1JGN

Solution structure of the C-terminal PABC domain of human poly(A)-binding protein in complex with the peptide from Paip2

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 30 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

Structural basis of ligand recognition by PABC, a highly specific peptide-binding domain found in poly(A)-binding protein and a HECT ubiquitin ligase

Kozlov, G., De Crescenzo, G., Lim, N.S., Siddiqui, N., Fantus, D., Kahvejian, A., Trempe, J.F., Elias, D., Ekiel, I., Sonenberg, N., O'Connor-McCourt, M., Gehring, K.

(2004) EMBO J 23: 272-281

  • DOI: 10.1038/sj.emboj.7600048
  • Primary Citation of Related Structures:  
    1JGN, 1JH4

  • PubMed Abstract: 

    • The C-terminal domain of poly(A)-binding protein (PABC) is a peptide-binding domain found in poly(A)-binding proteins (PABPs) and a HECT (homologous to E6-AP C-terminus) family E3 ubiquitin ligase. In protein synthesis, the PABC domain of PABP functions to recruit several translation factors possessing the PABP-interacting motif 2 (PAM2) to the mRNA poly(A) tail ...

    The C-terminal domain of poly(A)-binding protein (PABC) is a peptide-binding domain found in poly(A)-binding proteins (PABPs) and a HECT (homologous to E6-AP C-terminus) family E3 ubiquitin ligase. In protein synthesis, the PABC domain of PABP functions to recruit several translation factors possessing the PABP-interacting motif 2 (PAM2) to the mRNA poly(A) tail. We have determined the solution structure of the human PABC domain in complex with two peptides from PABP-interacting protein-1 (Paip1) and Paip2. The structures show a novel mode of peptide recognition, in which the peptide binds as a pair of beta-turns with extensive hydrophobic, electrostatic and aromatic stacking interactions. Mutagenesis of PABC and peptide residues was used to identify key protein-peptide interactions and quantified by isothermal calorimetry, surface plasmon resonance and GST pull-down assays. The results provide insight into the specificity of PABC in mediating PABP-protein interactions.

    Related Citations: 
    • Structure and function of the C-terminal PABC domain of human poly(A)-binding protein
      Kozlov, G., Trempe, J.F., Khaleghpour, K., Kahvejian, A., Ekiel, I., Gehring, K.
      (2001) Proc Natl Acad Sci U S A 98: 4409
    Organizational Affiliation: 

    Department of Biochemistry, McGill University, 3655 Promenade Sir William Osler, Montreal, Quebec, Canada.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
polyadenylate-binding protein 1A98Homo sapiensMutation(s): 0 
Gene Names: PABPC1, PAB1, PABP, PABP1, PABPC2
UniProt & NIH Common Fund Data Resources
Find proteins for P11940 (Homo sapiens)
Explore P11940 
Go to UniProtKB:  P11940
PHAROS:  P11940
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP11940
Protein Feature View
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  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
polyadenylate-binding protein-interacting protein 2B22Homo sapiensMutation(s): 0 
Gene Names: PAIP2, PAIP2A, HSPC218
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BPZ3 (Homo sapiens)
Explore Q9BPZ3 
Go to UniProtKB:  Q9BPZ3
PHAROS:  Q9BPZ3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BPZ3
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 30 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 1JGN Olderado

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-06-24
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-02-23
    Changes: Data collection, Database references, Derived calculations