc.org/polyview3d.html POLYVIEW-3D: http://polyview.cchmc.org/polyview3d.html]; reload/refresh this page to restart this movie). Of note, in contrast to the previous figure, the same domains of these two structures ([[3kyc]] and [[3kyd]]) are colored in the same colors (<font color='yellow'><b>SUMO1 in yellow</b></font>, <font color='blue'><b>SAE1 colored in blue</b></font> and <font color='darkviolet'><b>other domains in darkviolet</b></font>). The catalytic Cys173 is shown in the spacefill representation and colored green, AMSN (or AVSN) are shown in the spacefill representation and colored in CPK colors.
For better understanding of the difference between these two conformations you can see this [[Morphs|morph]] (generated by using [http://polyview.cchmc.org/polyview3d.html POLYVIEW-3D: http://polyview.cchmc.org/polyview3d.html]; reload/refresh this page to restart this movie). Of note, in contrast to the previous figure, the same domains of these two structures ([[3kyc]] and [[3kyd]]) are colored in the same colors (<font color='yellow'><b>SUMO1 in yellow</b></font>, <font color='blue'><b>SAE1 colored in blue</b></font> and <font color='darkviolet'><b>other domains in darkviolet</b></font>). The catalytic Cys173 is shown in the spacefill representation and colored green, AMSN (or AVSN) are shown in the spacefill representation and colored in CPK colors.
== 3D Structures of SUMO ==
[[SUMO 3D Structures]]
</StructureSection>
</StructureSection>
{{Clear}}
{{Clear}}
== 3D Structures of SUMO ==
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
{{#tree:id=OrganizedByTopic|openlevels=0|
* SUMO
**[[2k8h]] – SUMO – NMR – ''Trypanosoma brucei''<br />
**[[1u4a]] – hSUMO-3 (mutant) – NMR – human<br />
**[[2n1v]], [[2mw5]], [[5ghd]], [[5b7r]], [[1a5r]]  – hSUMO-1 - NMR<br />
**[[1wm2]], [[1wm3]], [[2awt]], [[4bkg]], [[4npn]] – hSUMO-2<br />
**[[2n1w]], [[5ghb]], [[5ghc]] – hSUMO-2 - NMR<br />
**[[1u4a]] – hSUMO-3 (mutant) – NMR <br />
* SUMO+ubiquitin-like SUMO-conjugating enzyme
**[[2vrr]], [[2uyz]] – mSUMO-1+Ubc9<br />
**[[2pe6]] - hSUMO-1+Ubc9<br />
**[[3uip]], [[3uio]] - hSUMO-1+UBC9 + RAN GTPase-activating enzyme<br />
**[[3uin]] - hSUMO-2+UBC9 + RAN GTPase-activating enzyme<br />
* SUMO+sentrin specific protease
**[[2io0]] – pre-hSUMO-2+SEPN2<br />
**[[2io1]] - pre-hSUMO-3+SEPN2<br />
**[[2g4d]] - hSUMO-1+SEPN1<br />
**[[2iy1]] - hSUMO-1+SEPN1 (mutant)<br />
**[[2iyd]], [[2ckh]], [[3zo5]] - hSUMO-2+SEPN1<br />
**[[1tgz]] - hSUMO-1+SEPN2<br />
**[[5aek]] - hSUMO-1 (mutant) +SEPN2 (mutant)<br />
**[[2io3]] - pre-hSUMO-2+SEPN2 (mutant)+RAN GTPase-activating enzyme (mutant)<br />
**[[2iy0]] - hSUMO-1+SEPN1 (mutant)+RAN GTPase-activating enzyme <br />
* SUMO+ubiquitin-conjugating enzyme
**[[1z5s]] - hSUMO-1+E2+ RAN GTPase-activating enzyme<br />
**[[5d2m]] - hSUMO-2+E2+ RAN GTPase-activating enzyme + ZNF451<br />
**[[2bf8]] - SUMO-1+E2 - bovine<br />
* SMT3
**[[2k1f]] – SMT3 – Fruit fly<br />
**[[2eke]] – ySMT3+UBC9 – yeast<br />
**[[1euv]] – ySMT3+ULP1 protease<br />
**[[3v60]], [[3v61]] – ySMT3 + PCNA (mutant)<br />
**[[3v62]] – ySMT3 + PCNA (mutant) + ATP-dependent DNA helicase SRS2<br />
**[[3qht]] – ySMT3 + monobody<br />
* SUMO+other proteins
**[[2asq]] – hSUMO-1+SUMO-binding motif in PIASX<br />
**[[3kyc]], [[3kyd]] – hSUMO-1 +SUMO-activating enzyme <br />
**[[5eql]] – hSUMO-1 + SUMO-adhiron-S2D5<br />
**[[1wyw]] - hSUMO-1+thymine DNA glycosylate<br />
**[[2kqs]] - hSUMO-1+death domain-associated protein 6 fragment<br />
**[[2las]] – hSUMO-1 + M-IR2 peptide<br />
**[[4wjn]], [[4wjo]] – hSUMO-1 (mutant) + PML<br />
**[[4wjp]], [[4wjq]] – hSUMO-1 (mutant) + DAXX<br />
**[[3rzw]] – hSUMO-1 (mutant) + monobody<br />
**[[2n1a]] – hSUMO-1 + CREB-binding protein - NMR<br />
**[[2n9e]] – hSUMO-2 + RAP80 - NMR<br />
**[[5eql]], [[5elu]] – hSUMO-2 + SUMO-adhiron-S2D5<br />
**[[5tvq]] – hSUMO-2 + tyrosyl-DNA phosphodiesterase<br />
**[[5tvp]] – hSUMO-2 + tyrosyl-DNA phosphodiesterase + DNA<br />
**[[2mp2]] – hSUMO-3 + E3 ubiquitin protein ligase<br />
**[[2rpq]] – hSUMO-3+activating transcription factor <br />
**[[2d07]] - hSUMO-3+thymine DNA glycosylate<br />
**[[5jp1]] – SUMO + xanthomonas outer protein D - tomato<br />


}}
==Reference==
==Reference==
<references/>
<references/>
Retrieved from "https://proteopedia.org/SUMO"