2NLU

Domain-Swapped Dimer of the PWWP Module of Human Hepatoma-derived Growth Factor


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 16 
  • Selection Criteria: The submitted structures are the 16 structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

PWWP module of human hepatoma-derived growth factor forms a domain-swapped dimer with much higher affinity for heparin

Sue, S.C.Lee, W.T.Tien, S.C.Lee, S.C.Yu, J.G.Wu, W.J.Wu, W.G.Huang, T.H.

(2007) J Mol Biol 367: 456-472

  • DOI: 10.1016/j.jmb.2007.01.010
  • Primary Citation of Related Structures:  
    2NLU

  • PubMed Abstract: 
  • Hepatoma-derived growth factor (hHDGF)-related proteins (HRPs) comprise a new growth factor family sharing a highly conserved and ordered N-terminal PWWP module (residues 1-100, previously referred to as a HATH domain) and a variable disordered C-terminal domain ...

    Hepatoma-derived growth factor (hHDGF)-related proteins (HRPs) comprise a new growth factor family sharing a highly conserved and ordered N-terminal PWWP module (residues 1-100, previously referred to as a HATH domain) and a variable disordered C-terminal domain. We have shown that the PWWP module is responsible for heparin binding and have solved its structure in solution. Here, we show that under physiological conditions, both the PWWP module and hHDGF can form dimers. Surface plasmon resonance (SPR) studies revealed that the PWWP dimer binds to heparin with affinity that is two orders of magnitude higher (K(d)=13 nM) than that of the monomeric PWWP module (K(d)=1.2 microM). The monomer-dimer equilibrium properties and NMR structural data together suggest that the PWWP dimer is formed through a domain-swapping mechanism. The domain-swapped PWWP dimer structures were calculated on the basis of the NMR data. The results show that the two PWWP protomers exchange their N-terminal hairpin to form a domain-swapped dimer. The two monomers in a dimer are linked by the long flexible L2 loops, a feature supported by NMR relaxation data for the monomer and dimer. The enhanced heparin-binding affinity of the dimer can be rationalized in the framework of the dimer structure.


    Organizational Affiliation

    Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan, R.O.C.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Hepatoma-derived growth factorA, B100Homo sapiensMutation(s): 0 
Gene Names: HDGFHMG1L2
UniProt & NIH Common Fund Data Resources
Find proteins for P51858 (Homo sapiens)
Explore P51858 
Go to UniProtKB:  P51858
PHAROS:  P51858
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP51858
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 16 
  • Selection Criteria: The submitted structures are the 16 structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-09-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2022-03-16
    Changes: Data collection, Database references, Derived calculations