7nvk

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of UBA5 fragment fused to the N-terminus of UFC1

Structural highlights

7nvk is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.651Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

UBA5_HUMAN E1-like enzyme which activates UFM1 and SUMO2.^[1] ^[2] ^[3] UFC1_HUMAN E2-like enzyme which forms an intermediate with UFM1 via a thioester linkage.^[4]

Publication Abstract from PubMed

Ufmylation is a post-translational modification essential for regulating key cellular processes. A three-enzyme cascade involving E1, E2 and E3 is required for UFM1 attachment to target proteins. How UBA5 (E1) and UFC1 (E2) cooperatively activate and transfer UFM1 is still unclear. Here, we present the crystal structure of UFC1 bound to the C-terminus of UBA5, revealing how UBA5 interacts with UFC1 via a short linear sequence, not observed in other E1-E2 complexes. We find that UBA5 has a region outside the adenylation domain that is dispensable for UFC1 binding but critical for UFM1 transfer. This region moves next to UFC1's active site Cys and compensates for a missing loop in UFC1, which exists in other E2s and is needed for the transfer. Overall, our findings advance the understanding of UFM1's conjugation machinery and may serve as a basis for the development of ufmylation inhibitors.

Structural basis for UFM1 transfer from UBA5 to UFC1.,Kumar M, Padala P, Fahoum J, Hassouna F, Tsaban T, Zoltsman G, Banerjee S, Cohen-Kfir E, Dessau M, Rosenzweig R, Isupov MN, Schueler-Furman O, Wiener R Nat Commun. 2021 Sep 29;12(1):5708. doi: 10.1038/s41467-021-25994-6. PMID:34588452^[5]

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

References

↑ Komatsu M, Chiba T, Tatsumi K, Iemura S, Tanida I, Okazaki N, Ueno T, Kominami E, Natsume T, Tanaka K. A novel protein-conjugating system for Ufm1, a ubiquitin-fold modifier. EMBO J. 2004 May 5;23(9):1977-86. Epub 2004 Apr 8. PMID:15071506 doi:http://dx.doi.org/10.1038/sj.emboj.7600205
↑ Zheng M, Gu X, Zheng D, Yang Z, Li F, Zhao J, Xie Y, Ji C, Mao Y. UBE1DC1, an ubiquitin-activating enzyme, activates two different ubiquitin-like proteins. J Cell Biochem. 2008 Aug 15;104(6):2324-34. doi: 10.1002/jcb.21791. PMID:18442052 doi:http://dx.doi.org/10.1002/jcb.21791
↑ Bacik JP, Walker JR, Ali M, Schimmer AD, Dhe-Paganon S. Crystal structure of the human ubiquitin-activating enzyme 5 (UBA5) bound to ATP: mechanistic insights into a minimalistic E1 enzyme. J Biol Chem. 2010 Jun 25;285(26):20273-80. Epub 2010 Apr 5. PMID:20368332 doi:10.1074/jbc.M110.102921
↑ Komatsu M, Chiba T, Tatsumi K, Iemura S, Tanida I, Okazaki N, Ueno T, Kominami E, Natsume T, Tanaka K. A novel protein-conjugating system for Ufm1, a ubiquitin-fold modifier. EMBO J. 2004 May 5;23(9):1977-86. Epub 2004 Apr 8. PMID:15071506 doi:http://dx.doi.org/10.1038/sj.emboj.7600205
↑ Kumar M, Padala P, Fahoum J, Hassouna F, Tsaban T, Zoltsman G, Banerjee S, Cohen-Kfir E, Dessau M, Rosenzweig R, Isupov MN, Schueler-Furman O, Wiener R. Structural basis for UFM1 transfer from UBA5 to UFC1. Nat Commun. 2021 Sep 29;12(1):5708. doi: 10.1038/s41467-021-25994-6. PMID:34588452 doi:http://dx.doi.org/10.1038/s41467-021-25994-6

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/7nvk"

@@ Line 3: / Line 3: @@
 <StructureSection load='7nvk' size='340' side='right'caption='[[7nvk]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[7nvk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NVK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NVK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[7nvk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NVK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NVK FirstGlance]. <br>
-</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=7nvk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nvk OCA], [https://pdbe.org/7nvk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nvk RCSB], [https://www.ebi.ac.uk/pdbsum/7nvk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nvk ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.651&#8491;</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=7nvk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nvk OCA], [https://pdbe.org/7nvk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nvk RCSB], [https://www.ebi.ac.uk/pdbsum/7nvk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nvk ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/UBA5_HUMAN UBA5_HUMAN]] E1-like enzyme which activates UFM1 and SUMO2.<ref>PMID:15071506</ref> <ref>PMID:18442052</ref> <ref>PMID:20368332</ref>
+[https://www.uniprot.org/uniprot/UBA5_HUMAN UBA5_HUMAN] E1-like enzyme which activates UFM1 and SUMO2.<ref>PMID:15071506</ref> <ref>PMID:18442052</ref> <ref>PMID:20368332</ref> [https://www.uniprot.org/uniprot/UFC1_HUMAN UFC1_HUMAN] E2-like enzyme which forms an intermediate with UFM1 via a thioester linkage.<ref>PMID:15071506</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 22: @@
 __TOC__
 </StructureSection>
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Isupov, M N]]
+[[Category: Isupov MN]]
-[[Category: Kumar, P Manoj]]
+[[Category: Manoj Kumar P]]
-[[Category: Padala, P]]
+[[Category: Padala P]]
-[[Category: Wiener, R]]
+[[Category: Wiener R]]
-[[Category: E1]]
-[[Category: Ligase]]
-[[Category: Ufmylation]]

7nvk

From Proteopedia

Current revision

Crystal structure of UBA5 fragment fused to the N-terminus of UFC1

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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