ISDA

Deposition Date 2013-04-17

Release Date 2013-05-08

Last Version Date 2023-09-20

Entry Detail

PDB ID:

4K7U

Keywords:

LIGASE

Title:

Crystal structure of Zn2.3-hUb (human ubiquitin) adduct from a solution 70 mM zinc acetate/1.3 mM hUb

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.76 Å

R-Value Free:

0.19

R-Value Work:

0.16

R-Value Observed:

0.16

Space Group:

P 21 21 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:ubiquitin
Gene (Uniprot):UBC
Chain IDs:A, B, C
Chain Length:76
Number of Molecules:3
Biological Source:Homo sapiens

UniProt ID:P0CG48 Pfam ID:PF00240

Ligand Molecules

ACT

EDO

PEG

Primary Citation

Conformational selection of ubiquitin quaternary structures driven by zinc ions.

Fermani, S, Falini, G, Calvaresi, M, Bottoni, A, Calo, V, Mangini, V, Arnesano, F, Natile, G, Arnesano, F, Belviso, B.D, Caliandro, R, Falini, G, Fermani, S, Natile, G, Siliqi, D, Falini, G, Fermani, S, Tosi, G, Arnesano, F, Natile, G.Show

Chemistry 19 15480 15484 (2013)

PMID: 24123543 DOI: 10.1002/chem.201302229

Abstact

Zinc ions bridging two ubiquitin molecules (with His68 at the interface) contribute to select a subset of conformers from the noncovalent dimer ensemble, thus restricting quaternary structure dynamics, which hampers apo-protein crystallization. The type of selected conformer is shown to determine the crystal packing, which varies from orthorhombic to cubic symmetry.

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Primary Citation of related structures