Biological Assembly 1  

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 8576.83 
• Atom Count: 602 
• Residue Count: 76 
• Unique protein chains: 1

2LJ5

Description of the Structural fluctuations of proteins from structure-based calculations of Residual dipolar couplings

• DOI: 10.2210/pdb2LJ5/pdb
• BMRB: 17919

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2011-09-06 Released: 2012-07-18 
• Deposition Author(s): De Simone, A., Montalvao, R., Vendruscolo, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 321 
• Conformers Submitted: 301 
• Selection Criteria: structures with acceptable covalent geometry 

Literature

Determination of structural fluctuations of proteins from structure-based calculations of residual dipolar couplings.

Montalvao, R.W., De Simone, A., Vendruscolo, M.

(2012) J.Biomol.Nmr 53: 281-292

• PubMed: 22729708 
• DOI: 10.1007/s10858-012-9644-3


• PubMed Abstract: 
  

Residual dipolar couplings (RDCs) have the potential of providing detailed information about the conformational fluctuations of proteins. It is very challenging, however, to extract such information because of the complex relationship between RDCs and protein structures. A promising approach to decode this relationship involves structure-based calculations of the alignment tensors of protein conformations. By implementing this strategy to generate structural restraints in molecular dynamics simulations we show that it is possible to extract effectively the information provided by RDCs about the conformational fluctuations in the native states of proteins. The approach that we present can be used in a wide range of alignment media, including Pf1, charged bicelles and gels. The accuracy of the method is demonstrated by the analysis of the Q factors for RDCs not used as restraints in the calculations, which are significantly lower than those corresponding to existing high-resolution structures and structural ensembles, hence showing that we capture effectively the contributions to RDCs from conformational fluctuations.

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Organizational Affiliation: 

Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Ubiquitin	A	76	Homo sapiens	Mutation(s): 0  Gene Names: UBA52 (UBCEP2)
Find proteins for P62987 (Homo sapiens) Go to Gene View: UBA52 Go to UniProtKB:  P62987

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 321 
• Conformers Submitted: 301 
• Selection Criteria: structures with acceptable covalent geometry 
• Olderado: 2LJ5 Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-09-06 
• Released Date: 2012-07-18 
• Deposition Author(s): De Simone, A., Montalvao, R., Vendruscolo, M.

Revision History 

• Version 1.0: 2012-07-18
  Type: Initial release
• Version 1.1: 2012-08-08
  Type: Database references