PDBsum entry 2ko3

Signaling protein

PDB id: 2ko3

Contents

Protein chain

76 a.a. *

* Residue conservation analysis

PDB id:

2ko3

Name:

Signaling protein

Title:

Nedd8 solution structure

Structure:

Nedd8. Chain: a. Synonym: ubiquitin-like protein nedd8, neddylin, neural precursor cell expressed developmentally down-regulated protein 8, nedd-8. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: nedd8. Expressed in: escherichia coli. Expression_system_taxid: 562.

NMR struc:

20 models

Authors:

Y.S.Choi,Y.H.Jeon,C.Cheong

Key ref:

Y.S.Choi et al. (2009). 60th residues of ubiquitin and Nedd8 are located out of E2-binding surfaces, but are important for K48 ubiquitin-linkage. Febs Lett, 583, 3323-3328. PubMed id: 19782077

Date:

09-Sep-09 Release date: 03-Nov-09

Protein chain

Q15843  (NEDD8_HUMAN) -  NEDD8 from Homo sapiens

Seq: 81 a.a.

Struc: 76 a.a.

Enzyme reactions

• Enzyme class: E.C.?

Febs Lett 583:3323-3328 (2009)

PubMed id: 19782077

60th residues of ubiquitin and Nedd8 are located out of E2-binding surfaces, but are important for K48 ubiquitin-linkage.

Y.S.Choi, Y.H.Jeon, K.S.Ryu, C.Cheong.

ABSTRACT

Nedd8, a ubiquitin-like modifier, is covalently attached to various proteins. Although Nedd8 has higher sequence identity (57%) with ubiquitin, its conserved K48 residue cannot form covalent linkage with ubiquitin. To decipher the reason why Nedd8 cannot be an effective ubiquitin-acceptor, we compared the non-covalent interaction between Nedd8 and ubiquitin for various E2s using cross-saturation NMR technique. However, both Nedd8 and ubiquitin displayed almost identical non-covalent E2-binding properties. The K60 of Nedd8 was not present at the E2-binding surface, but its mutation to Asn converted Nedd8 into a ubiquitin-acceptor. The N60 ubiquitin mutants also displayed a decreased ubiquitin-accepting activity. These results suggest the presence of an uncharacterized determinant for the K48 ubiquitin-linkage that is not related to non-covalent E2-bindings.