2ZPP

Neutron crystal structure of cubic insulin at pD9


Experimental Data Snapshot

  • Method: NEUTRON DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

An abnormal pK(a) value of internal histidine of the insulin molecule revealed by neutron crystallographic analysis

Ishikawa, T.Chatake, T.Morimoto, Y.Maeda, M.Kurihara, K.Tanaka, I.Niimura, N.

(2008) Biochem.Biophys.Res.Commun. 376: 32-35

  • DOI: 10.1016/j.bbrc.2008.08.071

  • PubMed Abstract: 
  • Insulin is stored in pancreatic beta-cell as hexameric form with Zn2+ ions, while the hormonally active form is monomer. The hexamer requires the coordination of Zn2+ ions to the HisB10. In order to reveal the mechanism of the hexamerization of insul ...

    Insulin is stored in pancreatic beta-cell as hexameric form with Zn2+ ions, while the hormonally active form is monomer. The hexamer requires the coordination of Zn2+ ions to the HisB10. In order to reveal the mechanism of the hexamerization of insulin, we investigated the Zn2+ free insulin at pD6.6 and pD9 by neutron crystallographic analyses. HisB10 is doubly protonated not only at pD6.6 but also at pD9, indicating an abnormal pK(a) of this histidine. It is suggested that HisB10 acts on a strong cation capture and contributes to the high stability of the hexameric form in pancreas.


    Organizational Affiliation

    Kyoto University Research Reactor, Asashironishi 2, Kumatori, Osaka 590-0494, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Insulin A chain
A
21Sus scrofaMutation(s): 0 
Gene Names: INS
Find proteins for P01315 (Sus scrofa)
Go to Gene View: INS
Go to UniProtKB:  P01315
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Insulin B chain
B
30Sus scrofaMutation(s): 0 
Gene Names: INS
Find proteins for P01315 (Sus scrofa)
Go to Gene View: INS
Go to UniProtKB:  P01315
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DOD
Query on DOD

Download SDF File 
Download CCD File 
A, B
DEUTERATED WATER
D2 O
XLYOFNOQVPJJNP-ZSJDYOACSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: NEUTRON DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.221 
Software Package:
Software NamePurpose
SCALEPACKdata scaling
CNSrefinement
CNSphasing
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-10-28
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Non-polymer description, Version format compliance
  • Version 1.2: 2013-08-21
    Type: Other
  • Version 1.3: 2018-03-07
    Type: Data collection