Biological Assembly 1  

 3D View: Structure | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 17.15 kDa 
• Atom Count: 1148 
• Modelled Residue Count: 144 
• Deposited Residue Count: 152 
• Unique protein chains: 1

2MBO

K11-linked Diubiquitin average solution structure at pH 6.8, 0 mM NaCl

• DOI: 10.2210/pdb2MBO/pdb
• BMRB: 19406

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-08-02 Released: 2013-09-04 
• Deposition Author(s): Castaneda, C.A., Fushman, D.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 1 
• Conformers Submitted: 1 
• Selection Criteria: target function 

Literature

Unique structural, dynamical, and functional properties of k11-linked polyubiquitin chains.

Castaneda, C.A., Kashyap, T.R., Nakasone, M.A., Krueger, S., Fushman, D.

(2013) Structure 21: 1168-1181

• PubMed: 23823328 
• DOI: 10.1016/j.str.2013.04.029
• Primary Citation of Related Structures:  
  2MBO, 2MBQ


• PubMed Abstract: 
  

K11-linked polyubiquitin chains play important signaling and regulatory roles in both degradative and nonproteolytic pathways in eukaryotes. To understand the structural basis of how these chains are recognized and distinguished from other polyubiquitins, we determined solution structures of K11-linked diubiquitin (K11-Ub2) in the absence and presence of salt. These structures reveal that K11-Ub2 adopts conformations distinct from those of K48-linked or K63-linked chains. Importantly, our solution NMR and SANS data are inconsistent with published crystal structures of K11-Ub2. We found that increasing salt concentration compacts K11-Ub2 and strengthens interactions between the two Ub units. Binding studies indicate that K11-Ub2 interacts with ubiquitin-receptor proteins from both proteasomal and nonproteasomal pathways but with intermediate affinity and different binding modes than either K48-linked or K63-linked diubiquitin. Our data support the hypothesis that polyubiquitin chains of different linkages possess unique conformational and dynamical properties, allowing them to be recognized differently by downstream receptor proteins.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, Center for Biomolecular Structure and Organization, University of Maryland, College Park, MD 20742, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin	A, B	76	Homo sapiens	Mutation(s): 0  Gene Names: UBC
UniProt & NIH Common Fund Data Resources
Find proteins for P0CG48 (Homo sapiens) Explore P0CG48  Go to UniProtKB:  P0CG48
PHAROS:  P0CG48

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 1 
• Conformers Submitted: 1 
• Selection Criteria: target function 
• OLDERADO: 2MBO Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-08-02 
• Released Date: 2013-09-04 
Deposition Author(s): Castaneda, C.A., Fushman, D.

Revision History  

• Version 1.0: 2013-09-04
  Type: Initial release