Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Hetero 12-mer - A6B6 Pseudo Symmetry: Cyclic - C3  (3D View)
Pseudo Stoichiometry: Hetero 12-mer - A6B3C3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 11.71 kDa 
• Atom Count: 902 
• Modelled Residue Count: 102 
• Deposited Residue Count: 102 
• Unique protein chains: 2

3FHP

A neutron crystallographic analysis of a porcine 2Zn insulin at 2.0 A resolution

• PDB DOI: 10.2210/pdb3FHP/pdb

• Classification: HORMONE
• Organism(s): Sus scrofa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-12-09 Released: 2009-10-20 
• Deposition Author(s): Iwai, W., Kurihara, K., Yamada, T., Kobayashi, Y., Ohnishi, Y., Tanaka, I., Takahashi, H., Niimura, N.

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Experimental Data Snapshot

• Method: NEUTRON DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.247 
• R-Value Work: 0.168 
• R-Value Observed: 0.168 

Literature

A neutron crystallographic analysis of T6 porcine insulin at 2.1 A resolution

Iwai, W., Yamada, T., Kurihara, K., Ohnishi, Y., Kobayashi, Y., Tanaka, I., Takahashi, H., Kuroki, R., Tamada, T., Niimura, N.

(2009) Acta Crystallogr D Biol Crystallogr 65: 1042-1050

• PubMed: 19770501 
• DOI: 10.1107/S090744490902770X
• Primary Citation of Related Structures:  
  3FHP


• PubMed Abstract: 
  

Neutron diffraction data for T(6) porcine insulin were collected to 2.1 A resolution from a single crystal partly deuterated by exchange of mother liquor. A maximum-likelihood structure refinement was undertaken using the neutron data and the structure was refined to a residual of 0.179. The hydrogen-bonding network of the central core of the hexamer was observed and the charge balance between positively charged Zn ions and their surrounding structure was interpreted by considering the protonation and/or deprotonation states and interactions of HisB10, water and GluB13. The observed double conformation of GluB13 was essential to interpreting the charge balance and could be compared with the structure of a dried crystal of T(6) human insulin at 100 K. Differences in the dynamic behaviour of the water molecules coordinating the upper and lower Zn ions were observed and interpreted. The hydrogen bonds in the insulin molecules, as well as those involving HisB10 and GluB13, are discussed. The hydrogen/deuterium (H/D) exchange ratios of the amide H atoms of T(6) porcine insulin in crystals were obtained and showed that regions highly protected from H/D exchange are concentrated in the centre of a helical region of the B chains. From the viewpoint of soaking time versus H/D-exchange ratios, the amide H atoms can be classified into three categories.

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Organizational Affiliation: 

Graduate School of Science and Engineering, Ibaraki University, Hitachi, Ibaraki 316-8511, Japan.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin	A, C	21	Sus scrofa	Mutation(s): 0  Gene Names: INS
UniProt
Find proteins for P01315 (Sus scrofa) Explore P01315  Go to UniProtKB:  P01315

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin	B, D	30	Sus scrofa	Mutation(s): 0  Gene Names: INS
UniProt
Find proteins for P01315 (Sus scrofa) Explore P01315  Go to UniProtKB:  P01315

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	E [auth B], F [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: NEUTRON DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.247 
• R-Value Work: 0.168 
• R-Value Observed: 0.168 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.849	α = 90
b = 82.849	β = 90
c = 34.173	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
XFIT	data reduction
CNS	refinement
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-12-09 
• Released Date: 2009-10-20 
Deposition Author(s): Iwai, W., Kurihara, K., Yamada, T., Kobayashi, Y., Ohnishi, Y., Tanaka, I., Takahashi, H., Niimura, N.

Revision History  

• Version 1.0: 2009-10-20
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2013-08-21
  Changes: Other
• Version 1.3: 2018-03-07
  Changes: Data collection
• Version 1.4: 2018-06-13
  Changes: Data collection
• Version 1.5: 2018-07-18
  Changes: Data collection