spacer
spacer

PDBsum entry 2z6o

Go to PDB code: 
protein metals links
Ligase PDB id
2z6o
Jmol
Contents
Protein chain
166 a.a. *
Metals
_MG
Waters ×127
* Residue conservation analysis
PDB id:
2z6o
Name: Ligase
Title: Crystal structure of the ufc1, ufm1 conjugating enzyme 1
Structure: Ufm1-conjugating enzyme 1. Chain: a. Synonym: ubiquitin-fold modifier-conjugating enzyme 1. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: ufc1. Expressed in: escherichia coli. Expression_system_taxid: 562.
Resolution:
1.60Å     R-factor:   0.196     R-free:   0.221
Authors: T.Mizushima,K.Tatsumi,Y.Ozaki,T.Kawakami,A.Suzuki, K.Ogasahara,M.Komatsu,E.Kominami,K.Tanaka,T.Yamane
Key ref: T.Mizushima et al. (2007). Crystal structure of Ufc1, the Ufm1-conjugating enzyme. Biochem Biophys Res Commun, 362, 1079-1084. PubMed id: 17825256 DOI: 10.1016/j.bbrc.2007.08.129
Date:
06-Aug-07     Release date:   25-Sep-07    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
Q9Y3C8  (UFC1_HUMAN) -  Ubiquitin-fold modifier-conjugating enzyme 1
Seq:
Struc:
167 a.a.
166 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     extracellular vesicular exosome   1 term 
  Biological process     protein ufmylation   2 terms 
  Biochemical function     UFM1 conjugating enzyme activity     2 terms  

 

 
DOI no: 10.1016/j.bbrc.2007.08.129 Biochem Biophys Res Commun 362:1079-1084 (2007)
PubMed id: 17825256  
 
 
Crystal structure of Ufc1, the Ufm1-conjugating enzyme.
T.Mizushima, K.Tatsumi, Y.Ozaki, T.Kawakami, A.Suzuki, K.Ogasahara, M.Komatsu, E.Kominami, K.Tanaka, T.Yamane.
 
  ABSTRACT  
 
Ubiquitin and ubiquitin-like protein-conjugating enzymes play central roles in posttranslational modification processes. The ubiquitin-fold modifier 1 (Ufm1), one of a variety of ubiquitin-like modifiers, is covalently attached to target proteins via Uba5 and Ufm1-conjugating enzyme 1 (Ufc1), which are analogous to the E1 and E2 ubiquitylation enzymes. As Ufm1-related proteins are conserved in metazoa and plants, the Ufm1 system likely plays important roles in various multicellular organisms. Herein, we report the X-ray structure of human Ufc1 determined at 1.6 A resolution. The Ufc1 structure comprises a canonical E2 domain and an additional N-terminal domain. The Uba5 binding site on Ufc1 was assigned by structural comparison of Ufc1 and Ubc12 and related mutational analyses. In addition, we show that the N-terminal unique domain of Ufc1 contributes to thermal stability.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
20018847 K.Tatsumi, Y.S.Sou, N.Tada, E.Nakamura, S.Iemura, T.Natsume, S.H.Kang, C.H.Chung, M.Kasahara, E.Kominami, M.Yamamoto, K.Tanaka, and M.Komatsu (2010).
A novel type of E3 ligase for the Ufm1 conjugation system.
  J Biol Chem, 285, 5417-5427.  
19352404 B.A.Schulman, and J.W.Harper (2009).
Ubiquitin-like protein activation by E1 enzymes: the apex for downstream signalling pathways.
  Nat Rev Mol Cell Biol, 10, 319-331.  
19101823 G.Liu, F.Forouhar, A.Eletsky, H.S.Atreya, J.M.Aramini, R.Xiao, Y.J.Huang, M.Abashidze, J.Seetharaman, J.Liu, B.Rost, T.Acton, G.T.Montelione, J.F.Hunt, and T.Szyperski (2009).
NMR and X-RAY structures of human E2-like ubiquitin-fold modifier conjugating enzyme 1 (UFC1) reveal structural and functional conservation in the metazoan UFM1-UBA5-UFC1 ubiquination pathway.
  J Struct Funct Genomics, 10, 127-136.
PDB codes: 2k07 3e2g 3evx
18276160 A.M.Burroughs, M.Jaffee, L.M.Iyer, and L.Aravind (2008).
Anatomy of the E2 ligase fold: implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation.
  J Struct Biol, 162, 205-218.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.