1JK6

UNCOMPLEXED DES 1-6 BOVINE NEUROPHYSIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structures of an Unliganded Neurophysin and its Vasopressin Complex: Implications for Binding and Allosteric Mechanisms

Wu, C.K.Hu, B.Rose, J.P.Liu, Z.J.Nguyen, T.L.Zeng, C.Breslow, E.Wang, B.C.

(2003) Protein Sci. 10: 1869-1880

  • DOI: 10.1110/ps.10601
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The structures of des 1-6 bovine neurophysin-II in the unliganded state and as its complex with lysine vasopressin were determined crystallographically at resolutions of 2.4 A and 2.3 A, respectively. The structure of the protein component of the vas ...

    The structures of des 1-6 bovine neurophysin-II in the unliganded state and as its complex with lysine vasopressin were determined crystallographically at resolutions of 2.4 A and 2.3 A, respectively. The structure of the protein component of the vasopressin complex was, with some local differences, similar to that determined earlier of the full-length protein complexed with oxytocin, but relatively large differences, probably intrinsic to the hormones, were observed between the structures of bound oxytocin and bound vasopressin at Gln 4. The structure of the unliganded protein is the first structure of an unliganded neurophysin. Comparison with the liganded state indicated significant binding-induced conformational changes that were the largest in the loop region comprising residues 50-58 and in the 7-10 region. A subtle binding-induced tightening of the subunit interface of the dimer also was shown, consistent with a role for interface changes in neurophysin allosteric mechanism, but one that is probably not predominant. Interface changes are suggested to be communicated from the binding site through the strands of beta-sheet that connect these two regions, in part with mediation by Gly 23. Comparison of unliganded and liganded states additionally reveals that the binding site for the hormone alpha-amino group is largely preformed and accessible in the unliganded state, suggesting that it represents the initial site of hormone protein recognition. The potential molecular basis for its thermodynamic contribution to binding is discussed.


    Related Citations: 
    • Crystal Structure of the Neurophysin-Oxytocin Complex
      Rose, J.P.,Wu, C.K.,Hsiao, C.D.,Breslow, E.,Wang, B.C.
      (1996) Nat.Struct.Mol.Biol. 3: 163
    • Crystals of a Bovine Neurophysin II-Dipeptide Amide Complex
      Yoo, C.S.,Wang, B.C.,Sax, M.,Breslow, E.
      (1979) J.Mol.Biol. 127: 241
    • Crystal Structure of a Bovine Neurophysin II Dipeptide Complex at 2.8 A Determined from the Single-Wavelength Anomalous Scattering Signal of an Incorporated Iodine Atom
      Chen, L.Q.,Rose, J.P.,Breslow, E.,Yang, D.,Chang, W.R.,Furey Jr., W.F.,Sax, M.,Wang, B.C.
      (1991) Proc.Natl.Acad.Sci.USA 88: 4240
    • Crystals of Modified Bovine Neurophysin II
      Rose, J.P.,Yang, D.,Yoo, C.S.,Sax, M.,Breslow, E.,Wang, B.C.
      (1988) Eur.J.Biochem. 174: 145


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University of Georgia, Athens, Georgia 30602, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NEUROPHYSIN 2
A, C
89Bos taurusMutation(s): 0 
Gene Names: AVP
Find proteins for P01180 (Bos taurus)
Go to Gene View: AVP
Go to UniProtKB:  P01180
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.218 
  • Space Group: P 32
Unit Cell:
Length (Å)Angle (°)
a = 48.920α = 90.00
b = 48.920β = 90.00
c = 78.520γ = 120.00
Software Package:
Software NamePurpose
X-PLORrefinement
SCALEPACKdata scaling
DENZOdata reduction
AMoREphasing
bioteXdata collection
bioteXdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-04-29
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-04
    Type: Refinement description