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PDBsum entry 3ehv
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Contents |
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* Residue conservation analysis
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PDB id:
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Ligase
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Title:
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X-ray structure of human ubiquitin zn(ii) adduct
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Structure:
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Ubiquitin. Chain: a, b, c. Engineered: yes
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Source:
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Homo sapiens. Organism_taxid: 9606. Gene: rps27a, uba80, ubcep1, uba52, ubcep2, ubb, ubc. Expressed in: escherichia coli. Expression_system_taxid: 562
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Resolution:
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1.81Å
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R-factor:
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0.222
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R-free:
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0.271
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Authors:
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G.Falini,S.Fermani,G.Tosi
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Key ref:
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G.Falini
et al.
(2008).
Structural probing of Zn(II), Cd(II) and Hg(II) binding to human ubiquitin.
Chem Commun (camb),
45,
5960-5962.
PubMed id:
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Date:
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15-Sep-08
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Release date:
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17-Mar-09
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PROCHECK
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Headers
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References
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P0CG48
(UBC_HUMAN) -
Polyubiquitin-C from Homo sapiens
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Seq:
Struc:
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685 a.a.
70 a.a.
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Key: |
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PfamA domain |
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Secondary structure |
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CATH domain |
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Enzyme class:
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E.C.6.3.2.19
- Transferred entry: 2.3.2.23, 2.3.2.27 and 6.2.1.45.
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Reaction:
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ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine
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ATP
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+
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ubiquitin
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+
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protein lysine
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=
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AMP
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+
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diphosphate
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+
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protein N-ubiquityllysine
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Molecule diagrams generated from .mol files obtained from the
KEGG ftp site
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Chem Commun (camb)
45:5960-5962
(2008)
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PubMed id:
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Structural probing of Zn(II), Cd(II) and Hg(II) binding to human ubiquitin.
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G.Falini,
S.Fermani,
G.Tosi,
F.Arnesano,
G.Natile.
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ABSTRACT
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A structural investigation performed on adducts of human ubiquitin with group-12
metal ions reveals common preferential anchoring sites, the most populated one
being His68; at higher metal ion concentration a second and a third site, close
to the N-terminus of the protein, become populated and promote a polymorphic
transition from orthorhombic to cubic form; Glu16 and Glu18, involved in the
latter metal binding, undergo a remarkable displacement from their position in
native ubiquitin; the aggregate stereochemistry appears to be driven by the
clustering of deshielded backbone hydrogen-bond patches, and metal ions foster
this process.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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F.Arnesano,
B.D.Belviso,
R.Caliandro,
G.Falini,
S.Fermani,
G.Natile,
and
D.Siliqi
(2011).
Crystallographic analysis of metal-ion binding to human ubiquitin.
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Chemistry,
17,
1569-1578.
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PDB codes:
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F.Miskevich,
A.Davis,
P.Leeprapaiwong,
V.Giganti,
N.M.Kostić,
and
L.A.Angel
(2011).
Metal complexes as artificial proteases in proteomics: a palladium(II) complex cleaves various proteins in solutions containing detergents.
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J Inorg Biochem,
105,
675-683.
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S.D.Weeks,
K.C.Grasty,
L.Hernandez-Cuebas,
and
P.J.Loll
(2009).
Crystal structures of Lys-63-linked tri- and di-ubiquitin reveal a highly extended chain architecture.
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Proteins,
77,
753-759.
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PDB codes:
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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.
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Links
